Publications for All Faculty

T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation.

Biton M, Haber AL, Rogel N, Burgin G, Beyaz S, Schnell A, Ashenberg O, Su CW, Smillie C, Shekhar K, Chen Z, Wu C, Ordovas-Montanes J, Alvarez D, Herbst RH, Zhang M, Tirosh I, Dionne D, Nguyen LT, Xifaras ME, Shalek AK, von Andrian UH, Graham DB, Rozenblatt-Rosen O, Shi HN, Kuchroo V, Yilmaz OH, Regev A, Xavier RJ
Cell. 2018;175(5):1307-1320.e22 - PMID: 30392957 - PMCID: PMC6239889 - DOI: 10.1016/j.cell.2018.10.008

High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects.

Kleinstiver BP, Pattanayak V, Prew MS, Tsai SQ, Nguyen NT, Zheng Z, Joung JK
Nature. 2016;529(7587):490-5 - PMID: 26735016 - PMCID: PMC4851738 - DOI: 10.1038/nature16526

The human gut microbiome in early-onset type 1 diabetes from the TEDDY study.

Vatanen T, Franzosa EA, Schwager R, Tripathi S, Arthur TD, Vehik K, Lernmark Å, Hagopian WA, Rewers MJ, She JX, Toppari J, Ziegler AG, Akolkar B, Krischer JP, Stewart CJ, Ajami NJ, Petrosino JF, Gevers D, Lähdesmäki H, Vlamakis H, Huttenhower C, Xavier RJ
Nature. 2018;562(7728):589-594 - PMID: 30356183 - DOI: 10.1038/s41586-018-0620-2

Antigen discovery and specification of immunodominance hierarchies for MHCII-restricted epitopes.

Graham DB, Luo C, O'Connell DJ, Lefkovith A, Brown EM, Yassour M, Varma M, Abelin JG, Conway KL, Jasso GJ, Matar CG, Carr SA, Xavier RJ
Nat Med. 2018;24(11):1762-1772 - PMID: 30349087 - DOI: 10.1038/s41591-018-0203-7

Catalysis of Template-directed Nonenzymatic RNA Copying by Iron (II).

Jin L, Engelhart AE, Zhang W, Adamala KP, Szostak JW
J Am Chem Soc. 2018;140(44):15016-15021 - PMID: 30335371 - DOI: 10.1021/jacs.8b09617

GPR108, an NF-κB activator suppressed by TIRAP, negatively regulates TLR-triggered immune responses.

Dong D, Zhou H, Na SY, Niedra R, Peng Y, Wang H, Seed B, Zhou GL
PLoS One. 2018;13(10):e0205303 - PMID: 30332431 - PMCID: PMC6192633 - DOI: 10.1371/journal.pone.0205303

Dual CLAVATA3 Peptides in Arabidopsis Shoot Stem Cell Signaling.

Kim HJ, Wu CY, Yu HM, Sheen J, Lee H
J Plant Biol. 2017;60(5):506-512 - PMID: 30310351 - PMCID: PMC6176727 - DOI: 10.1007/s12374-017-0083-2

Discovery of heterocyclic replacements for the coumarin core of anti-tubercular FadD32 inhibitors.

Fang C, Lee KK, Nietupski R, Bates RH, Fernandez-Menendez R, Lopez-Roman EM, Guijarro-Lopez L, Yin Y, Peng Z, Gomez JE, Fisher S, Barros-Aguirre D, Hubbard BK, Serrano-Wu MH, Hung DT
Bioorg Med Chem Lett. 2018;28(22):3529-3533 - PMID: 30316633 - PMCID: PMC6233306 - DOI: 10.1016/j.bmcl.2018.09.037

Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course.

Schirmer M, Denson L, Vlamakis H, Franzosa EA, Thomas S, Gotman NM, Rufo P, Baker SS, Sauer C, Markowitz J, Pfefferkorn M, Oliva-Hemker M, Rosh J, Otley A, Boyle B, Mack D, Baldassano R, Keljo D, LeLeiko N, Heyman M, Griffiths A, Patel AS, Noe J, Kugathasan S, Walters T, Huttenhower C, Hyams J, Xavier RJ
Cell Host Microbe. 2018;24(4):600-610.e4 - PMID: 30308161 - DOI: 10.1016/j.chom.2018.09.009

Endoplasmic Reticulum Homeostasis Is Modulated by the Forkhead Transcription Factor FKH-9 During Infection of Caenorhabditis elegans.

Tillman EJ, Richardson CE, Cattie DJ, Reddy KC, Lehrbach NJ, Droste R, Ruvkun G, Kim DH
Genetics. 2018;210(4):1329-1337 - PMID: 30287474 - DOI: 10.1534/genetics.118.301450

In vivo CRISPR editing with no detectable genome-wide off-target mutations.

Akcakaya P, Bobbin ML, Guo JA, Malagon-Lopez J, Clement K, Garcia SP, Fellows MD, Porritt MJ, Firth MA, Carreras A, Baccega T, Seeliger F, Bjursell M, Tsai SQ, Nguyen NT, Nitsch R, Mayr LM, Pinello L, Bohlooly-Y M, Aryee MJ, Maresca M, Joung JK
Nature. 2018;561(7723):416-419 - PMID: 30209390 - PMCID: PMC6194229 - DOI: 10.1038/s41586-018-0500-9

Tracing My Roots: How I Became a Plant Biologist.

Ausubel FM
Annu Rev Genet. 2018;52:1-20 - PMID: 30192637 - DOI: 10.1146/annurev-genet-120417-031722

Protocells and RNA Self-Replication.

Joyce GF, Szostak JW
Cold Spring Harb Perspect Biol. 2018;10(9):ePub - PMID: 30181195 - DOI: 10.1101/cshperspect.a034801

Salt-Inducible Kinases: Physiology, Regulation by cAMP, and Therapeutic Potential.

Wein MN, Foretz M, Fisher DE, Xavier RJ, Kronenberg HM
Trends Endocrinol Metab. 2018;29(10):723-735 - PMID: 30150136 - PMCID: PMC6151151 - DOI: 10.1016/j.tem.2018.08.004

Discovery and Optimization of nTZDpa as an Antibiotic Effective Against Bacterial Persisters.

Kim W, Steele AD, Zhu W, Csatary EE, Fricke N, Dekarske MM, Jayamani E, Pan W, Kwon B, Sinitsa IF, Rosen JL, Conery AL, Fuchs BB, Vlahovska PM, Ausubel FM, Gao H, Wuest WM, Mylonakis E
ACS Infect Dis. 2018;4(11):1540-1545 - PMID: 30132650 - DOI: 10.1021/acsinfecdis.8b00161

TMEM41B is a novel regulator of autophagy and lipid mobilization.

Moretti F, Bergman P, Dodgson S, Marcellin D, Claerr I, Goodwin JM, DeJesus R, Kang Z, Antczak C, Begue D, Bonenfant D, Graff A, Genoud C, Reece-Hoyes JS, Russ C, Yang Z, Hoffman GR, Mueller M, Murphy LO, Xavier RJ, Nyfeler B
EMBO Rep. 2018;19(9):ePub - PMID: 30126924 - PMCID: PMC6123663 - DOI: 10.15252/embr.201845889

Carbapenem resistance caused by high-level expression of OXA-663 β-lactamase in an OmpK36-deficient Klebsiella pneumoniae clinical isolate.

Ma P, Laibinis HH, Ernst CM, Hung DT
Antimicrob Agents Chemother. 2018;62(11):ePub - PMID: 30126962 - PMCID: PMC6201135 - DOI: 10.1128/AAC.01281-18

Harnessing CRISPR Effectors for Infectious Disease Diagnostics.

Bhattacharyya RP, Thakku SG, Hung DT
ACS Infect Dis. 2018;4(9):1278-1282 - PMID: 30113801 - DOI: 10.1021/acsinfecdis.8b00170

Acceleration profiles and processing methods for parabolic flight.

Carr CE, Bryan NC, Saboda KN, Bhattaru SA, Ruvkun G, Zuber MT
NPJ Microgravity. 2018;4:14 - PMID: 30109261 - PMCID: PMC6081456 - DOI: 10.1038/s41526-018-0050-3

Sequencing nothing: Exploring failure modes of nanopore sensing and implications for life detection.

Pontefract A, Hachey J, Zuber MT, Ruvkun G, Carr CE
Life Sci Space Res (Amst). 2018;18:80-86 - PMID: 30100151 - DOI: 10.1016/j.lssr.2018.05.004

Impaired Aryl Hydrocarbon Receptor Ligand Production by the Gut Microbiota Is a Key Factor in Metabolic Syndrome.

Natividad JM, Agus A, Planchais J, Lamas B, Jarry AC, Martin R, Michel ML, Chong-Nguyen C, Roussel R, Straube M, Jegou S, McQuitty C, Le Gall M, da Costa G, Lecornet E, Michaudel C, Modoux M, Glodt J, Bridonneau C, Sovran B, Dupraz L, Bado A, Richard ML, Langella P, Hansel B, Launay JM, Xavier RJ, Duboc H, Sokol H
Cell Metab. 2018;28(5):737-749.e4 - PMID: 30057068 - DOI: 10.1016/j.cmet.2018.07.001

An APOBEC3A-Cas9 base editor with minimized bystander and off-target activities.

Gehrke JM, Cervantes O, Clement MK, Wu Y, Zeng J, Bauer DE, Pinello L, Joung JK
Nat Biotechnol. 2018;36(10):977-982 - PMID: 30059493 - PMCID: PMC6181770 - DOI: 10.1038/nbt.4199

Nitric Oxide Engages an Anti-inflammatory Feedback Loop Mediated by Peroxiredoxin 5 in Phagocytes.

Graham DB, Jasso GJ, Mok A, Goel G, Ng ACY, Kolde R, Varma M, Doench JG, Root DE, Clish CB, Carr SA, Xavier RJ
Cell Rep. 2018;24(4):838-850 - PMID: 30044981 - PMCID: PMC6156773 - DOI: 10.1016/j.celrep.2018.06.081

Strain-Level Analysis of Mother-to-Child Bacterial Transmission during the First Few Months of Life.

Yassour M, Jason E, Hogstrom LJ, Arthur TD, Tripathi S, Siljander H, Selvenius J, Oikarinen S, Hyöty H, Virtanen SM, Ilonen J, Ferretti P, Pasolli E, Tett A, Asnicar F, Segata N, Vlamakis H, Lander ES, Huttenhower C, Knip M, Xavier RJ
Cell Host Microbe. 2018;24(1):146-154.e4 - PMID: 30001517 - PMCID: PMC6091882 - DOI: 10.1016/j.chom.2018.06.007

Recent Molecular Genetic Explorations of Caenorhabditis elegans MicroRNAs.

Ambros V, Ruvkun G
Genetics. 2018;209(3):651-673 - PMID: 29967059 - PMCID: PMC6028246 - DOI: 10.1534/genetics.118.300291

The causes and consequences of variation in human cytokine production in health.

Schirmer M, Kumar V, Netea MG, Xavier RJ
Curr Opin Immunol. 2018;54:50-58 - PMID: 29913309 - DOI: 10.1016/j.coi.2018.05.012

Crystallographic observation of nonenzymatic RNA primer extension.

Zhang W, Walton T, Li L, Szostak JW
Elife. 2018;7:ePub - PMID: 29851379 - PMCID: PMC5980232 - DOI: 10.7554/eLife.36422

Insights into the genetic epidemiology of Crohn's and rare diseases in the Ashkenazi Jewish population.

Rivas MA, Avila BE, Koskela J, Huang H, Stevens C, Pirinen M, Haritunians T, Neale BM, Kurki M, Ganna A, Graham D, Glaser B, Peter I, Atzmon G, Barzilai N, Levine AP, Schiff E, Pontikos N, Weisburd B, Lek M, Karczewski KJ, Bloom J, Minikel EV, Petersen BS, Beaugerie L, Seksik P, Cosnes J, Schreiber S, Bokemeyer B, Bethge J, International IBD Genetics Consortium, NIDDK IBD Genetics Consortium, T2D-GENES Consortium, Heap G, Ahmad T, Plagnol V, Segal AW, Targan S, Turner D, Saavalainen P, Farkk ...
PLoS Genet. 2018;14(5):e1007329 - PMID: 29795570 - PMCID: PMC5967709 - DOI: 10.1371/journal.pgen.1007329

Integration of multi-omics data and deep phenotyping enables prediction of cytokine responses.

Bakker OB, Aguirre-Gamboa R, Sanna S, Oosting M, Smeekens SP, Jaeger M, Zorro M, Võsa U, Withoff S, Netea-Maier RT, Koenen HJPM, Joosten I, Xavier RJ, Franke L, Joosten LAB, Kumar V, Wijmenga C, Netea MG, Li Y
Nat Immunol. 2018;19(7):776-786 - PMID: 29784908 - PMCID: PMC6022810 - DOI: 10.1038/s41590-018-0121-3

The surveillance of pre-mRNA splicing is an early step in C. elegans RNAi of endogenous genes.

Newman MA, Ji F, Fischer SEJ, Anselmo A, Sadreyev RI, Ruvkun G
Genes Dev. 2018;32(9-10):670-681 - PMID: 29739806 - PMCID: PMC6004069 - DOI: 10.1101/gad.311514.118

Genetic Markers Predict Primary Nonresponse and Durable Response to Anti-Tumor Necrosis Factor Therapy in Ulcerative Colitis.

Burke KE, Khalili H, Garber JJ, Haritunians T, McGovern DPB, Xavier RJ, Ananthakrishnan AN
Inflamm Bowel Dis. 2018;24(8):1840-1848 - PMID: 29718226 - PMCID: PMC6128143 - DOI: 10.1093/ibd/izy083

Platelet transfusion increases risk for acute respiratory distress syndrome in non-massively transfused blunt trauma patients.

Kasotakis G, Starr N, Nelson E, Sarkar B, Burke PA, Remick DG, Tompkins RG, Inflammation and Host Response to Injury Investigators
Eur J Trauma Emerg Surg. 2018;:ePub - PMID: 29627883 - DOI: 10.1007/s00068-018-0953-4

Without Adaptive Immunity, There's a Cost to Responding STAT.

Brown EM, Xavier RJ
Cell Metab. 2018;27(4):705-707 - PMID: 29617636 - DOI: 10.1016/j.cmet.2018.03.011

Copying of mixed sequence RNA templates inside model protocells.

O'Flaherty DK, Kamat NP, Mirza FN, Li L, Prywes N, Szostak JW
J Am Chem Soc. 2018;140(15):5171-5178 - PMID: 29608310 - DOI: 10.1021/jacs.8b00639

Response to "Unexpected mutations after CRISPR-Cas9 editing in vivo".

Lareau CA, Clement K, Hsu JY, Pattanayak V, Joung JK, Aryee MJ, Pinello L
Nat Methods. 2018;15(4):238-239 - PMID: 29600992 - DOI: 10.1038/nmeth.4541

CarrierSeq: a sequence analysis workflow for low-input nanopore sequencing.

Mojarro A, Hachey J, Ruvkun G, Zuber MT, Carr CE
BMC Bioinformatics. 2018;19(1):108 - PMID: 29587645 - PMCID: PMC5872496 - DOI: 10.1186/s12859-018-2124-3

A new class of synthetic retinoid antibiotics effective against bacterial persisters.

Kim W, Zhu W, Hendricks GL, Van Tyne D, Steele AD, Keohane CE, Fricke N, Conery AL, Shen S, Pan W, Lee K, Rajamuthiah R, Fuchs BB, Vlahovska PM, Wuest WM, Gilmore MS, Gao H, Ausubel FM, Mylonakis E
Nature. 2018;556(7699):103-107 - PMID: 29590091 - DOI: 10.1038/nature26157

A common mechanism links activities of butyrate in the colon.

Verma MS, Fink MJ, Salmon GL, Fornelos N, Ohara TE, Ryu SH, Vlamakis H, Xavier RJ, Stappenbeck TS, Whitesides GM
ACS Chem Biol. 2018;13(5):1291-1298 - PMID: 29584955 - DOI: 10.1021/acschembio.8b00073

Preparation, Purification, and Use of Fatty Acid-containing Liposomes.

Jin L, Engelhart AE, Adamala KP, Szostak JW
J Vis Exp. 2018;(132):ePub - PMID: 29553563 - PMCID: PMC5912384 - DOI: 10.3791/57324

Whole-organism phenotypic screening for anti-infectives promoting host health.

Clatworthy AE, Romano KP, Hung DT
Nat Chem Biol. 2018;14(4):331-341 - PMID: 29556098 - DOI: 10.1038/s41589-018-0018-3

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.

Vatanen T, Kostic AD, d'Hennezel E, Siljander H, Franzosa EA, Yassour M, Kolde R, Vlamakis H, Arthur TD, Hämäläinen AM, Peet A, Tillmann V, Uibo R, Mokurov S, Dorshakova N, Ilonen J, Virtanen SM, Szabo SJ, Porter JA, Lähdesmäki H, Huttenhower C, Gevers D, Cullen TW, Knip M, DIABIMMUNE Study Group, Xavier RJ
Cell. 2016;165(4):842-53 - PMID: 27133167 - PMCID: PMC4950857 - DOI: 10.1016/j.cell.2016.04.007

Succinate is an inflammatory signal that induces IL-1β through HIF-1α

Tannahill GM, Curtis AM, Adamik J, Palsson-McDermott EM, McGettrick AF, Goel G, Frezza C, Bernard NJ, Kelly B, Foley NH, Zheng L, Gardet A, Tong Z, Jany SS, Corr SC, Haneklaus M, Caffrey BE, Pierce K, Walmsley S, Beasley FC, Cummins E, Nizet V, Whyte M, Taylor CT, Lin H, Masters SL, Gottlieb E, Kelly VP, Clish C, Auron PE, Xavier RJ, O'Neill LA
Nature. 2013;496(7444):238-42 - PMID: 23535595 - PMCID: PMC4031686 - DOI: 10.1038/nature11986

Ubiquitin Ligase TRIM62 Regulates CARD9-Mediated Anti-fungal Immunity and Intestinal Inflammation.

Cao Z, Conway KL, Heath RJ, Rush JS, Leshchiner ES, Ramirez-Ortiz ZG, Nedelsky NB, Huang H, Ng A, Gardet A, Cheng SC, Shamji AF, Rioux JD, Wijmenga C, Netea MG, Means TK, Daly MJ, Xavier RJ
Immunity. 2015;43(4):715-26 - PMID: 26488816 - PMCID: PMC4672733 - DOI: 10.1016/j.immuni.2015.10.005

TMEM258 Is a Component of the Oligosaccharyltransferase Complex Controlling ER Stress and Intestinal Inflammation

Graham DB, Lefkovith A, Deelen P, de Klein N, Varma M, Boroughs A, Desch AN, Ng ACY, Guzman G, Schenone M, Petersen CP, Bhan AK, Rivas MA, Daly MJ, Carr SA, Wijmenga C, Xavier RJ
Cell Rep. 2016;17(11):2955-2965 - PMID: 27974209 - PMCID: PMC5661940 - DOI: 10.1016/j.celrep.2016.11.042

A single-cell survey of the small intestinal epithelium

Haber AL, Biton M, Rogel N, Herbst RH, Shekhar K, Smillie C, Burgin G, Delorey TM, Howitt MR, Katz Y, Tirosh I, Beyaz S, Dionne D, Zhang M, Raychowdhury R, Garrett WS, Rozenblatt-Rosen O, Shi HN, Yilmaz O, Xavier RJ, Regev A
Nature. 2017;:ePub

Quorum-sensing regulator RhlR but not its autoinducer RhlI enablesPseudomonasto evade opsonization.

Haller S, Franchet A, Hakkim A, Chen J, Drenkard E, Yu S, Schirmeier S, Li Z, Martins N, Ausubel FM, Liégeois S, Ferrandon D
EMBO Rep. 2018;19(5):ePub - PMID: 29523648 - PMCID: PMC5934776 - DOI: 10.15252/embr.201744880

Fatty Acid/Phospholipid Blended Membranes: A Potential Intermediate State in Protocellular Evolution.

Jin L, Kamat NP, Jena S, Szostak JW
Small. 2018;14(15):e1704077 - PMID: 29479815 - PMCID: PMC6278924 - DOI: 10.1002/smll.201704077

Strain Tracking Reveals the Determinants of Bacterial Engraftment in the Human Gut Following Fecal Microbiota Transplantation.

Smillie CS, Sauk J, Gevers D, Friedman J, Sung J, Youngster I, Hohmann EL, Staley C, Khoruts A, Sadowsky MJ, Allegretti JR, Smith MB, Xavier RJ, Alm EJ
Cell Host Microbe. 2018;23(2):229-240.e5 - PMID: 29447696 - DOI: 10.1016/j.chom.2018.01.003

Both live and dead Enterococci activate Caenorhabditis elegans host defense via immune and stress pathways.

Yuen GJ, Ausubel FM
Virulence. 2018;9(1):0 - PMID: 29436902 - PMCID: PMC5955442 - DOI: 10.1080/21505594.2018.1438025

C1orf106 is a colitis risk gene that regulates stability of epithelial adherens junctions.

Mohanan V, Nakata T, Desch AN, Lévesque C, Boroughs A, Guzman G, Cao Z, Creasey E, Yao J, Boucher G, Charron G, Bhan AK, Schenone M, Carr SA, Reinecker HC, Daly MJ, Rioux JD, Lassen KG, Xavier RJ
Science. 2018;359(6380):1161-1166 - PMID: 29420262 - PMCID: PMC6008784 - DOI: 10.1126/science.aan0814

A structural rationale for the enhanced catalysis of nonenzymatic RNA primer extension by a downstream oligonucleotide.

Zhang W, Tam CP, Zhou L, Oh SS, Wang J, Szostak JW
J Am Chem Soc. 2018;140(8):2829-2840 - PMID: 29411978 - DOI: 10.1021/jacs.7b11750

The expanding diversity of Mycobacterium tuberculosis drug targets.

Wellington S, Hung DT
ACS Infect Dis. 2018;4(5):696-714 - PMID: 29412643 - DOI: 10.1021/acsinfecdis.7b00255

Host genetic variation and its microbiome interactions within the Human Microbiome Project.

Kolde R, Franzosa EA, Rahnavard G, Hall AB, Vlamakis H, Stevens C, Daly MJ, Xavier RJ, Huttenhower C
Genome Med. 2018;10(1):6 - PMID: 29378630 - PMCID: PMC5789541 - DOI: 10.1186/s13073-018-0515-8

Loss of Response to Anti-Tumor Necrosis Factor Alpha Therapy in Crohn's Disease Is Not Associated with Emergence of Novel Inflammatory Pathways.

Luther J, Gala M, Patel SJ, Dave M, Borren N, Xavier RJ, Ananthakrishnan AN
Dig Dis Sci. 2018;63(3):738-745 - PMID: 29372477 - PMCID: PMC6152907 - DOI: 10.1007/s10620-018-4932-8

Genomic and expression analyses identify a disease modifying variant for fibrostenotic Crohn's disease.

Visschedijk MC, Spekhorst LM, Cheng SC, van Loo ES, Jansen BHD, Blokzijl T, Kil H, de Jong DJ, Pierik M, Maljaars JPWJ, van der Woude CJ, van Bodegraven AA, Oldenburg B, Löwenberg M, Nieuwenhuijs VB, Imhann F, van Sommeren S, Alberts R, Xavier RJ, Dijkstra G, Faber KN, Aldaz CM, Weersma RK, Festen EAM
J Crohns Colitis. 2018;12(5):582-588 - PMID: 29361163 - DOI: 10.1093/ecco-jcc/jjy001

Influence of multiplicative stochastic variation on translational elongation rates.

Datta S, Seed B
PLoS One. 2018;13(1):e0191152 - PMID: 29351322 - PMCID: PMC5774726 - DOI: 10.1371/journal.pone.0191152

Solvated-electron production using cyanocuprates is compatible with the UV-environment on a Hadean-Archaean Earth.

Todd ZR, Fahrenbach AC, Magnani CJ, Ranjan S, Björkbom A, Szostak JW, Sasselov DD
Chem Commun (Camb). 2018;54(9):1121-1124 - PMID: 29334083 - DOI: 10.1039/c7cc07748c

Gene therapy comes of age.

Dunbar CE, High KA, Joung JK, Kohn DB, Ozawa K, Sadelain M
Science. 2018;359(6372):ePub - PMID: 29326244 - DOI: 10.1126/science.aan4672

Dynamics of metatranscription in the inflammatory bowel disease gut microbiome.

Schirmer M, Franzosa EA, Lloyd-Price J, McIver LJ, Schwager R, Poon TW, Ananthakrishnan AN, Andrews E, Barron G, Lake K, Prasad M, Sauk J, Stevens B, Wilson RG, Braun J, Denson LA, Kugathasan S, McGovern DPB, Vlamakis H, Xavier RJ, Huttenhower C
Nat Microbiol. 2018;3(3):337-346 - PMID: 29311644 - PMCID: PMC6131705 - DOI: 10.1038/s41564-017-0089-z

Synthesis of a nonhydrolyzable nucleotide phosphoroimidazolide analogue that catalyzes nonenzymatic RNA primer extension.

Tam CP, Zhou L, Fahrenbach AC, Zhang W, Walton T, Szostak JW
J Am Chem Soc. 2017;140(2):783-792 - PMID: 29251930 - DOI: 10.1021/jacs.7b11623

Nodal patterning without Lefty inhibitory feedback is functional but fragile.

Rogers KW, Lord ND, Gagnon JA, Pauli A, Zimmerman S, Aksel DC, Reyon D, Tsai SQ, Joung JK, Schier AF
Elife. 2017;6:ePub - PMID: 29215332 - PMCID: PMC5720593 - DOI: 10.7554/eLife.28785

A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients.

Hall AB, Yassour M, Sauk J, Garner A, Jiang X, Arthur T, Lagoudas GK, Vatanen T, Fornelos N, Wilson R, Bertha M, Cohen M, Garber J, Khalili H, Gevers D, Ananthakrishnan AN, Kugathasan S, Lander ES, Blainey P, Vlamakis H, Xavier RJ, Huttenhower C
Genome Med. 2017;9(1):103 - PMID: 29183332 - PMCID: PMC5704459 - DOI: 10.1186/s13073-017-0490-5

UV-light-driven prebiotic synthesis of iron-sulfur clusters.

Bonfio C, Valer L, Scintilla S, Shah S, Evans DJ, Jin L, Szostak JW, Sasselov DD, Sutherland JD, Mansy SS
Nat Chem. 2017;9(12):1229-1234 - PMID: 29168482 - PMCID: PMC5808832 - DOI: 10.1038/nchem.2817

A potent Cas9-derived gene activator for plant and mammalian cells.

Li Z, Zhang D, Xiong X, Yan B, Xie W, Sheen J, Li JF
Nat Plants. 2017;3(12):930-936 - PMID: 29158545 - PMCID: PMC5894343 - DOI: 10.1038/s41477-017-0046-0

Difference in clinical course, genetics, and the microbiome between familial and sporadic inflammatory bowel diseases.

Borren NZ, Conway G, Garber JJ, Khalili H, Budree S, Mallick H, Yajnik V, Xavier RJ, Ananthakrishnan AN
J Crohns Colitis. 2017;12(5):525-531 - PMID: 29145572 - PMCID: PMC6018966 - DOI: 10.1093/ecco-jcc/jjx154

A role for bacterial urease in gut dysbiosis and Crohn's disease.

Ni J, Shen TD, Chen EZ, Bittinger K, Bailey A, Roggiani M, Sirota-Madi A, Friedman ES, Chau L, Lin A, Nissim I, Scott J, Lauder A, Hoffmann C, Rivas G, Albenberg L, Baldassano RN, Braun J, Xavier RJ, Clish CB, Yudkoff M, Li H, Goulian M, Bushman FD, Lewis JD, Wu GD
Sci Transl Med. 2017;9(416):ePub - PMID: 29141885 - PMCID: PMC5808452 - DOI: 10.1126/scitranslmed.aah6888

A single-cell survey of the small intestinal epithelium.

Haber AL, Biton M, Rogel N, Herbst RH, Shekhar K, Smillie C, Burgin G, Delorey TM, Howitt MR, Katz Y, Tirosh I, Beyaz S, Dionne D, Zhang M, Raychowdhury R, Garrett WS, Rozenblatt-Rosen O, Shi HN, Yilmaz O, Xavier RJ, Regev A
Nature. 2017;551(7680):333-339 - PMID: 29144463 - PMCID: PMC6022292 - DOI: 10.1038/nature24489

Development of Clinical Process Measures for Pediatric Burn Care: Understanding Variation in Practice Patterns.

Kazis LE, Sheridan RL, Shapiro GD, Lee AF, Liang MH, Ryan CM, Schneider JC, Lydon M, Soley-Bori M, Sonis LA, Dore EC, Palmieri T, Herndon D, Meyer W, Warner P, Kagan R, Stoddard FJ, Murphy M, Tompkins RG
J Trauma Acute Care Surg. 2017;84(4):620-627 - PMID: 29140950 - DOI: 10.1097/TA.0000000000001737

Mechanisms and Function of Autophagy in Intestinal Disease.

Lassen KG, Xavier RJ
Autophagy. 2017;14(2):0 - PMID: 29130415 - PMCID: PMC5902220 - DOI: 10.1080/15548627.2017.1389358

A Mechanistic Explanation for the Regioselectivity of Nonenzymatic RNA Primer Extension.

Giurgiu C, Li L, O'Flaherty DK, Tam CP, Szostak JW
J Am Chem Soc. 2017;139(46):16741-16747 - PMID: 29112424 - DOI: 10.1021/jacs.7b08784

Rhizosphere-associated Pseudomonas induce systemic resistance to herbivores at the cost of susceptibility to bacterial pathogens.

Haney CH, Wiesmann CL, Shapiro LR, O'Sullivan LR, Khorasani S, Melnyk RA, Xiao L, Han J, Bush J, Carrillo J, Pierce NE, Ausubel FM
Mol Ecol. 2017;27(8):1833-1847 - PMID: 29087012 - DOI: 10.1111/mec.14400

Inducible and multiplex gene regulation using CRISPR-Cpf1-based transcription factors.

Tak YE, Kleinstiver BP, Nuñez JK, Hsu JY, Horng JE, Gong J, Weissman JS, Joung JK
Nat Methods. 2017;14(12):1163-1166 - PMID: 29083402 - PMCID: PMC5909187 - DOI: 10.1038/nmeth.4483

Transcription factor TFEB cell-autonomously modulates susceptibility to intestinal epithelial cell injury in vivo.

Murano T, Najibi M, Paulus GLC, Adiliaghdam F, Valencia-Guerrero A, Selig M, Wang X, Jeffrey K, Xavier RJ, Lassen KG, Irazoqui JE
Sci Rep. 2017;7(1):13938 - PMID: 29066772 - PMCID: PMC5655326 - DOI: 10.1038/s41598-017-14370-4

Small-molecule inhibitors directly target CARD9 and mimic its protective variant in inflammatory bowel disease.

Leshchiner ES, Rush JS, Durney MA, Cao Z, Dančík V, Chittick B, Wu H, Petrone A, Bittker JA, Phillips A, Perez JR, Shamji AF, Kaushik VK, Daly MJ, Graham DB, Schreiber SL, Xavier RJ
Proc Natl Acad Sci U S A. 2017;114(43):11392-11397 - PMID: 29073062 - PMCID: PMC5664502 - DOI: 10.1073/pnas.1705748114

scDual-Seq: mapping the gene regulatory program of Salmonella infection by host and pathogen single-cell RNA-sequencing.

Avital G, Avraham R, Fan A, Hashimshony T, Hung DT, Yanai I
Genome Biol. 2017;18(1):200 - PMID: 29073931 - PMCID: PMC5658913 - DOI: 10.1186/s13059-017-1340-x

p40 (phox) -Deficient Mice Exhibit Impaired Bacterial Clearance and Enhanced Pro-inflammatory Responses during Salmonella enterica serovar Typhimurium Infection.

Li Y, Lv M, Su C, Long S, Zhang W, Conway KL, Li W, Xavier RJ, Shi HN
Front Immunol. 2017;8:1270 - PMID: 29062317 - PMCID: PMC5640886 - DOI: 10.3389/fimmu.2017.01270

Ectopic colonization of oral bacteria in the intestine drives TH1 cell induction and inflammation.

Atarashi K, Suda W, Luo C, Kawaguchi T, Motoo I, Narushima S, Kiguchi Y, Yasuma K, Watanabe E, Tanoue T, Thaiss CA, Sato M, Toyooka K, Said HS, Yamagami H, Rice SA, Gevers D, Johnson RC, Segre JA, Chen K, Kolls JK, Elinav E, Morita H, Xavier RJ, Hattori M, Honda K
Science. 2017;358(6361):359-365 - PMID: 29051379 - PMCID: PMC5682622 - DOI: 10.1126/science.aan4526

A kinetic model of nonenzymatic RNA polymerization by cytidine-5'-phosphoro-2-aminoimidazolide.

Walton T, Szostak JW
Biochemistry. 2017;56(43):5739-5747 - PMID: 29022704 - DOI: 10.1021/acs.biochem.7b00792

Microbial Diversity in a Hypersaline Sulfate Lake: A Terrestrial Analog of Ancient Mars.

Pontefract A, Zhu TF, Walker VK, Hepburn H, Lui C, Zuber MT, Ruvkun G, Carr CE
Front Microbiol. 2017;8:1819 - PMID: 29018418 - PMCID: PMC5623196 - DOI: 10.3389/fmicb.2017.01819

Comparative analysis of LIN28-RNA binding sites identified at single nucleotide resolution.

Ransey E, Björkbom A, Lelyveld VS, Biecek P, Pantano L, Szostak JW, Sliz P
RNA Biol. 2017;14(12):0 - PMID: 28945502 - PMCID: PMC5731800 - DOI: 10.1080/15476286.2017.1356566

Enhanced proofreading governs CRISPR-Cas9 targeting accuracy.

Chen JS, Dagdas YS, Kleinstiver BP, Welch MM, Sousa AA, Harrington LB, Sternberg SH, Joung JK, Yildiz A, Doudna JA
Nature. 2017;550(7676):407-410 - PMID: 28931002 - PMCID: PMC5918688 - DOI: 10.1038/nature24268

An Anti-Persister Strategy for the Treatment of Chronic Pseudomonas aeruginosa Infections.

Koeva M, Gutu AD, Hebert W, Wager JD, Yonker LM, O'Toole GA, Ausubel FM, Moskowitz SM, Joseph-McCarthy D
Antimicrob Agents Chemother. 2017;61(12):ePub - PMID: 28923873 - PMCID: PMC5700368 - DOI: 10.1128/AAC.00987-17

SHANK3 Regulates Intestinal Barrier Function Through Modulating ZO-1 Expression Through the PKCε-dependent Pathway.

Wei SC, Yang-Yen HF, Tsao PN, Weng MT, Tung CC, Yu LCH, Lai LC, Hsiao JH, Chuang EY, Shun CT, Ni YH, Xavier RJ, Podolsky DK, Yen JJY, Wong JM
Inflamm Bowel Dis. 2017;:ePub - PMID: 28922251

SHANK3 Regulates Intestinal Barrier Function Through Modulating ZO-1 Expression Through the PKCε-dependent Pathway.

Wei SC, Yang-Yen HF, Tsao PN, Weng MT, Tung CC, Yu LCH, Lai LC, Hsiao JH, Chuang EY, Shun CT, Ni YH, Xavier RJ, Podolsky DK, Yen JJY, Wong JM
Inflamm Bowel Dis. 2017;23(10):1730-1740 - PMID: 28906292 - DOI: 10.1097/MIB.0000000000001250

The Ubiquitin Ligase Smurf1 Functions in Selective Autophagy of Mycobacterium tuberculosis and Anti-tuberculous Host Defense.

Franco LH, Nair VR, Scharn CR, Xavier RJ, Torrealba JR, Shiloh MU, Levine B
Cell Host Microbe. 2017;22(3):421-423 - PMID: 28910640 - PMCID: PMC5818210 - DOI: 10.1016/j.chom.2017.08.005

Autophagy-Independent Lysosomal Targeting Regulated by ULK1/2-FIP200 and ATG9.

Goodwin JM, Dowdle WE, DeJesus R, Wang Z, Bergman P, Kobylarz M, Lindeman A, Xavier RJ, McAllister G, Nyfeler B, Hoffman G, Murphy LO
Cell Rep. 2017;20(10):2341-2356 - PMID: 28877469 - PMCID: PMC5699710 - DOI: 10.1016/j.celrep.2017.08.034

Investment in secreted enzymes during nutrient-limited growth is utility dependent.

Cezairliyan B, Ausubel FM
Proc Natl Acad Sci U S A. 2017;114(37):E7796-E7802 - PMID: 28847943 - PMCID: PMC5604031 - DOI: 10.1073/pnas.1708580114

Human genetic variation and the gut microbiome in disease.

Hall AB, Tolonen AC, Xavier RJ
Nat Rev Genet. 2017;18(11):690-699 - PMID: 28824167 - DOI: 10.1038/nrg.2017.63

Erratum: E3 Ubiquitin ligase ZNRF4 negatively regulates NOD2 signalling and induces tolerance to MDP.

Bist P, Cheong WS, Ng A, Dikshit N, Kim BH, Pulloor NK, Khameneh HJ, Hedl M, Shenoy AR, Balamuralidhar V, Malik NBA, Hong M, Neutzner A, Chin KC, Kobayashi KS, Bertoletti A, Mortellaro A, Abraham C, MacMicking JD, Xavier RJ, Sukumaran B
Nat Commun. 2017;8:16141 - PMID: 28820178 - PMCID: PMC5562926 - DOI: 10.1038/ncomms16141

Small-molecule studies identify CDK8 as a regulator of IL-10 in myeloid cells.

Johannessen L, Sundberg TB, O'Connell DJ, Kolde R, Berstler J, Billings KJ, Khor B, Seashore-Ludlow B, Fassl A, Russell CN, Latorre IJ, Jiang B, Graham DB, Perez JR, Sicinski P, Phillips AJ, Schreiber SL, Gray NS, Shamji AF, Xavier RJ
Nat Chem Biol. 2017;13(10):1102-1108 - PMID: 28805801 - PMCID: PMC5693369 - DOI: 10.1038/nchembio.2458

Maintenance of macrophage transcriptional programs and intestinal homeostasis by epigenetic reader SP140.

Mehta S, Cronkite DA, Basavappa M, Saunders TL, Adiliaghdam F, Amatullah H, Morrison SA, Pagan JD, Anthony RM, Tonnerre P, Lauer GM, Lee JC, Digumarthi S, Pantano L, Ho Sui SJ, Ji F, Sadreyev R, Zhou C, Mullen AC, Kumar V, Li Y, Wijmenga C, Xavier RJ, Means TK, Jeffrey KL
Sci Immunol. 2017;2(9):ePub - PMID: 28783698 - PMCID: PMC5549562 - DOI: 10.1126/sciimmunol.aag3160

NIH Centers for Accelerated Innovations Program: principles, practices, successes and challenges.

Antman EM, Di Corleto PE, Freeman MW, Ganz T, Golan DE, Kitterman R, Loscalzo J, Low M, McKenna E, O'Connor AC, Palazzolo M, Parrish J, Reizes O, Ross RS, Vaughan C, Vince DG, Watts L, NIH Centers for Accelerated Innovations
Nat Rev Drug Discov. 2017;16(10):663-664 - PMID: 28775338 - PMCID: PMC5963257 - DOI: 10.1038/nrd.2017.131

Paneth cells secrete lysozyme via secretory autophagy during bacterial infection of the intestine.

Bel S, Pendse M, Wang Y, Li Y, Ruhn KA, Hassell B, Leal T, Winter SE, Xavier RJ, Hooper LV
Science. 2017;357(6355):1047-1052 - PMID: 28751470 - PMCID: PMC5702267 - DOI: 10.1126/science.aal4677

Burn-induced muscle metabolic derangements and mitochondrial dysfunction are associated with activation of HIF-1α and mTORC1: Role of protein farnesylation.

Nakazawa H, Ikeda K, Shinozaki S, Kobayashi M, Ikegami Y, Fu M, Nakamura T, Yasuhara S, Yu YM, Martyn JAJ, Tompkins RG, Shimokado K, Yorozu T, Ito H, Inoue S, Kaneki M
Sci Rep. 2017;7(1):6618 - PMID: 28747716 - PMCID: PMC5529411 - DOI: 10.1038/s41598-017-07011-3

Nucleic Acid Extraction from Synthetic Mars Analog Soils for in situ Life Detection.

Mojarro A, Ruvkun G, Zuber MT, Carr CE
Astrobiology. 2017;17(8):747-760 - PMID: 28704064 - PMCID: PMC5567878 - DOI: 10.1089/ast.2016.1535

Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation.

Wlodarska M, Luo C, Kolde R, d'Hennezel E, Annand JW, Heim CE, Krastel P, Schmitt EK, Omar AS, Creasey EA, Garner AL, Mohammadi S, O'Connell DJ, Abubucker S, Arthur TD, Franzosa EA, Huttenhower C, Murphy LO, Haiser HJ, Vlamakis H, Porter JA, Xavier RJ
Cell Host Microbe. 2017;22(1):25-37.e6 - PMID: 28704649 - PMCID: PMC5672633 - DOI: 10.1016/j.chom.2017.06.007

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children.

Zhao G, Vatanen T, Droit L, Park A, Kostic AD, Poon TW, Vlamakis H, Siljander H, Härkönen T, Hämäläinen AM, Peet A, Tillmann V, Ilonen J, Wang D, Knip M, Xavier RJ, Virgin HW
Proc Natl Acad Sci U S A. 2017;114(30):E6166-E6175 - PMID: 28696303 - PMCID: PMC5544325 - DOI: 10.1073/pnas.1706359114

Insight into the mechanism of nonenzymatic RNA primer extension from the structure of an RNA-GpppG complex.

Zhang W, Tam CP, Walton T, Fahrenbach AC, Birrane G, Szostak JW
Proc Natl Acad Sci U S A. 2017;114(29):7659-7664 - PMID: 28673998 - PMCID: PMC5530681 - DOI: 10.1073/pnas.1704006114

A small-molecule allosteric inhibitor of Mycobacterium tuberculosis tryptophan synthase.

Wellington S, Nag PP, Michalska K, Johnston SE, Jedrzejczak RP, Kaushik VK, Clatworthy AE, Siddiqi N, McCarren P, Bajrami B, Maltseva NI, Combs S, Fisher SL, Joachimiak A, Schreiber SL, Hung DT
Nat Chem Biol. 2017;13(9):943-950 - PMID: 28671682 - DOI: 10.1038/nchembio.2420

E3 Ubiquitin ligase ZNRF4 negatively regulates NOD2 signalling and induces tolerance to MDP.

Bist P, Cheong WS, Ng A, Dikshit N, Kim BH, Pulloor NK, Khameneh HJ, Hedl M, Shenoy AR, Balamuralidhar V, Malik NBA, Hong M, Neutzner A, Chin KC, Kobayashi KS, Bertoletti A, Mortellaro A, Abraham C, MacMicking JD, Xavier RJ, Sukumaran B
Nat Commun. 2017;8:15865 - PMID: 28656966 - PMCID: PMC5493756 - DOI: 10.1038/ncomms15865

Fine-mapping inflammatory bowel disease loci to single-variant resolution.

Huang H, Fang M, Jostins L, Umićević Mirkov M, Boucher G, Anderson CA, Andersen V, Cleynen I, Cortes A, Crins F, D'Amato M, Deffontaine V, Dmitrieva J, Docampo E, Elansary M, Farh KK, Franke A, Gori AS, Goyette P, Halfvarson J, Haritunians T, Knight J, Lawrance IC, Lees CW, Louis E, Mariman R, Meuwissen T, Mni M, Momozawa Y, Parkes M, Spain SL, Théâtre E, Trynka G, Satsangi J, van Sommeren S, Vermeire S, Xavier RJ, International Inflammatory Bowel Disease Genetics Consortium, Weersma RK, Due ...
Nature. 2017;547(7662):173-178 - PMID: 28658209 - PMCID: PMC5511510 - DOI: 10.1038/nature22969

Characterization of a Francisella tularensis-Caenorhabditis elegans pathosystem for the evaluation of therapeutic compounds.

Jayamani E, Tharmalingam N, Rajamuthiah R, Coleman JJ, Kim W, Okoli I, Hernandez AM, Lee K, Nau GJ, Ausubel FM, Mylonakis E
Antimicrob Agents Chemother. 2017;61(9):ePub - PMID: 28652232 - PMCID: PMC5571314 - DOI: 10.1128/AAC.00310-17

Common and Potentially Prebiotic Origin for Precursors of Nucleotide Synthesis and Activation.

Fahrenbach AC, Giurgiu C, Tam CP, Li L, Hongo Y, Aono M, Szostak JW
J Am Chem Soc. 2017;139(26):8780-8783 - PMID: 28640999 - DOI: 10.1021/jacs.7b01562

Dissecting the human microbiome with single-cell genomics.

Tolonen AC, Xavier RJ
Genome Med. 2017;9(1):56 - PMID: 28615076 - PMCID: PMC5471897 - DOI: 10.1186/s13073-017-0448-7

Discovery of nitrate-CPK-NLP signalling in central nutrient-growth networks.

Liu KH, Niu Y, Konishi M, Wu Y, Du H, Sun Chung H, Li L, Boudsocq M, McCormack M, Maekawa S, Ishida T, Zhang C, Shokat K, Yanagisawa S, Sheen J
Nature. 2017;545(7654):311-316 - PMID: 28489820 - PMCID: PMC5823009 - DOI: 10.1038/nature22077

Genome editing of factor X in zebrafish reveals unexpected tolerance of severe defects in the common pathway.

Hu Z, Liu Y, Huarng MC, Menegatti M, Reyon D, Rost MS, Norris ZG, Richter CE, Stapleton AN, Chi NC, Peyvandi F, Joung JK, Shavit JA
Blood. 2017;130(5):666-676 - PMID: 28576875 - PMCID: PMC5542852 - DOI: 10.1182/blood-2017-02-765206

Selective Induction of Homeostatic Th17 Cells in the Murine Intestine by Cholera Toxin Interacting with the Microbiota.

Zhao Q, Harbour SN, Kolde R, Latorre IJ, Tun HM, Schoeb TR, Turner H, Moon JJ, Khafipour E, Xavier RJ, Weaver CT, Elson CO
J Immunol. 2017;199(1):312-322 - PMID: 28539431 - PMCID: PMC5539960 - DOI: 10.4049/jimmunol.1700171

Divergent prebiotic synthesis of pyrimidine and 8-oxo-purine ribonucleotides.

Stairs S, Nikmal A, Bucar DK, Zheng SL, Szostak JW, Powner MW
Nat Commun. 2017;8:15270 - PMID: 28524845 - PMCID: PMC5454461 - DOI: 10.1038/ncomms15270

Adult-onset, chronic, cyclic thrombocytopenia in a Rhesus macaque (Macaca mulatta) after dengue virus vaccination and viral challenge.

Frydman GH, Metcalf Pate KA, Marini RP, de Laforcade AM, Bosch I, Bakthavatchalu V, Muthupalani S, Swennes AG, Lyons CE, Tompkins RG, Fox JG
Vet Clin Pathol. 2017;46(2):238-247 - PMID: 28518476 - PMCID: PMC5977396 - DOI: 10.1111/vcp.12497

The Narrow Road to the Deep Past.

Szostak JW
Angew Chem Int Ed Engl. 2017;56(37):11037-11043 - PMID: 28514493 - DOI: 10.1002/anie.201704048

Epitope-specific immunotherapy targeting CD4-positive T cells in coeliac disease: two randomised, double-blind, placebo-controlled phase 1 studies.

Goel G, King T, Daveson AJ, Andrews JM, Krishnarajah J, Krause R, Brown GJE, Fogel R, Barish CF, Epstein R, Kinney TP, Miner PB, Tye-Din JA, Girardin A, Taavela J, Popp A, Sidney J, Mäki M, Goldstein KE, Griffin PH, Wang S, Dzuris JL, Williams LJ, Sette A, Xavier RJ, Sollid LM, Jabri B, Anderson RP
Lancet Gastroenterol Hepatol. 2017;2(7):479-493 - PMID: 28506538 - PMCID: PMC5676538 - DOI: 10.1016/S2468-1253(17)30110-3

Systematic, multiparametric analysis of Mycobacterium tuberculosis intracellular infection offers insight into coordinated virulence.

Barczak AK, Avraham R, Singh S, Luo SS, Zhang WR, Bray MA, Hinman AE, Thompson M, Nietupski RM, Golas A, Montgomery P, Fitzgerald M, Smith RS, White DW, Tischler AD, Carpenter AE, Hung DT
PLoS Pathog. 2017;13(5):e1006363 - PMID: 28505176 - PMCID: PMC5444860 - DOI: 10.1371/journal.ppat.1006363

Gut Microbiome Function Predicts Response to Anti-integrin Biologic Therapy in Inflammatory Bowel Diseases.

Ananthakrishnan AN, Luo C, Yajnik V, Khalili H, Garber JJ, Stevens BW, Cleland T, Xavier RJ
Cell Host Microbe. 2017;21(5):603-610.e3 - PMID: 28494241 - PMCID: PMC5705050 - DOI: 10.1016/j.chom.2017.04.010

CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets.

Tsai SQ, Nguyen NT, Malagon-Lopez J, Topkar VV, Aryee MJ, Joung JK
Nat Methods. 2017;14(6):607-614 - PMID: 28459458 - PMCID: PMC5924695 - DOI: 10.1038/nmeth.4278

Camptothecin resistance is determined by the regulation of topoisomerase I degradation mediated by ubiquitin proteasome pathway.

Ando K, Shah AK, Sachdev V, Kleinstiver BP, Taylor-Parker J, Welch MM, Hu Y, Salgia R, White FM, Parvin JD, Ozonoff A, Rameh LE, Joung JK, Bharti AK
Oncotarget. 2017;8(27):43733-43751 - PMID: 28415827 - PMCID: PMC5546437 - DOI: 10.18632/oncotarget.16376

Nucleic acid detection with CRISPR-Cas13a/C2c2.

Gootenberg JS, Abudayyeh OO, Lee JW, Essletzbichler P, Dy AJ, Joung J, Verdine V, Donghia N, Daringer NM, Freije CA, Myhrvold C, Bhattacharyya RP, Livny J, Regev A, Koonin EV, Hung DT, Sabeti PC, Collins JJ, Zhang F
Science. 2017;356(6336):438-442 - PMID: 28408723 - PMCID: PMC5526198 - DOI: 10.1126/science.aam9321

Reovirus infection triggers inflammatory responses to dietary antigens and development of celiac disease.

Bouziat R, Hinterleitner R, Brown JJ, Stencel-Baerenwald JE, Ikizler M, Mayassi T, Meisel M, Kim SM, Discepolo V, Pruijssers AJ, Ernest JD, Iskarpatyoti JA, Costes LM, Lawrence I, Palanski BA, Varma M, Zurenski MA, Khomandiak S, McAllister N, Aravamudhan P, Boehme KW, Hu F, Samsom JN, Reinecker HC, Kupfer SS, Guandalini S, Semrad CE, Abadie V, Khosla C, Barreiro LB, Xavier RJ, Ng A, Dermody TS, Jabri B
Science. 2017;356(6333):44-50 - PMID: 28386004 - PMCID: PMC5506690 - DOI: 10.1126/science.aah5298

Local and Systemic Changes Associated with Long-term, Percutaneous, Static Implantation of Titanium Alloys in Rhesus Macaques (Macaca mulatta).

Frydman GH, Marini RP, Bakthavatchalu V, Biddle KE, Muthupalani S, Vanderburg CR, Lai B, Bendapudi PK, Tompkins RG, Fox JG
Comp Med. 2017;67(2):165-175 - PMID: 28381317 - PMCID: PMC5402736

A Microbiome Foundation for the Study of Crohn's Disease.

Gevers D, Kugathasan S, Knights D, Kostic AD, Knight R, Xavier RJ
Cell Host Microbe. 2017;21(3):301-304 - PMID: 28279336 - PMCID: PMC5684696 - DOI: 10.1016/j.chom.2017.02.012

An Alpha7 Nicotinic Acetylcholine Receptor Agonist (GTS-21) Promotes C2C12 Myonuclear Accretion in Association with Release of Interleukin-6 (IL-6) and Improves Survival in Burned Mice.

Khan MA, Khan MF, Kashiwagi S, Kem WR, Yasuhara S, Kaneki M, Tompkins RG, Martyn JA
Shock. 2017;48(2):227-235 - PMID: 28282360 - PMCID: PMC5511057 - DOI: 10.1097/SHK.0000000000000849

US immigration order strikes against biotech.

Levin JM, Holtzman SH, Maraganore J, Hastings PJ, Cohen R, Dahiyat B, Adams J, Adams C, Ahrens B, Albers J, Aspinall MG, Audia JE, Babler M, Barrett P, Barry Z, Bermingham N, Bloch S, Blum RI, Bolno PB, Bonney MW, Booth B, Bradbury DM, Brauer SK, Byers B, Cagnoni PJ, Cali BM, Ciechanover I, Clark C, Clayman MD, Cleland JL, Cobb P, Cooper R, Currie MG, Diekman J, Dobmeier EL, Doerfler D, Donley EL, Dunsire D, During M, Eckstein JW, Elenko E, Exter NA, Fleming JJ, Flesher GJ, Formela JF, Forre ...
Nat Biotechnol. 2017;35(3):204-206 - PMID: 28267733 - DOI: 10.1038/nbt.3824

Prediction of complicated disease course for children newly diagnosed with Crohn's disease: a multicentre inception cohort study.

Kugathasan S, Denson LA, Walters TD, Kim MO, Marigorta UM, Schirmer M, Mondal K, Liu C, Griffiths A, Noe JD, Crandall WV, Snapper S, Rabizadeh S, Rosh JR, Shapiro JM, Guthery S, Mack DR, Kellermayer R, Kappelman MD, Steiner S, Moulton DE, Keljo D, Cohen S, Oliva-Hemker M, Heyman MB, Otley AR, Baker SS, Evans JS, Kirschner BS, Patel AS, Ziring D, Trapnell BC, Sylvester FA, Stephens MC, Baldassano RN, Markowitz JF, Cho J, Xavier RJ, Huttenhower C, Aronow BJ, Gibson G, Hyams JS, Dubinsky MC
Lancet. 2017;389(10080):1710-1718 - PMID: 28259484 - PMCID: PMC5719489 - DOI: 10.1016/S0140-6736(17)30317-3

Corrigendum: SIKs control osteocyte responses to parathyroid hormone.

Wein MN, Liang Y, Goransson O, Sundberg TB, Wang J, Williams EA, O'Meara MJ, Govea N, Beqo B, Nishimori S, Nagano K, Brooks DJ, Martins JS, Corbin B, Anselmo A, Sadreyev R, Wu JY, Sakamoto K, Foretz M, Xavier RJ, Baron R, Bouxsein ML, Gardella TJ, Divieti-Pajevic P, Gray NS, Kronenberg HM
Nat Commun. 2017;8:14745 - PMID: 28224982 - PMCID: PMC5322529 - DOI: 10.1038/ncomms14745

MAPK Assays in Arabidopsis MAMP-PRR Signal Transduction.

Chung HS, Sheen J
Methods Mol Biol. 2017;1578:155-166 - PMID: 28220422 - DOI: 10.1007/978-1-4939-6859-6_12

Ribosomal mutations promote the evolution of antibiotic resistance in a multidrug environment.

Gomez JE, Kaufmann-Malaga BB, Wivagg CN, Kim PB, Silvis MR, Renedo N, Ioerger TR, Ahmad R, Livny J, Fishbein S, Sacchettini JC, Carr SA, Hung DT
Elife. 2017;6:ePub - PMID: 28220755 - PMCID: PMC5319836 - DOI: 10.7554/eLife.20420

DNA-binding Specificity Is a Major Determinant of the Activity and Toxicity of Zinc-finger Nucleases.

Cornu TI, Thibodeau-Beganny S, Guhl E, Alwin S, Eichtinger M, Joung JK, Cathomen T
Mol Ther. 2016;16(2):352-358 - PMID: 28178540 - DOI: 10.1038/sj.mt.6300357

Metagenomic Characterization of Microbial Communities In Situ Within the Deeper Layers of the Ileum in Crohn's Disease.

Pedamallu CS, Bhatt AS, Bullman S, Fowler S, Freeman SS, Durand J, Jung J, Duke F, Manzo V, Cai D, Ananthakrishnan A, Ojesina AI, Ramachandran A, Gevers D, Xavier RJ, Bhan AK, Meyerson M, Yajnik V
Cell Mol Gastroenterol Hepatol. 2016;2(5):563-566.e5 - PMID: 28174737 - PMCID: PMC5042890 - DOI: 10.1016/j.jcmgh.2016.05.011

LONG-TERM FUNCTIONAL RECOVERY OF HEPATOCYTES AFTER CRYOPRESERVATION IN A THREE-DIMENSIONAL CULTURE CONFIGURATION.

Borel Rinkes IH, Mehmet T, Sheehan SJ, Tompkins RG, Yarmush ML
Cell Transplant. 1992;1(4):281-292 - PMID: 28148377

Genome Editing Technologies: Defining a Path to Clinic: Genomic Editing: Establishing Preclinical Toxicology Standards, Bethesda, Maryland 10 June 2014.

Corrigan-Curay J, O'Reilly M, Kohn DB, Cannon PM, Bao G, Bushman FD, Carroll D, Cathomen T, Joung JK, Roth D, Sadelain M, Scharenberg AM, von Kalle C, Zhang F, Jambou R, Rosenthal E, Hassani M, Singh A, Porteus MH
Mol Ther. 2016;23(5):796-806 - PMID: 28142000

Enhanced Nonenzymatic RNA Copying with 2-Aminoimidazole Activated Nucleotides.

Li L, Prywes N, Tam CP, O'Flaherty DK, Lelyveld VS, Izgu EC, Pal A, Szostak JW
J Am Chem Soc. 2017;139(5):1810-1813 - PMID: 28117989 - DOI: 10.1021/jacs.6b13148

The NBS-LRR architectures of plant R-proteins and metazoan NLRs evolved in independent events.

Urbach JM, Ausubel FM
Proc Natl Acad Sci U S A. 2017;114(5):1063-1068 - PMID: 28096345 - PMCID: PMC5293065 - DOI: 10.1073/pnas.1619730114

Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks.

Cerqueira GC, Earl AM, Ernst CM, Grad YH, Dekker JP, Feldgarden M, Chapman SB, Reis-Cunha JL, Shea TP, Young S, Zeng Q, Delaney ML, Kim D, Peterson EM, O'Brien TF, Ferraro MJ, Hooper DC, Huang SS, Kirby JE, Onderdonk AB, Birren BW, Hung DT, Cosimi LA, Wortman JR, Murphy CI, Hanage WP
Proc Natl Acad Sci U S A. 2017;114(5):1135-1140 - PMID: 28096418 - PMCID: PMC5293017 - DOI: 10.1073/pnas.1616248114

iNOS as a Driver of Inflammation and Apoptosis in Mouse Skeletal Muscle after Burn Injury: Possible Involvement of Sirt1 S-Nitrosylation-Mediated Acetylation of p65 NF-?B and p53.

Nakazawa H, Chang K, Shinozaki S, Yasukawa T, Ishimaru K, Yasuhara S, Yu YM, Martyn JA, Tompkins RG, Shimokado K, Kaneki M
PLoS One. 2017;12(1):e0170391 - PMID: 28099528 - PMCID: PMC5242494 - DOI: 10.1371/journal.pone.0170391

Influence of maternal breast milk ingestion on acquisition of the intestinal microbiome in preterm infants.

Gregory KE, Samuel BS, Houghteling P, Shan G, Ausubel FM, Sadreyev RI, Walker WA
Microbiome. 2016;4(1):68 - PMID: 28034306 - PMCID: PMC5200970 - DOI: 10.1186/s40168-016-0214-x

Downstream Oligonucleotides Strongly Enhance the Affinity of GMP to RNA Primer-Template Complexes.

Tam CP, Fahrenbach AC, Björkbom A, Prywes N, Izgu EC, Szostak JW
J Am Chem Soc. 2017;139(2):571-574 - PMID: 28055190 - DOI: 10.1021/jacs.6b09760

Unusual Base-Pairing Interactions in Monomer-Template Complexes.

Zhang W, Tam CP, Wang J, Szostak JW
ACS Cent Sci. 2016;2(12):916-926 - PMID: 28058281 - PMCID: PMC5200924 - DOI: 10.1021/acscentsci.6b00278

ATP Binding Cassette Transporter ABCA7 Regulates NKT Cell Development and Function by Controlling CD1d Expression and Lipid Raft Content.

Nowyhed HN, Chandra S, Kiosses W, Marcovecchio P, Andary F, Zhao M, Fitzgerald ML, Kronenberg M, Hedrick CC
Sci Rep. 2017;7:40273 - PMID: 28091533 - PMCID: PMC5238393 - DOI: 10.1038/srep40273

The Ubiquitin Ligase Smurf1 Functions in Selective Autophagy of Mycobacterium tuberculosis and Anti-tuberculous Host Defense.

Franco LH, Nair VR, Scharn CR, Xavier RJ, Torrealba JR, Shiloh MU, Levine B
Cell Host Microbe. 2016;21(1):59-72 - PMID: 28017659 - PMCID: PMC5699477 - DOI: 10.1016/j.chom.2016.11.002

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity.

Schirmer M, Smeekens SP, Vlamakis H, Jaeger M, Oosting M, Franzosa EA, Horst RT, Jansen T, Jacobs L, Bonder MJ, Kurilshikov A, Fu J, Joosten LA, Zhernakova A, Huttenhower C, Wijmenga C, Netea MG, Xavier RJ
Cell. 2016;167(7):1897 - PMID: 27984736 - DOI: 10.1016/j.cell.2016.11.046

TMEM258 Is a Component of the Oligosaccharyltransferase Complex Controlling ER Stress and Intestinal Inflammation.

Graham DB, Lefkovith A, Deelen P, de Klein N, Varma M, Boroughs A, Desch AN, Ng AC, Guzman G, Schenone M, Petersen CP, Bhan AK, Rivas MA, Daly MJ, Carr SA, Wijmenga C, Xavier RJ
Cell Rep. 2016;17(11):2955-2965 - PMID: 27974209 - PMCID: PMC5661940 - DOI: 10.1016/j.celrep.2016.11.042

N-Carboxyanhydride-Mediated Fatty Acylation of Amino Acids and Peptides for Functionalization of Protocell Membranes.

Izgu EC, Björkbom A, Kamat NP, Lelyveld VS, Zhang W, Jia TZ, Szostak JW
J Am Chem Soc. 2016;138(51):16669-16676 - PMID: 27959544 - DOI: 10.1021/jacs.6b08801

Tribbles ortholog NIPI-3 and bZIP transcription factor CEBP-1 regulate a Caenorhabditis elegans intestinal immune surveillance pathway.

McEwan DL, Feinbaum RL, Stroustrup N, Haas W, Conery AL, Anselmo A, Sadreyev R, Ausubel FM
BMC Biol. 2016;14(1):105 - PMID: 27927200 - PMCID: PMC5143455 - DOI: 10.1186/s12915-016-0334-6

The Csk-Associated Adaptor PAG Inhibits Effector T Cell Activation in Cooperation with Phosphatase PTPN22 and Dok Adaptors.

Davidson D, Zhong MC, Pandolfi PP, Bolland S, Xavier RJ, Seed B, Li X, Gu H, Veillette A
Cell Rep. 2016;17(10):2776-2788 - PMID: 27926878 - PMCID: PMC5656005 - DOI: 10.1016/j.celrep.2016.11.035

Visceral Adiposity, Genetic Susceptibility, and Risk of Complications Among Individuals with Crohn's Disease.

Van Der Sloot KW, Joshi AD, Bellavance DR, Gilpin KK, Stewart KO, Lochhead P, Garber JJ, Giallourakis C, Yajnik V, Ananthakrishnan AN, Alizadeh BZ, Xavier RJ, Khalili H
Inflamm Bowel Dis. 2016;23(1):82-88 - PMID: 27893544 - PMCID: PMC5177457 - DOI: 10.1097/MIB.0000000000000978

The Role of the Histone Methyltransferase Enhancer of Zeste Homolog 2 (EZH2) in the Pathobiological Mechanisms Underlying Inflammatory Bowel Disease (IBD).

Sarmento OF, Svingen PA, Xiong Y, Sun Z, Bamidele AO, Mathison AJ, Smyrk TC, Nair AA, Gonzalez MM, Sagstetter MR, Baheti S, McGovern DP, Friton JJ, Papadakis KA, Gautam G, Xavier RJ, Urrutia RA, Faubion WA
J Biol Chem. 2016;292(2):706-722 - PMID: 27909059 - PMCID: PMC5241744 - DOI: 10.1074/jbc.M116.749663

RNF166 Determines Recruitment of Adaptor Proteins during Antibacterial Autophagy.

Heath RJ, Goel G, Baxt LA, Rush JS, Mohanan V, Paulus GL, Jani V, Lassen KG, Xavier RJ
Cell Rep. 2016;17(9):2183-2194 - PMID: 27880896 - PMCID: PMC5192565 - DOI: 10.1016/j.celrep.2016.11.005

Glutaminolysis and Fumarate Accumulation Integrate Immunometabolic and Epigenetic Programs in Trained Immunity.

Arts RJ, Novakovic B, Ter Horst R, Carvalho A, Bekkering S, Lachmandas E, Rodrigues F, Silvestre R, Cheng SC, Wang SY, Habibi E, Gonçalves LG, Mesquita I, Cunha C, van Laarhoven A, van de Veerdonk FL, Williams DL, van der Meer JW, Logie C, O'Neill LA, Dinarello CA, Riksen NP, van Crevel R, Clish C, Notebaart RA, Joosten LA, Stunnenberg HG, Xavier RJ, Netea MG
Cell Metab. 2016;24(6):807-819 - PMID: 27866838 - PMCID: PMC5742541 - DOI: 10.1016/j.cmet.2016.10.008

Erratum to: Vedolizumab Therapy Is Associated with an Improvement in Sleep Quality and Mood in Inflammatory Bowel Diseases.

Stevens BW, Borren NZ, Velonias G, Conway G, Cleland T, Andrews E, Khalili H, Garber JJ, Xavier RJ, Yajnik V, Ananthakrishnan AN
Dig Dis Sci. 2016;62(2):552 - PMID: 27864657 - DOI: 10.1007/s10620-016-4380-2

SIKs control osteocyte responses to parathyroid hormone.

Wein MN, Liang Y, Goransson O, Sundberg TB, Wang J, Williams EA, O'Meara MJ, Govea N, Beqo B, Nishimori S, Nagano K, Brooks DJ, Martins JS, Corbin B, Anselmo A, Sadreyev R, Wu JY, Sakamoto K, Foretz M, Xavier RJ, Baron R, Bouxsein ML, Gardella TJ, Divieti-Pajevic P, Gray NS, Kronenberg HM
Nat Commun. 2016;7:13176 - PMID: 27759007 - PMCID: PMC5075806 - DOI: 10.1038/ncomms13176

TNF-?/IL-10 Ratio Correlates with Burn Severity and May Serve as a Risk Predictor of Increased Susceptibility to Infections.

Tsurumi A, Que YA, Ryan CM, Tompkins RG, Rahme LG
Front Public Health. 2016;4:216 - PMID: 27761434 - PMCID: PMC5050217 - DOI: 10.3389/fpubh.2016.00216

KERIS: kaleidoscope of gene responses to inflammation between species.

Li P, Tompkins RG, Xiao W,
Nucleic Acids Res. 2016;45(D1):D908-D914 - PMID: 27789704 - PMCID: PMC5210651 - DOI: 10.1093/nar/gkw974

Vedolizumab Therapy Is Associated with an Improvement in Sleep Quality and Mood in Inflammatory Bowel Diseases.

Stevens BW, Borren NZ, Velonias G, Conway G, Cleland T, Andrews E, Khalili H, Garber JG, Xavier RJ, Yajnik V, Ananthakrishnan AN
Dig Dis Sci. 2016;62(1):197-206 - PMID: 27796768 - PMCID: PMC5218976 - DOI: 10.1007/s10620-016-4356-2

Interplay of host genetics and gut microbiota underlying the onset and clinical presentation of inflammatory bowel disease.

Imhann F, Vich Vila A, Bonder MJ, Fu J, Gevers D, Visschedijk MC, Spekhorst LM, Alberts R, Franke L, van Dullemen HM, Ter Steege RW, Huttenhower C, Dijkstra G, Xavier RJ, Festen EA, Wijmenga C, Zhernakova A, Weersma RK
Gut. 2016;67(1):108-119 - PMID: 27802154 - PMCID: PMC5699972 - DOI: 10.1136/gutjnl-2016-312135

A Functional Genomics Approach to Understand Variation in Cytokine Production in Humans.

Li Y, Oosting M, Smeekens SP, Jaeger M, Aguirre-Gamboa R, Le KT, Deelen P, Ricaño-Ponce I, Schoffelen T, Jansen AF, Swertz MA, Withoff S, van de Vosse E, van Deuren M, van de Veerdonk F, Zhernakova A, van der Meer JW, Xavier RJ, Franke L, Joosten LA, Wijmenga C, Kumar V, Netea MG
Cell. 2016;167(4):1099-1110.e14 - PMID: 27814507 - DOI: 10.1016/j.cell.2016.10.017

Host and Environmental Factors Influencing Individual Human Cytokine Responses.

Ter Horst R, Jaeger M, Smeekens SP, Oosting M, Swertz MA, Li Y, Kumar V, Diavatopoulos DA, Jansen AF, Lemmers H, Toenhake-Dijkstra H, van Herwaarden AE, Janssen M, van der Molen RG, Joosten I, Sweep FC, Smit JW, Netea-Maier RT, Koenders MM, Xavier RJ, van der Meer JW, Dinarello CA, Pavelka N, Wijmenga C, Notebaart RA, Joosten LA, Netea MG
Cell. 2016;167(4):1111-1124.e13 - PMID: 27814508 - PMCID: PMC5787854 - DOI: 10.1016/j.cell.2016.10.018

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity.

Schirmer M, Smeekens SP, Vlamakis H, Jaeger M, Oosting M, Franzosa EA, Jansen T, Jacobs L, Bonder MJ, Kurilshikov A, Fu J, Joosten LA, Zhernakova A, Huttenhower C, Wijmenga C, Netea MG, Xavier RJ
Cell. 2016;167(4):1125-1136.e8 - PMID: 27814509 - PMCID: PMC5131922 - DOI: 10.1016/j.cell.2016.10.020

Differential Effects of Environmental and Genetic Factors on T and B Cell Immune Traits.

Aguirre-Gamboa R, Joosten I, Urbano PC, van der Molen RG, van Rijssen E, van Cranenbroek B, Oosting M, Smeekens S, Jaeger M, Zorro M, Withoff S, van Herwaarden AE, Sweep FC, Netea RT, Swertz MA, Franke L, Xavier RJ, Joosten LA, Netea MG, Wijmenga C, Kumar V, Li Y, Koenen HJ
Cell Rep. 2016;17(9):2474-2487 - PMID: 27818087 - PMCID: PMC5130901 - DOI: 10.1016/j.celrep.2016.10.053

Hold the Pendulum: Rates of Acute Kidney Injury are Increased in Patients Who Receive Resuscitation Volumes Less than Predicted by the Parkland Equation.

Mason SA, Nathens AB, Finnerty CC, Gamelli RL, Gibran NS, Arnoldo BD, Tompkins RG, Herndon DN, Jeschke MG,
Ann Surg. 2016;264(6):1142-1147 - PMID: 27828823 - PMCID: PMC5111808 - DOI: 10.1097/SLA.0000000000001615

Effect of terminal 3'-hydroxymethyl modification of an RNA primer on nonenzymatic primer extension.

Pal A, Das RS, Zhang W, Lang M, McLaughlin LW, Szostak JW
Chem Commun (Camb). 2016;52(80):11905-11907 - PMID: 27722518 - DOI: 10.1039/c6cc06925h

The metabolic stress response to burn trauma: current understanding and therapies.

Porter C, Tompkins RG, Finnerty CC, Sidossis LS, Suman OE, Herndon DN
Lancet. 2016;388(10052):1417-1426 - PMID: 27707498 - PMCID: PMC5753602 - DOI: 10.1016/S0140-6736(16)31469-6

Corrigendum: Inter-individual variability and genetic influences on cytokine responses to bacteria and fungi.

Li Y, Oosting M, Deelen P, Ricaño-Ponce I, Smeekens S, Jaeger M, Matzaraki V, Swertz MA, Xavier RJ, Franke L, Wijmenga C, Joosten LA, Kumar V, Netea MG
Nat Med. 2016;22(10):1192 - PMID: 27711068 - DOI: 10.1038/nm1016-1192b

Succinate Dehydrogenase Supports Metabolic Repurposing of Mitochondria to Drive Inflammatory Macrophages.

Mills EL, Kelly B, Logan A, Costa AS, Varma M, Bryant CE, Tourlomousis P, Däbritz JH, Gottlieb E, Latorre I, Corr SC, McManus G, Ryan D, Jacobs HT, Szibor M, Xavier RJ, Braun T, Frezza C, Murphy MP, O'Neill LA
Cell. 2016;167(2):457-470.e13 - PMID: 27667687 - PMCID: PMC5863951 - DOI: 10.1016/j.cell.2016.08.064

Characterization of candidate genes in inflammatory bowel disease-associated risk loci.

Peloquin JM, Goel G, Kong L, Huang H, Haritunians T, Sartor RB, Daly MJ, Newberry RD, McGovern DP, Yajnik V, Lira SA, Xavier RJ
JCI Insight. 2016;1(13):e87899 - PMID: 27668286 - PMCID: PMC5033062 - DOI: 10.1172/jci.insight.87899

A perspective on single cell behavior during infection.

Avraham R, Hung DT
Gut Microbes. 2016;7(6):0 - PMID: 27658058 - PMCID: PMC5153611 - DOI: 10.1080/19490976.2016.1239001

Oligoarginine peptides slow strand annealing and assist non-enzymatic RNA replication.

Jia TZ, Fahrenbach AC, Kamat NP, Adamala KP, Szostak JW
Nat Chem. 2016;8(10):915-21 - PMID: 27657866 - PMCID: PMC5061144 - DOI: 10.1038/nchem.2551

Changes in neutrophil migration patterns upon contact with platelets in a microfluidic assay.

Frydman GH, Le A, Ellett F, Jorgensen J, Fox JG, Tompkins RG, Irimia D
J Leukoc Biol. 2016;101(3):797-806 - PMID: 27630219 - PMCID: PMC5295852 - DOI: 10.1189/jlb.1TA1115-517RR

Loss of a Class A Penicillin-Binding Protein Alters ?-Lactam Susceptibilities in Mycobacterium tuberculosis.

Wivagg CN, Wellington S, Gomez JE, Hung DT
ACS Infect Dis. 2015;2(2):104-10 - PMID: 27624961 - DOI: 10.1021/acsinfecdis.5b00119

Erratum: A protein-truncating R179X variant in RNF186 confers protection against ulcerative colitis.

Rivas MA, Graham D, Sulem P, Stevens C, Desch AN, Goyette P, Gudbjartsson D, Jonsdottir I, Thorsteinsdottir U, Degenhardt F, Mucha S, Kurki MI, Li D, D'Amato M, Annese V, Vermeire S, Weersma RK, Halfvarson J, Paavola-Sakki P, Lappalainen M, Lek M, Cummings B, Tukiainen T, Haritunians T, Halme L, Koskinen LL, Ananthakrishnan AN, Luo Y, Heap GA, Visschedijk MC, , , MacArthur DG, Neale BM, Ahmad T, Anderson CA, Brant SR, Duerr RH, Silverberg MS, Cho JH, Palotie A, Saavalainen P, Kontula K, Fä ...
Nat Commun. 2016;7:12869 - PMID: 27619887 - PMCID: PMC5027274 - DOI: 10.1038/ncomms12869

Genomic analysis of the evolution of fluoroquinolone resistance in Mycobacterium tuberculosis prior to tuberculosis diagnosis.

Zhang D, Gomez JE, Chien JY, Haseley N, Desjardins CA, Earl AM, Hsueh PR, Hung DT
Antimicrob Agents Chemother. 2016;60(11):6600-6608 - PMID: 27572408 - PMCID: PMC5075065 - DOI: 10.1128/AAC.00664-16

On the origin of life.

Szostak JW
Medicina (B Aires). 2016;76(4):199-203 - PMID: 27576276

A highly reactive imidazolium-bridged dinucleotide intermediate in nonenzymatic RNA primer extension.

Walton T, Szostak JW
J Am Chem Soc. 2016;138(36):11996-2002 - PMID: 27552367 - DOI: 10.1021/jacs.6b07977

Increased Intestinal Microbial Diversity Following Fecal Microbiota Transplant for Active Crohn's Disease.

Vaughn BP, Vatanen T, Allegretti JR, Bai A, Xavier RJ, Korzenik J, Gevers D, Ting A, Robson SC, Moss AC
Inflamm Bowel Dis. 2016;22(9):2182-90 - PMID: 27542133 - PMCID: PMC4995064 - DOI: 10.1097/MIB.0000000000000893

Proteasome dysfunction triggers activation of SKN-1A/Nrf1 by the aspartic protease DDI-1.

Lehrbach NJ, Ruvkun G
Elife. 2016;5:ePub - PMID: 27528192 - PMCID: PMC4987142 - DOI: 10.7554/eLife.17721

Prevention of Burn-Induced Inflammatory Responses and Muscle Wasting By GTS-21, A Specific Agonist for ?7 Nicotinic Acetylcholine Receptors.

Kashiwagi S, Khan MA, Yasuhara S, Goto T, Tompkins RG, Kaneki M, Martyn JA
Shock. 2016;47(1):61-69 - PMID: 27529131 - PMCID: PMC5167674 - DOI: 10.1097/SHK.0000000000000729

A protein-truncating R179X variant in RNF186 confers protection against ulcerative colitis.

Rivas MA, Graham D, Sulem P, Stevens C, Desch AN, Goyette P, Gudbjartsson D, Jonsdottir I, Thorsteinsdottir U, Degenhardt F, Mucha S, Kurki MI, Li D, D'Amato M, Annese V, Vermeire S, Weersma RK, Halfvarson J, Paavola-Sakki P, Lappalainen M, Lek M, Cummings B, Tukiainen T, Haritunians T, Halme L, Koskinen LL, Ananthakrishnan AN, Luo Y, Heap GA, Visschedijk MC, , , MacArthur DG, Neale BM, Ahmad T, Anderson CA, Brant SR, Duerr RH, Silverberg MS, Cho JH, Palotie A, Saavalainen P, Kontula K, Fä ...
Nat Commun. 2016;7:12342 - PMID: 27503255 - PMCID: PMC4980482 - DOI: 10.1038/ncomms12342

A pleiotropic missense variant in SLC39A8 is associated with Crohn's disease and human gut microbiome composition.

Li D, Achkar JP, Haritunians T, Jacobs JP, Hui KY, D'Amato M, Brand S, Radford-Smith G, Halfvarson J, Niess JH, Kugathasan S, Büning C, Schumm LP, Klei L, Ananthakrishnan A, Aumais G, Baidoo L, Dubinsky M, Fiocchi C, Glas J, Milgrom R, Proctor DD, Regueiro M, Simms LA, Stempak JM, Targan SR, Törkvist L, Sharma Y, Devlin B, Borneman J, Hakonarson H, Xavier RJ, Daly M, Brant SR, Rioux JD, Silverberg MS, Cho JH, Braun J, McGovern DP, Duerr RH
Gastroenterology. 2016;151(4):724-32 - PMID: 27492617 - PMCID: PMC5037008 - DOI: 10.1053/j.gastro.2016.06.051

Understanding human immune function using the resources from the Human Functional Genomics Project.

Netea MG, Joosten LA, Li Y, Kumar V, Oosting M, Smeekens S, Jaeger M, Ter Horst R, Schirmer M, Vlamakis H, Notebaart R, Pavelka N, Aguirre-Gamboa RR, Swertz MA, Tunjungputri RN, van de Heijden W, Franzosa EA, Ng A, Graham D, Lassen K, Schraa K, Netea-Maier R, Smit J, de Mast Q, van de Veerdonk F, Kullberg BJ, Tack C, van de Munckhof I, Rutten J, van der Graaf J, Franke L, Hofker M, Jonkers I, Platteel M, Maatman A, Fu J, Zhernakova A, van der Meer JW, Dinarello CA, van der Ven A, Huttenhouwe ...
Nat Med. 2016;22(8):831-833 - PMID: 27490433 - DOI: 10.1038/nm.4140

Accelerating global innovation to address antibacterial resistance: introducing CARB-X.

Outterson K, Rex JH, Jinks T, Jackson P, Hallinan J, Karp S, Hung DT, Franceschi F, Merkeley T, Houchens C, Dixon DM, Kurilla MG, Aurigemma R, Larsen J
Nat Rev Drug Discov. 2016;15(9):589-90 - PMID: 27469032 - DOI: 10.1038/nrd.2016.155

Molecular Imaging of Smoke-Induced Changes in Nuclear Factor-Kappa B Expression in Murine Tissues Including the Lung.

Syrkina O, Hales CH, Bonab AA, Hamrahi V, Paul K, Jung WJ, Tompkins RG, Fischman AJ, Carter EA
J Burn Care Res. 2016;37(6):335-342 - PMID: 27437954 - DOI: 10.1097/BCR.0000000000000394

A highly multiplexed and sensitive RNA-seq protocol for simultaneous analysis of host and pathogen transcriptomes.

Avraham R, Haseley N, Fan A, Bloom-Ackermann Z, Livny J, Hung DT
Nat Protoc. 2016;11(8):1477-1491 - PMID: 27442864 - DOI: 10.1038/nprot.2016.090

Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease.

Shaw KA, Bertha M, Hofmekler T, Chopra P, Vatanen T, Srivatsa A, Prince J, Kumar A, Sauer C, Zwick ME, Satten GA, Kostic AD, Mulle JG, Xavier RJ, Kugathasan S
Genome Med. 2016;8(1):75 - PMID: 27412252 - PMCID: PMC4944441 - DOI: 10.1186/s13073-016-0331-y

A microRNA program in the C. elegans hypodermis couples to intestinal mTORC2/PQM-1 signaling to modulate fat transport.

Dowen RH, Breen PC, Tullius T, Conery AL, Ruvkun G
Genes Dev. 2016;30(13):1515-28 - PMID: 27401555 - PMCID: PMC4949325 - DOI: 10.1101/gad.283895.116

Inter-individual variability and genetic influences on cytokine responses to bacteria and fungi.

Li Y, Oosting M, Deelen P, Ricaño-Ponce I, Smeekens S, Jaeger M, Matzaraki V, Swertz MA, Xavier RJ, Franke L, Wijmenga C, Joosten LA, Kumar V, Netea MG
Nat Med. 2016;22(8):952-960 - PMID: 27376574 - PMCID: PMC5084084 - DOI: 10.1038/nm.4139

Introduction to Gene Editing and Manipulation Using CRISPR/Cas9 Technology.

Newman M, Ausubel FM
Curr Protoc Mol Biol. 2016;115:31.4.1-6 - PMID: 27366890 - PMCID: PMC4963815 - DOI: 10.1002/cpmb.14

Nonenzymatic copying of RNA templates containing all four letters is catalyzed by activated oligonucleotides.

Prywes N, Blain JC, Del Frate F, Szostak JW
Elife. 2016;5:ePub - PMID: 27351102 - PMCID: PMC4959843 - DOI: 10.7554/eLife.17756

Functional CRISPR screening identifies the ufmylation pathway as a regulator of SQSTM1/p62.

DeJesus R, Moretti F, McAllister G, Wang Z, Bergman P, Liu S, Frias E, Alford J, Reece-Hoyes JS, Lindeman A, Kelliher J, Russ C, Knehr J, Carbone W, Beibel M, Roma G, Ng A, Tallarico JA, Porter JA, Xavier RJ, Mickanin C, Murphy LO, Hoffman GR, Nyfeler B
Elife. 2016;5:ePub - PMID: 27351204 - PMCID: PMC4924995 - DOI: 10.7554/eLife.17290

Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells.

Kleinstiver BP, Tsai SQ, Prew MS, Nguyen NT, Welch MM, Lopez JM, McCaw ZR, Aryee MJ, Joung JK
Nat Biotechnol. 2016;34(8):869-874 - PMID: 27347757 - PMCID: PMC4980201 - DOI: 10.1038/nbt.3620

Microbiota as Therapeutic Targets.

Xavier RJ
Dig Dis. 2016;34(5):558-565 - PMID: 27331403 - DOI: 10.1159/000445263

Baeyer-Villiger Monooxygenases EthA and MymA Are Required for Activation of Replicating and Non-replicating Mycobacterium tuberculosis Inhibitors.

Grant SS, Wellington S, Kawate T, Desjardins CA, Silvis MR, Wivagg C, Thompson M, Gordon K, Kazyanskaya E, Nietupski R, Haseley N, Iwase N, Earl AM, Fitzgerald M, Hung DT
Cell Chem Biol. 2016;23(6):666-77 - PMID: 27321573 - PMCID: PMC4920728 - DOI: 10.1016/j.chembiol.2016.05.011

Caenorhabditis elegans responses to bacteria from its natural habitats.

Samuel BS, Rowedder H, Braendle C, Félix MA, Ruvkun G
Proc Natl Acad Sci U S A. 2016;113(27):E3941-9 - PMID: 27317746 - PMCID: PMC4941482 - DOI: 10.1073/pnas.1607183113

Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability.

Yassour M, Vatanen T, Siljander H, Hämäläinen AM, Härkönen T, Ryhänen SJ, Franzosa EA, Vlamakis H, Huttenhower C, Gevers D, Lander ES, Knip M, , Xavier RJ
Sci Transl Med. 2016;8(343):343ra81 - PMID: 27306663 - PMCID: PMC5032909 - DOI: 10.1126/scitranslmed.aad0917

Profiling DNA damage-induced phosphorylation in budding yeast reveals diverse signaling networks.

Zhou C, Elia AE, Naylor ML, Dephoure N, Ballif BA, Goel G, Xu Q, Ng A, Chou DM, Xavier RJ, Gygi SP, Elledge SJ
Proc Natl Acad Sci U S A. 2016;113(26):E3667-75 - PMID: 27298372 - PMCID: PMC4932963 - DOI: 10.1073/pnas.1602827113

Genetic Coding Variant in GPR65 Alters Lysosomal pH and Links Lysosomal Dysfunction with Colitis Risk.

Lassen KG, McKenzie CI, Mari M, Murano T, Begun J, Baxt LA, Goel G, Villablanca EJ, Kuo SY, Huang H, Macia L, Bhan AK, Batten M, Daly MJ, Reggiori F, Mackay CR, Xavier RJ
Immunity. 2016;44(6):1392-1405 - PMID: 27287411 - PMCID: PMC4936415 - DOI: 10.1016/j.immuni.2016.05.007

The T300A Crohn's disease risk polymorphism impairs function of the WD40 domain of ATG16L1.

Boada-Romero E, Serramito-Gómez I, Sacristán MP, Boone DL, Xavier RJ, Pimentel-Muiños FX
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Associations with rhizosphere bacteria can confer an adaptive advantage to plants.

Haney CH, Samuel BS, Bush J, Ausubel FM
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Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.

Vatanen T, Kostic AD, d'Hennezel E, Siljander H, Franzosa EA, Yassour M, Kolde R, Vlamakis H, Arthur TD, Hämäläinen AM, Peet A, Tillmann V, Uibo R, Mokurov S, Dorshakova N, Ilonen J, Virtanen SM, Szabo SJ, Porter JA, Lähdesmäki H, Huttenhower C, Gevers D, Cullen TW, Knip M, , Xavier RJ
Cell. 2016;165(6):1551 - PMID: 27259157 - DOI: 10.1016/j.cell.2016.05.056

Gene-microbiota interactions contribute to the pathogenesis of inflammatory bowel disease.

Chu H, Khosravi A, Kusumawardhani IP, Kwon AH, Vasconcelos AC, Cunha LD, Mayer AE, Shen Y, Wu WL, Kambal A, Targan SR, Xavier RJ, Ernst PB, Green DR, McGovern DP, Virgin HW, Mazmanian SK
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Isocitrate dehydrogenase mutations confer dasatinib hypersensitivity and SRC-dependence in intrahepatic cholangiocarcinoma.

Saha SK, Gordan JD, Kleinstiver BP, Vu P, Najem MS, Yeo JC, Shi L, Kato Y, Levin RS, Webber JT, Damon LJ, Egan RK, Greninger P, McDermott U, Garnett MJ, Jenkins RL, Rieger-Christ KM, Sullivan TB, Hezel AF, Liss AS, Mizukami Y, Goyal L, Ferrone CR, Zhu AX, Joung JK, Shokat KM, Benes CH, Bardeesy N
Cancer Discov. 2016;6(7):727-39 - PMID: 27231123 - PMCID: PMC5458737 - DOI: 10.1158/2159-8290.CD-15-1442

Development of Chemical Probes for Investigation of Salt-Inducible Kinase Function In Vivo.

Sundberg TB, Liang Y, Wu H, Choi HG, Kim ND, Sim T, Johannessen L, Petrone A, Khor B, Graham DB, Latorre IJ, Phillips AJ, Schreiber SL, Perez J, Shamji AF, Gray NS, Xavier RJ
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Simultaneous Pathway Activity Inference and Gene Expression Analysis Using RNA Sequencing.

O'Connell DJ, Kolde R, Sooknah M, Graham DB, Sundberg TB, Latorre IJ, Mikkelsen TS, Xavier RJ
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Role of Elevated Fibrinogen in Burn-Induced Mitochondrial Dysfunction: Protective Effects of Glycyrrhizin.

Ueki R, Liu L, Kashiwagi S, Kaneki M, Khan M, Hirose M, Tompkins RG, Martyn JA, Yasuhara S
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Coagulation Biomarkers in Healthy Chinese-Origin Rhesus Macaques (Macaca mulatta).

Frydman GH, Bendapudi PK, Marini RP, Vanderburg CR, Tompkins RG, Fox JG
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Mechanisms of Pediatric Inflammatory Bowel Disease.

Peloquin JM, Goel G, Villablanca EJ, Xavier RJ
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CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands.

Lamas B, Richard ML, Leducq V, Pham HP, Michel ML, Da Costa G, Bridonneau C, Jegou S, Hoffmann TW, Natividad JM, Brot L, Taleb S, Couturier-Maillard A, Nion-Larmurier I, Merabtene F, Seksik P, Bourrier A, Cosnes J, Ryffel B, Beaugerie L, Launay JM, Langella P, Xavier RJ, Sokol H
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Open-source guideseq software for analysis of GUIDE-seq data.

Tsai SQ, Topkar VV, Joung JK, Aryee MJ
Nat Biotechnol. 2016;34(5):483 - PMID: 27153277 - DOI: 10.1038/nbt.3534

Clinical Activity and Quality of Life Indices Are Valid Across Ulcerative Colitis But Not Crohn's Disease Phenotypes.

Taleban S, Stewart KO, Li DK, Singh P, Pardi DS, Sturgeon HC, Yajnik V, Xavier RJ, Ananthakrishnan AN, Khalili H
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Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.

Vatanen T, Kostic AD, d'Hennezel E, Siljander H, Franzosa EA, Yassour M, Kolde R, Vlamakis H, Arthur TD, Hämäläinen AM, Peet A, Tillmann V, Uibo R, Mokurov S, Dorshakova N, Ilonen J, Virtanen SM, Szabo SJ, Porter JA, Lähdesmäki H, Huttenhower C, Gevers D, Cullen TW, Knip M, , Xavier RJ
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Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity.

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Thiolated uridine substrates and templates improve the rate and fidelity of ribozyme-catalyzed RNA copying.

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Trained immunity: A program of innate immune memory in health and disease.

Netea MG, Joosten LA, Latz E, Mills KH, Natoli G, Stunnenberg HG, O'Neill LA, Xavier RJ
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A simple physical mechanism enables homeostasis in primitive cells.

Engelhart AE, Adamala KP, Szostak JW
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Defining and improving the genome-wide specificities of CRISPR-Cas9 nucleases.

Tsai SQ, Joung JK
Nat Rev Genet. 2016;17(5):300-12 - PMID: 27087594 - DOI: 10.1038/nrg.2016.28

Jasmonate signalling in Arabidopsis involves SGT1b-HSP70-HSP90 chaperone complexes.

Zhang XC, Millet YA, Cheng Z, Bush J, Ausubel FM
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Cyclodextrin promotes atherosclerosis regression via macrophage reprogramming.

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Associations with rhizosphere bacteria can confer an adaptive advantage to plants.

Haney CH, Samuel BS, Bush J, Ausubel FM
Nat Plants. 2015;1(6):ePub - PMID: 27019743 - PMCID: PMC4806546 - DOI: 10.1038/nplants.2015.51

ABCA7 Deficiency Accelerates Amyloid-? Generation and Alzheimer's Neuronal Pathology.

Sakae N, Liu CC, Shinohara M, Frisch-Daiello J, Ma L, Yamazaki Y, Tachibana M, Younkin L, Kurti A, Carrasquillo MM, Zou F, Sevlever D, Bisceglio G, Gan M, Fol R, Knight P, Wang M, Han X, Fryer JD, Fitzgerald ML, Ohyagi Y, Younkin SG, Bu G, Kanekiyo T
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Timothy C. Wang, MD: Our next AGA President.

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Quantifying Risk Factors for Long-Term Sleep Problems After Burn Injury in Young Adults.

Lee AF, Ryan CM, Schneider JC, Kazis LE, Li NC, Rose M, Liang MH, Wang C, Palmieri T, Meyer WJ, Pidcock FS, Reilly D, Sheridan RL, Tompkins RG,
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Collaboration between primitive cell membranes and soluble catalysts.

Adamala KP, Engelhart AE, Szostak JW
Nat Commun. 2016;7:11041 - PMID: 26996603 - PMCID: PMC4802160 - DOI: 10.1038/ncomms11041

Mutation of the Glucosinolate Biosynthesis Enzyme Cytochrome P450 83A1 Monooxygenase Increases Camalexin Accumulation and Powdery Mildew Resistance.

Liu S, Bartnikas LM, Volko SM, Ausubel FM, Tang D
Front Plant Sci. 2016;7:227 - PMID: 26973671 - PMCID: PMC4774424 - DOI: 10.3389/fpls.2016.00227

Experimental and computational evidence for a loose transition state in phosphoroimidazolide hydrolysis.

Li L, Lelyveld VS, Prywes N, Szostak JW
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?v Integrins combine with LC3 and atg5 to regulate Toll-like receptor signalling in B cells.

Acharya M, Sokolovska A, Tam JM, Conway KL, Stefani C, Raso F, Mukhopadhyay S, Feliu M, Paul E, Savill J, Hynes RO, Xavier RJ, Vyas JM, Stuart LM, Lacy-Hulbert A
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Impaired antibacterial autophagy links granulomatous intestinal inflammation in Niemann-Pick disease type C1 and XIAP deficiency with NOD2 variants in Crohn's disease.

Schwerd T, Pandey S, Yang HT, Bagola K, Jameson E, Jung J, Lachmann RH, Shah N, Patel SY, Booth C, Runz H, Düker G, Bettels R, Rohrbach M, Kugathasan S, Chapel H, Keshav S, Elkadri A, Platt N, Muise AM, Koletzko S, Xavier RJ, Marquardt T, Powrie F, Wraith JE, Gyrd-Hansen M, Platt FM, Uhlig HH
Gut. 2016;66(6):1060-1073 - PMID: 26953272 - PMCID: PMC5532464 - DOI: 10.1136/gutjnl-2015-310382

Recovery Curves for Pediatric Burn Survivors: Advances in Patient-Oriented Outcomes.

Kazis LE, Lee AF, Rose M, Liang MH, Li NC, Ren XS, Sheridan R, Gilroy-Lewis J, Stoddard F, Hinson M, Warden G, Stubbs K, Blakeney P, Meyer W, McCauley R, Herndon D, Palmieri T, Mooney K, Wood D, Pidcock F, Reilly D, Cullen M, Calvert C, Ryan CM, Schneider JC, Soley-Bori M, Tompkins RG
JAMA Pediatr. 2016;170(6):534-542 - PMID: 26953515 - DOI: 10.1001/jamapediatrics.2015.4722

New Regulatory Roles of Galectin-3 in the High-affinity IgE Receptor Signaling.

Bambouskova M, Polakovicova I, Halova I, Goel G, Draberova L, Bugajev V, Doan A, Utekal P, Gardet A, Xavier RJ, Draber P
Mol Cell Biol. 2016;36(9):1366-82 - PMID: 26929198 - PMCID: PMC4836217 - DOI: 10.1128/MCB.00064-16

NH125 kills methicillin-resistant Staphylococcus aureus persisters by lipid bilayer disruption.

Kim W, Fricke N, Conery AL, Fuchs BB, Rajamuthiah R, Jayamani E, Vlahovska PM, Ausubel FM, Mylonakis E
Future Med Chem. 2016;8(3):257-69 - PMID: 26910612 - PMCID: PMC4976882 - DOI: 10.4155/fmc.15.189

Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes.

Yassour M, Lim MY, Yun HS, Tickle TL, Sung J, Song YM, Lee K, Franzosa EA, Morgan XC, Gevers D, Lander ES, Xavier RJ, Birren BW, Ko G, Huttenhower C
Genome Med. 2016;8(1):17 - PMID: 26884067 - PMCID: PMC4756455 - DOI: 10.1186/s13073-016-0271-6

Synthesis of activated 3'-amino-3'-deoxy-2-thio-thymidine, a superior substrate for the nonenzymatic copying of nucleic acid templates.

Izgu EC, Oh SS, Szostak JW
Chem Commun (Camb). 2016;52(18):3684-6 - PMID: 26857159 - DOI: 10.1039/c5cc10317g

Planetary Protection and Mars Special Regions-A Suggestion for Updating the Definition.

Rettberg P, Anesio AM, Baker VR, Baross JA, Cady SL, Detsis E, Foreman CM, Hauber E, Ori GG, Pearce DA, Renno NO, Ruvkun G, Sattler B, Saunders MP, Smith DH, Wagner D, Westall F
Astrobiology. 2016;16(2):119-125 - PMID: 26848950 - DOI: 10.1089/ast.2016.1472

The Glue Grant experience: characterizing the post injury genomic response.

Cuenca AG, Maier RV, Cuschieri J, Moore EE, Moldawer LL, Tompkins RG,
Eur J Trauma Emerg Surg. 2011;37(6):549-58 - PMID: 26815465 - DOI: 10.1007/s00068-011-0148-8

On the Mechanism of Berberine-INF55 (5-Nitro-2-phenylindole) Hybrid Antibacterials.

Dolla NK, Chen C, Larkins-Ford J, Rajamuthiah R, Jagadeesan S, Conery AL, Ausubel FM, Mylonakis E, Bremner JB, Lewis K, Kelso MJ
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Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition).

Klionsky DJ, Abdelmohsen K, Abe A, Abedin MJ, Abeliovich H, Acevedo Arozena A, Adachi H, Adams CM, Adams PD, Adeli K, Adhihetty PJ, Adler SG, Agam G, Agarwal R, Aghi MK, Agnello M, Agostinis P, Aguilar PV, Aguirre-Ghiso J, Airoldi EM, Ait-Si-Ali S, Akematsu T, Akporiaye ET, Al-Rubeai M, Albaiceta GM, Albanese C, Albani D, Albert ML, Aldudo J, Algül H, Alirezaei M, Alloza I, Almasan A, Almonte-Beceril M, Alnemri ES, Alonso C, Altan-Bonnet N, Altieri DC, Alvarez S, Alvarez-Erviti L, Alves S, A ...
Autophagy. 2016;12(1):1-222 - PMID: 26799652 - PMCID: PMC4835977 - DOI: 10.1080/15548627.2015.1100356

The burn outcome questionnaires: Patient and family reported outcome metrics for children of all ages.

Ryan CM, Cartwright S, Schneider JC, Tompkins RG, Kazis LE
Burns. 2016;42(5):1144-5 - PMID: 26803370 - DOI: 10.1016/j.burns.2015.10.033

Hold the Pendulum: Rates of Acute Kidney Injury are Increased in Patients Who Receive Resuscitation Volumes Less than Predicted by the Parkland Equation.

Mason SA, Nathens AB, Finnerty CC, Gamelli RL, Gibran NS, Arnoldo BD, Tompkins RG, Herndon DN, Jeschke MG,
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Mouse embryonic fibroblasts exhibit extensive developmental and phenotypic diversity.

Singhal PK, Sassi S, Lan L, Au P, Halvorsen SC, Fukumura D, Jain RK, Seed B
Proc Natl Acad Sci U S A. 2015;113(1):122-7 - PMID: 26699463 - PMCID: PMC4711836 - DOI: 10.1073/pnas.1522401112

Proton pump inhibitors affect the gut microbiome.

Imhann F, Bonder MJ, Vich Vila A, Fu J, Mujagic Z, Vork L, Tigchelaar EF, Jankipersadsing SA, Cenit MC, Harmsen HJ, Dijkstra G, Franke L, Xavier RJ, Jonkers D, Wijmenga C, Weersma RK, Zhernakova A
Gut. 2015;65(5):740-8 - PMID: 26657899 - PMCID: PMC4853569 - DOI: 10.1136/gutjnl-2015-310376

In vivo high-resolution magic angle spinning magnetic and electron paramagnetic resonance spectroscopic analysis of mitochondria-targeted peptide in Drosophila melanogaster with trauma-induced thoracic injury.

Constantinou C, Apidianakis Y, Psychogios N, Righi V, Mindrinos MN, Khan N, Swartz HM, Szeto HH, Tompkins RG, Rahme LG, Tzika AA
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Accelerating research through reagent repositories: the genome editing example.

Joung JK, Voytas DF, Kamens J
Genome Biol. 2015;16(1):255 - PMID: 26585970 - PMCID: PMC4653914 - DOI: 10.1186/s13059-015-0830-y

Pinpointing RNA-protein crosslinks with site-specific stable isotope labeled oligonucleotides.

Lelyveld VS, Bjorkbom A, Ransey E, Sliz P, Szostak JW
J Am Chem Soc. 2015;137(49):15378-15381 - PMID: 26583201 - PMCID: PMC4697197 - DOI: 10.1021/jacs.5b10596

Flow Cytometric Analysis of Mononuclear Phagocytes in Non-diseased Human Lung and Lung-draining Lymph Nodes.

Desch AN, Gibbings SL, Goyal R, Kolde R, Bednarek J, Bruno T, Slansky JE, Jacobelli J, Mason R, Ito Y, Messier E, Randolph GJ, Prabagar M, Atif SM, Segura E, Xavier RJ, Bratton DL, Janssen WJ, Henson PM, Jakubzick CV
Am J Respir Crit Care Med. 2015;193(6):614-626 - PMID: 26551758 - PMCID: PMC4824940 - DOI: 10.1164/rccm.201507-1376OC

Early Leukocyte Gene Expression Associated with Age, Burn Size, and Inhalation Injury in Severely Burned Adults.

Sood RF, Gibran NS, Arnoldo BD, Gamelli RL, Herndon DN, Tompkins RG, Inflammation T, Investigators TH
J Trauma Acute Care Surg. 2015;80(2):250-7 - PMID: 26517785 - PMCID: PMC4731271 - DOI: 10.1097/TA.0000000000000905

Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition.

Kleinstiver BP, Prew MS, Tsai SQ, Nguyen NT, Topkar VV, Zheng Z, Joung JK
Nat Biotechnol. 2015;33(12):1293-1298 - PMID: 26524662 - PMCID: PMC4689141 - DOI: 10.1038/nbt.3404

Kidney and Liver Injuries After Major Burns in Rats Are Prevented by Resolvin D2.

Inoue Y, Yu YM, Kurihara T, Vasilyev A, Ibrahim A, Oklu R, Zhao G, Nair AV, Brown D, Fischman AJ, Tompkins RG, Irimia D
Crit Care Med. 2015;44(5):e241-52 - PMID: 26509319 - PMCID: PMC4833510 - DOI: 10.1097/CCM.0000000000001397

LXR agonism up-regulates the macrophage ABCA1/syntrophin protein complex which can bind apoA-I and stabilized ABCA1 protein, but complex loss does not inhibit lipid efflux.

Tamehiro N, Park MH, Hawxhurst V, Nagpal K, Adams ME, Zannis VI, Golenbock DT, Fitzgerald ML
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Bidirectional direct sequencing of non-canonical RNA by two-dimensional analysis of mass chromatograms.

Bjorkbom A, Lelyveld VS, Zhang S, Zhang W, Tam CP, Blain JC, Szostak JW
J Am Chem Soc. 2015;137(45):14430-14438 - PMID: 26495937 - DOI: 10.1021/jacs.5b09438

Gene Expression of Proresolving Lipid Mediator Pathways Is Associated With Clinical Outcomes in Trauma Patients.

Orr SK, Butler KL, Hayden D, Tompkins RG, Serhan CN, Irimia D
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Ubiquitin Ligase TRIM62 Regulates CARD9-Mediated Anti-fungal Immunity and Intestinal Inflammation.

Cao Z, Conway KL, Heath RJ, Rush JS, Leshchiner ES, Ramirez-Ortiz ZG, Nedelsky NB, Huang H, Ng A, Gardet A, Cheng SC, Shamji AF, Rioux JD, Wijmenga C, Netea MG, Means TK, Daly MJ, Xavier RJ
Immunity. 2015;43(4):715-726 - PMID: 26488816 - PMCID: PMC4672733 - DOI: 10.1016/j.immuni.2015.10.005

Novel links in the plant TOR kinase signaling network.

Xiong Y, Sheen J
Curr Opin Plant Biol. 2015;28:83-91 - PMID: 26476687 - PMCID: PMC4612364 - DOI: 10.1016/j.pbi.2015.09.006

Antibacterial properties of 3-(phenylsulfonyl)-2-pyrazinecarbonitrile.

Rajamuthiah R, Jayamani E, Majed H, Conery AL, Kim W, Kwon B, Fuchs BB, Kelso MJ, Ausubel FM, Mylonakis E
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Genome Editing in Human Cells Using CRISPR/Cas Nucleases.

Wyvekens N, Tsai SQ, Joung JK
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Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses.

Avraham R, Haseley N, Brown D, Penaranda C, Jijon HB, Trombetta JJ, Satija R, Shalek AK, Xavier RJ, Regev A, Hung DT
Cell. 2015;162(6):1309-21 - PMID: 26343579 - PMCID: PMC4578813 - DOI: 10.1016/j.cell.2015.08.027

A Noncanonical Autophagy Pathway Restricts Toxoplasma gondii Growth in a Strain-Specific Manner in IFN-?-Activated Human Cells.

Selleck EM, Orchard RC, Lassen KG, Beatty WL, Xavier RJ, Levine B, Virgin HW, Sibley LD
MBio. 2015;6(5):e01157-15 - PMID: 26350966 - PMCID: PMC4600106 - DOI: 10.1128/mBio.01157-15

The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids.

Fu J, Bonder MJ, Cenit MC, Tigchelaar E, Maatman A, Dekens JA, Brandsma E, Marczynska J, Imhann F, Weersma RK, Franke L, Poon TW, Xavier RJ, Gevers D, Hofker MH, Wijmenga C, Zhernakova A
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Dialogue between E. coli free radical pathways and the mitochondria of C. elegans.

Govindan JA, Jayamani E, Zhang X, Mylonakis E, Ruvkun G
Proc Natl Acad Sci U S A. 2015;112(40):12456-61 - PMID: 26392561 - PMCID: PMC4603447 - DOI: 10.1073/pnas.1517448112

CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants.

Spisák S, Lawrenson K, Fu Y, Csabai I, Cottman RT, Seo JH, Haiman C, Han Y, Lenci R, Li Q, Tisza V, Szállási Z, Herbert ZT, Chabot M, Pomerantz M, Solymosi N, , Gayther SA, Joung JK, Freedman ML
Nat Med. 2015;21(11):1357-1363 - PMID: 26398868 - PMCID: PMC4746056 - DOI: 10.1038/nm.3975

Enhancing immunity by engineering DAMPs.

Cervone F, Ausubel FM, Lorenzo G
Oncotarget. 2015;6(30):28523-4 - PMID: 26387132 - PMCID: PMC4745668 - DOI: 10.18632/oncotarget.5251

Patiromer induces rapid and sustained potassium lowering in patients with chronic kidney disease and hyperkalemia.

Bushinsky DA, Williams GH, Pitt B, Weir MR, Freeman MW, Garza D, Stasiv Y, Li E, Berman L, Bakris GL
Kidney Int. 2015;88(6):1427-1433 - PMID: 26376130 - PMCID: PMC4678168 - DOI: 10.1038/ki.2015.270

A Noncanonical Autophagy Pathway Restricts Toxoplasma gondii Growth in a Strain-Specific Manner in IFN-?-Activated Human Cells.

Selleck EM, Orchard RC, Lassen KG, Beatty WL, Xavier RJ, Levine B, Virgin HW, Sibley LD
MBio. 2015;6(5):e01157-15 - PMID: 26350966 - PMCID: PMC4600106 - DOI: 10.1128/mBio.01157-15

Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses.

Avraham R, Haseley N, Brown D, Penaranda C, Jijon HB, Trombetta JJ, Satija R, Shalek AK, Xavier RJ, Regev A, Hung DT
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HIV infection induces structural and functional changes in high density lipoproteins.

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A Defensin from the Model Beetle Tribolium castaneum Acts Synergistically with Telavancin and Daptomycin against Multidrug Resistant Staphylococcus aureus.

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The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes.

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A new antibiotic with potent activity targets MscL.

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Mitophagy confers resistance to siderophore-mediated killing by Pseudomonas aeruginosa.

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Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease.

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MUT-14 and SMUT-1 DEAD Box RNA Helicases Have Overlapping Roles in Germline RNAi and Endogenous siRNA Formation.

Phillips CM, Montgomery BE, Breen PC, Roovers EF, Rim YS, Ohsumi TK, Newman MA, van Wolfswinkel JC, Ketting RF, Ruvkun G, Montgomery TA
Curr Biol. 2014;24(8):839-44 - PMID: 24684932 - PMCID: PMC4010136 - DOI: 10.1016/j.cub.2014.02.060

Survival From Burns in the New Millennium: 70 Years' Experience From a Single Institution.

Tompkins RG
Ann Surg. 2014;261(2):263-268 - PMID: 24670865 - PMCID: PMC4372065 - DOI: 10.1097/SLA.0000000000000623

Epitope-tagged protein-based artificial miRNA screens for optimized gene silencing in plants.

Li JF, Zhang D, Sheen J
Nat Protoc. 2014;9(4):939-49 - PMID: 24675734 - PMCID: PMC4208271 - DOI: 10.1038/nprot.2014.061

Genetic Polymorphisms in Metabolizing Enzymes Modifying the Association Between Smoking and Inflammatory Bowel Diseases.

Ananthakrishnan AN, Nguyen DD, Sauk J, Yajnik V, Xavier RJ
Inflamm Bowel Dis. 2014;20(5):783-9 - PMID: 24651583 - PMCID: PMC4113010 - DOI: 10.1097/MIB.0000000000000014

High-Throughput Screening for Novel Anti-Infectives Using a C. elegans Pathogenesis Model.

Conery AL, Larkins-Ford J, Ausubel FM, Kirienko NV
Curr Protoc Chem Biol. 2014;6(1):25-37 - PMID: 24652621 - PMCID: PMC4021578 - DOI: 10.1002/9780470559277.ch130160

The treatment-naive microbiome in new-onset Crohn's disease.

Gevers D, Kugathasan S, Denson LA, Vázquez-Baeza Y, Van Treuren W, Ren B, Schwager E, Knights D, Song SJ, Yassour M, Morgan XC, Kostic AD, Luo C, González A, McDonald D, Haberman Y, Walters T, Baker S, Rosh J, Stephens M, Heyman M, Markowitz J, Baldassano R, Griffiths A, Sylvester F, Mack D, Kim S, Crandall W, Hyams J, Huttenhower C, Knight R, Xavier RJ
Cell Host Microbe. 2014;15(3):382-92 - PMID: 24629344 - PMCID: PMC4059512 - DOI: 10.1016/j.chom.2014.02.005

Progress Toward Synthetic Cells.

Blain JC, Szostak JW
Annu Rev Biochem. 2014;83:615-640 - PMID: 24606140 - DOI: 10.1146/annurev-biochem-080411-124036

Membrane potential-dependent uptake of (18)F-triphenylphosphonium-a new voltage sensor as an imaging agent for detecting burn-induced apoptosis.

Zhao G, Yu YM, Shoup TM, Elmaleh DR, Bonab AA, Tompkins RG, Fischman AJ
J Surg Res. 2014;188(2):473-9 - PMID: 24582214 - PMCID: PMC3988254 - DOI: 10.1016/j.jss.2014.01.011

Enterococcus infection biology: Lessons from invertebrate host models.

Yuen GJ, Ausubel FM
J Microbiol. 2014;52(3):200-10 - PMID: 24585051 - PMCID: PMC4556283 - DOI: 10.1007/s12275-014-4011-6

Identification of Host-Targeted Small Molecules That Restrict Intracellular Mycobacterium tuberculosis Growth.

Stanley SA, Barczak AK, Silvis MR, Luo SS, Sogi K, Vokes M, Bray MA, Carpenter AE, Moore CB, Siddiqi N, Rubin EJ, Hung DT
PLoS Pathog. 2014;10(2):e1003946 - PMID: 24586159 - PMCID: PMC3930586 - DOI: 10.1371/journal.ppat.1003946

Human Genome-Wide RNAi Screen Identifies an Essential Role for Inositol Pyrophosphates in Type-I Interferon Response.

Pulloor NK, Nair S, Kostic AD, Bist P, Weaver JD, Riley AM, Tyagi R, Uchil PD, York JD, Snyder SH, García-Sastre A, Potter BV, Lin R, Shears SB, Xavier RJ, Krishnan MN
PLoS Pathog. 2014;10(2):e1003981 - PMID: 24586175 - PMCID: PMC3937324 - DOI: 10.1371/journal.ppat.1003981

Whole Animal Automated Platform for Drug Discovery against Multi-Drug Resistant Staphylococcus aureus.

Rajamuthiah R, Fuchs BB, Jayamani E, Kim Y, Larkins-Ford J, Conery A, Ausubel FM, Mylonakis E
PLoS One. 2014;9(2):e89189 - PMID: 24586584 - PMCID: PMC3929655 - DOI: 10.1371/journal.pone.0089189

Rapid RNA Exchange in Aqueous Two-Phase System and Coacervate Droplets.

Jia TZ, Hentrich C, Szostak JW
Orig Life Evol Biosph. 2014;44(1):1-12 - PMID: 24577897 - PMCID: PMC4141154 - DOI: 10.1007/s11084-014-9355-8

The Microbiome in Inflammatory Bowel Diseases: Current Status and the Future Ahead.

Kostic AD, Xavier RJ, Gevers D
Gastroenterology. 2014;146(6):1489-99 - PMID: 24560869 - PMCID: PMC4034132 - DOI: 10.1053/j.gastro.2014.02.009

Long-term posttraumatic stress symptoms vary inversely with early opiate dosing in children recovering from serious burns: Effects durable at 4 years.

Sheridan RL, Stoddard FJ, Kazis LE, Lee A, Li NC, Kagan RJ, Palmieri TL, Meyer WJ, Nicolai M, Stubbs TK, Chan G, Hinson MI, Herndon DN, Tompkins RG,
J Trauma Acute Care Surg. 2014;76(3):828-832 - PMID: 24553556 - DOI: 10.1097/TA.0b013e3182ab111c

IL-1 receptor blockade restores autophagy and reduces inflammation in chronic granulomatous disease in mice and in humans.

de Luca A, Smeekens SP, Casagrande A, Iannitti R, Conway KL, Gresnigt MS, Begun J, Plantinga TS, Joosten LA, van der Meer JW, Chamilos G, Netea MG, Xavier RJ, Dinarello CA, Romani L, van de Veerdonk FL
Proc Natl Acad Sci U S A. 2014;111(9):3526-31 - PMID: 24550444 - PMCID: PMC3948220 - DOI: 10.1073/pnas.1322831111

HDL redox activity is increased in HIV-infected men in association with macrophage activation and noncalcified coronary atherosclerotic plaque.

Zanni MV, Kelesidis T, Fitzgerald ML, Lo J, Abbara S, Wai B, Marmarelis E, Hernandez NJ, Yang OO, Currier JS, Grinspoon SK
Antivir Ther. 2014;19(8):805-11 - PMID: 24535655 - PMCID: PMC4423391 - DOI: 10.3851/IMP2756

Structural insights into the effects of 2'-5' linkages on the RNA duplex.

Sheng J, Li L, Engelhart AE, Gan J, Wang J, Szostak JW
Proc Natl Acad Sci U S A. 2014;111(8):3050-5 - PMID: 24516151 - PMCID: PMC3939906 - DOI: 10.1073/pnas.1317799111

The Free Energy Landscape of Pseudorotation in 3'-5' and 2'-5' Linked Nucleic Acids.

Li L, Szostak JW
J Am Chem Soc. 2014;136(7):2858-65 - PMID: 24499340 - PMCID: PMC3982932 - DOI: 10.1021/ja412079b

Virulence profile: Frederick M Ausubel.

Ausubel FM
Virulence. 2013;4(8):730-3 - PMID: 24481134 - PMCID: PMC3925705 - DOI: 10.4161/viru.26579

SMAD3 gene variant is a risk factor for recurrent surgery in patients with Crohn's disease.

Fowler SA, Ananthakrishnan AN, Gardet A, Stevens CR, Korzenik JR, Sands BE, Daly MJ, Xavier RJ, Yajnik V
J Crohns Colitis. 2014;8(8):845-51 - PMID: 24461721 - PMCID: PMC4237062 - DOI: 10.1016/j.crohns.2014.01.003

Autophagy is essential for cardiac morphogenesis during vertebrate development.

Lee E, Koo Y, Ng A, Wei Y, Luby-Phelps K, Juraszek A, Xavier RJ, Cleaver O, Levine B, Amatruda JF
Autophagy. 2014;10(4):572-87 - PMID: 24441423 - PMCID: PMC4091146 - DOI: 10.4161/auto.27649

Synthesis and Non-Enzymatic Template-Directed Polymerization of 2'-Amino-2'-Deoxythreose Nucleotides.

Blain JC, Ricardo A, Szostak JW
J Am Chem Soc. 2014;136(5):2033-9 - PMID: 24409991 - PMCID: PMC4105081 - DOI: 10.1021/ja411950n

Differential Effect of Genetic Burden on Disease Phenotypes in Crohn's Disease and Ulcerative Colitis: Analysis of a North American Cohort.

Ananthakrishnan AN, Huang H, Nguyen DD, Sauk J, Yajnik V, Xavier RJ
Am J Gastroenterol. 2014;109(3):395-400 - PMID: 24419484 - PMCID: PMC4225079 - DOI: 10.1038/ajg.2013.464

TOR Signaling Networks in Plant Growth and Metabolism.

Xiong Y, Sheen J
Plant Physiol. 2014;164(2):499-512 - PMID: 24385567 - PMCID: PMC3912084 - DOI: 10.1104/pp.113.229948

Bacterial toxins and small molecules elucidate endosomal trafficking.

Slater LH, Clatworthy AE, Hung DT
Trends Microbiol. 2013;22(2):53-5 - PMID: 24370463 - DOI: 10.1016/j.tim.2013.12.002

Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation.

Kieffer-Kwon KR, Tang Z, Mathe E, Qian J, Sung MH, Li G, Resch W, Baek S, Pruett N, Grøntved L, Vian L, Nelson S, Zare H, Hakim O, Reyon D, Yamane A, Nakahashi H, Kovalchuk AL, Zou J, Joung JK, Sartorelli V, Wei CL, Ruan X, Hager GL, Ruan Y, Casellas R
Cell. 2013;155(7):1507-20 - PMID: 24360274 - PMCID: PMC3905448 - DOI: 10.1016/j.cell.2013.11.039

Multiple small RNA pathways regulate the silencing of repeated and foreign genes in C. elegans.

Fischer SE, Pan Q, Breen PC, Qi Y, Shi Z, Zhang C, Ruvkun G
Genes Dev. 2013;27(24):2678-95 - PMID: 24352423 - PMCID: PMC3877757 - DOI: 10.1101/gad.233254.113

Ancient signals: comparative genomics of green plant CDPKs.

Hamel LP, Sheen J, Séguin A
Trends Plant Sci. 2013;19(2):79-89 - PMID: 24342084 - PMCID: PMC3932502 - DOI: 10.1016/j.tplants.2013.10.009

Correction of Crb1rd8 allele and retinal phenotype in C57BL/6N mice via TALEN-mediated homology-directed repair.

Low BE, Krebs MP, Joung JK, Tsai SQ, Nishina PM, Wiles MV
Invest Ophthalmol Vis Sci. 2013;55(1):387-395 - PMID: 24346171 - PMCID: PMC3921157 - DOI: 10.1167/iovs.13-13278

High-density lipoprotein mediates anti-inflammatory reprogramming of macrophages via the transcriptional regulator ATF3.

De Nardo D, Labzin LI, Kono H, Seki R, Schmidt SV, Beyer M, Xu D, Zimmer S, Lahrmann C, Schildberg FA, Vogelhuber J, Kraut M, Ulas T, Kerksiek A, Krebs W, Bode N, Grebe A, Fitzgerald ML, Hernandez NJ, Williams BR, Knolle P, Kneilling M, Röcken M, Lütjohann D, Wright SD, Schultze JL, Latz E
Nat Immunol. 2013;15(2):152-60 - PMID: 24317040 - PMCID: PMC4009731 - DOI: 10.1038/ni.2784

Feedback control of gene expression.

Sheen J
Photosynth Res. 1994;39(3):427-38 - PMID: 24311134 - DOI: 10.1007/BF00014596

Regulation of levels of nuclear transcripts for C4 photosynthesis in bundle sheath and mesophyll cells of maize leaves.

Sheen JY, Bogorad L
Plant Mol Biol. 1987;8(3):227-38 - PMID: 24301127 - DOI: 10.1007/BF00015031

Endogenous ?-glucocerebrosidase activity in Abca12-/-epidermis elevates ceramide levels after topical lipid application but does not restore barrier function.

Haller JF, Cavallaro P, Hernandez NJ, Dolat L, Soscia SJ, Welti R, Grabowski GA, Fitzgerald ML, Freeman MW
J Lipid Res. 2013;55(3):493-503 - PMID: 24293640 - PMCID: PMC3934733 - DOI: 10.1194/jlr.M044941

The cytokinin side chain commands shooting.

Sheen J
Dev Cell. 2013;27(4):371-2 - PMID: 24286823 - PMCID: PMC3887519 - DOI: 10.1016/j.devcel.2013.11.008

Nonenzymatic template-directed RNA synthesis inside model protocells.

Adamala K, Szostak JW
Science. 2013;342(6162):1098-100 - PMID: 24288333 - PMCID: PMC4104020 - DOI: 10.1126/science.1241888

Differential expression of oxygen-evolving polypeptide genes in maize leaf cell types.

Sheen JY, Sayre RT, Bogorad L
Plant Mol Biol. 1987;9(3):217-26 - PMID: 24276970 - DOI: 10.1007/BF00166458

Autosis is a Na+,K+-ATPase-regulated form of cell death triggered by autophagy-inducing peptides, starvation, and hypoxia-ischemia.

Liu Y, Shoji-Kawata S, Sumpter RM, Wei Y, Ginet V, Zhang L, Posner B, Tran KA, Green DR, Xavier RJ, Shaw SY, Clarke PG, Puyal J, Levine B
Proc Natl Acad Sci U S A. 2013;110(51):20364-71 - PMID: 24277826 - PMCID: PMC3870705 - DOI: 10.1073/pnas.1319661110

Deletion of the Murine Cytochrome P450 Cyp2j Locus by Fused BAC-Mediated Recombination Identifies a Role for Cyp2j in the Pulmonary Vascular Response to Hypoxia.

Zhou GL, Beloiartsev A, Yu B, Baron DM, Zhou W, Niedra R, Lu N, Tainsh LT, Zapol WM, Seed B, Bloch KD
PLoS Genet. 2013;9(11):e1003950 - PMID: 24278032 - PMCID: PMC3836722 - DOI: 10.1371/journal.pgen.1003950

Pathogen-Triggered Ethylene Signaling Mediates Systemic-Induced Susceptibility to Herbivory in Arabidopsis.

Groen SC, Whiteman NK, Bahrami AK, Wilczek AM, Cui J, Russell JA, Cibrian-Jaramillo A, Butler IA, Rana JD, Huang GH, Bush J, Ausubel FM, Pierce NE
Plant Cell. 2013;25(11):4755-66 - PMID: 24285796 - PMCID: PMC3875748 - DOI: 10.1105/tpc.113.113415

High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis.

Schwartz S, Agarwala SD, Mumbach MR, Jovanovic M, Mertins P, Shishkin A, Tabach Y, Mikkelsen TS, Satija R, Ruvkun G, Carr SA, Lander ES, Fink GR, Regev A
Cell. 2013;155(6):1409-21 - PMID: 24269006 - PMCID: PMC3956118 - DOI: 10.1016/j.cell.2013.10.047

Pseudomonas syringae Effector HopF2 Suppresses Arabidopsis Immunity by Targeting BAK1.

Zhou J, Wu S, Chen X, Liu C, Sheen J, Shan L, He P
Plant J. 2013;77(2):235-45 - PMID: 24237140 - PMCID: PMC4224013 - DOI: 10.1111/tpj.12381

Autophagy is redundant for the host defense against systemic Candida albicans infections.

Smeekens SP, Malireddi RK, Plantinga TS, Buffen K, Oosting M, Joosten LA, Kullberg BJ, Perfect JR, Scott WK, van de Veerdonk FL, Xavier RJ, van de Vosse E, Kanneganti TD, Johnson MD, Netea MG
Eur J Clin Microbiol Infect Dis. 2013;33(5):711-22 - PMID: 24202731 - DOI: 10.1007/s10096-013-2002-x

Genetic Regulation of Caenorhabditis elegans Lysosome Related Organelle Function.

Soukas AA, Carr CE, Ruvkun G
PLoS Genet. 2013;9(10):e1003908 - PMID: 24204312 - PMCID: PMC3812091 - DOI: 10.1371/journal.pgen.1003908

Long-Lasting Effects of BCG Vaccination on Both Heterologous Th1/Th17 Responses and Innate Trained Immunity.

Kleinnijenhuis J, Quintin J, Preijers F, Benn CS, Joosten LA, Jacobs C, van Loenhout J, Xavier RJ, Aaby P, van der Meer JW, van Crevel R, Netea MG
J Innate Immun. 2013;6(2):152-8 - PMID: 24192057 - PMCID: PMC3944069 - DOI: 10.1159/000355628

Selective activation of nuclear factor kappa B in the cochlea by sensory and inflammatory stress.

Adams JC, Seed B, Lu N, Landry A, Xavier RJ
Neuroscience. 2009;160(2):530-9 - PMID: 19285117 - PMCID: PMC2673023 - DOI: 10.1016/j.neuroscience.2009.02.073

Genome-wide association studies: a new window into immune-mediated diseases.

Xavier RJ, Rioux JD
Nat Rev Immunol. 2008;8(8):631-43 - PMID: 18654571 - PMCID: PMC2750781 - DOI: 10.1038/nri2361

Molecular association between beta-catenin degradation complex and Rac guanine exchange factor DOCK4 is essential for Wnt/beta-catenin signaling.

Upadhyay G, Goessling W, North TE, Xavier R, Zon LI, Yajnik V
Oncogene. 2008;27(44):5845-55 - PMID: 18641688 - PMCID: PMC4774646 - DOI: 10.1038/onc.2008.202

Improvement of bone disease by imiglucerase (Cerezyme) therapy in patients with skeletal manifestations of type 1 Gaucher disease: results of a 48-month longitudinal cohort study.

Sims KB, Pastores GM, Weinreb NJ, Barranger J, Rosenbloom BE, Packman S, Kaplan P, Mankin H, Xavier R, Angell J, Fitzpatrick MA, Rosenthal D
Clin Genet. 2008;73(5):430-40 - PMID: 18312448 - PMCID: PMC2440418 - DOI: 10.1111/j.1399-0004.2008.00978.x

L-histidine decarboxylase decreases its own transcription through downregulation of ERK activity.

Colucci R, Fleming JV, Xavier R, Wang TC
Am J Physiol Gastrointest Liver Physiol. 2001;281(4):G1081-91 - PMID: 11557529 - DOI: 10.1152/ajpgi.2001.281.4.G1081

Hepatitis C virus replication is directly inhibited by IFN-alpha in a full-length binary expression system.

Chung RT, He W, Saquib A, Contreras AM, Xavier RJ, Chawla A, Wang TC, Schmidt EV
Proc Natl Acad Sci U S A. 2001;98(17):9847-52 - PMID: 11493707 - PMCID: PMC55541 - DOI: 10.1073/pnas.171319698

Gaucher disease. New approaches to an ancient disease.

Mankin HJ, Rosenthal DI, Xavier R
J Bone Joint Surg Am. 2001;83-A(5):748-62 - PMID: 11379747

TBX1 is responsible for cardiovascular defects in velo-cardio-facial/DiGeorge syndrome.

Merscher S, Funke B, Epstein JA, Heyer J, Puech A, Lu MM, Xavier RJ, Demay MB, Russell RG, Factor S, Tokooya K, Jore BS, Lopez M, Pandita RK, Lia M, Carrion D, Xu H, Schorle H, Kobler JB, Scambler P, Wynshaw-Boris A, Skoultchi AI, Morrow BE, Kucherlapati R
Cell. 2001;104(4):619-29 - PMID: 11239417

Microbiology. How to get along--friendly microbes in a hostile world.

Xavier RJ, Podolsky DK
Science. 2000;289(5484):1483-4 - PMID: 10991734

Fractalkine is an epithelial and endothelial cell-derived chemoattractant for intraepithelial lymphocytes in the small intestinal mucosa.

Muehlhoefer A, Saubermann LJ, Gu X, Luedtke-Heckenkamp K, Xavier R, Blumberg RS, Podolsky DK, MacDermott RP, Reinecker HC
J Immunol. 2000;164(6):3368-76 - PMID: 10706732

A paradoxical reduction in susceptibility to colonic injury upon targeted transgenic ablation of goblet cells.

Itoh H, Beck PL, Inoue N, Xavier R, Podolsky DK
J Clin Invest. 1999;104(11):1539-47 - PMID: 10587517 - PMCID: PMC409855 - DOI: 10.1172/JCI6211

Health information in the developing world.

Lown B, Bukachi F, Xavier R
Lancet. 1998;352 Suppl 2:SII34-8 - PMID: 9798645

SEK1/MKK4 is required for maintenance of a normal peripheral lymphoid compartment but not for lymphocyte development.

Swat W, Fujikawa K, Ganiatsas S, Yang D, Xavier RJ, Harris NL, Davidson L, Ferrini R, Davis RJ, Labow MA, Flavell RA, Zon LI, Alt FW
Immunity. 1998;8(5):625-34 - PMID: 9620683

Paracoccidioidomycosis of bones and joints. A clinical, radiologic, and pathologic study of 9 cases.

Amstalden EM, Xavier R, Kattapuram SV, Bertolo MB, Swartz MN, Rosenberg AE
Medicine (Baltimore). 1996;75(4):213-25 - PMID: 8699961

Transgenic expression of tpr-met oncogene leads to development of mammary hyperplasia and tumors.

Liang TJ, Reid AE, Xavier R, Cardiff RD, Wang TC
J Clin Invest. 1996;97(12):2872-7 - PMID: 8675700 - PMCID: PMC507382 - DOI: 10.1172/JCI118744

Peroxynitrite-induced rat colitis--a new model of colonic inflammation.

Rachmilewitz D, Stamler JS, Karmeli F, Mullins ME, Singel DJ, Loscalzo J, Xavier RJ, Podolsky DK
Gastroenterology. 1993;105(6):1681-8 - PMID: 8253344

Malignant epithelioid hemangioendothelioma of the tibia associated with a bone infarct in a patient who had Gaucher disease. A case report.

Pins MR, Mankin HJ, Xavier RJ, Rosenthal DI, Dickersin GR, Rosenberg AE
J Bone Joint Surg Am. 1995;77(5):777-81 - PMID: 7744904

Enzyme replacement therapy for Gaucher disease: skeletal responses to macrophage-targeted glucocerebrosidase.

Rosenthal DI, Doppelt SH, Mankin HJ, Dambrosia JM, Xavier RJ, McKusick KA, Rosen BR, Baker J, Niklason LT, Hill SC
Pediatrics. 1995;96(4 Pt 1):629-37 - PMID: 7567322

Atheroembolic renal failure after invasive procedures. Natural history based on 52 histologically proven cases.

Thadhani RI, Camargo CA, Xavier RJ, Fang LS, Bazari H
Medicine (Baltimore). 1995;74(6):350-8 - PMID: 7500898

Value of the history and stool occult blood test in selection of patients for upper endoscopy in Zimbabwe.

Xavier RJ, Stein CM, Kiire CF, Arrow J, Kitai I
East Afr Med J. 1992;69(5):268-71 - PMID: 1644046

Preparation of Fatty Acid or Phospholipid Vesicles by Thin-film Rehydration.

Zhu TF, Budin I, Szostak JW
Methods Enzymol. 2013;533:267-74 - PMID: 24182932 - PMCID: PMC4310237 - DOI: 10.1016/B978-0-12-420067-8.00020-9

Vesicle Extrusion Through Polycarbonate Track-etched Membranes using a Hand-held Mini-extruder.

Zhu TF, Budin I, Szostak JW
Methods Enzymol. 2013;533:275-82 - PMID: 24182933 - PMCID: PMC4310236 - DOI: 10.1016/B978-0-12-420067-8.00021-0

Preparation of Fatty Acid micelles.

Zhu TF, Budin I, Szostak JW
Methods Enzymol. 2013;533:283-8 - PMID: 24182934 - PMCID: PMC4310231 - DOI: 10.1016/B978-0-12-420067-8.00022-2

Selective Modulation of Autophagy, Innate Immunity, and Adaptive Immunity by Small Molecules.

Shaw SY, Tran K, Castoreno AB, Peloquin JM, Lassen KG, Khor B, Aldrich LN, Tan PH, Graham DB, Kuballa P, Goel G, Daly MJ, Shamji AF, Schreiber SL, Xavier RJ
ACS Chem Biol. 2013;8(12):2724-33 - PMID: 24168452 - PMCID: PMC3951132 - DOI: 10.1021/cb400352d

mRNA display: from basic principles to macrocycle drug discovery.

Josephson K, Ricardo A, Szostak JW
Drug Discov Today. 2013;19(4):388-399 - PMID: 24157402 - DOI: 10.1016/j.drudis.2013.10.011

Reply to Cauwels et al.: Of men, not mice, and inflammation.

Warren HS, Tompkins RG, Mindrinos MN, Xiao W, Davis RW
Proc Natl Acad Sci U S A. 2013;110(34):E3151 - PMID: 24137663 - PMCID: PMC3752239

Reply to Osterburg et al.: To study human inflammatory diseases in humans.

Tompkins RG, Warren HS, Mindrinos MN, Xiao W, Davis RW
Proc Natl Acad Sci U S A. 2013;110(36):E3371 - PMID: 24137798 - PMCID: PMC3767510

Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins.

Maeder ML, Angstman JF, Richardson ME, Linder SJ, Cascio VM, Tsai SQ, Ho QH, Sander JD, Reyon D, Bernstein BE, Costello JF, Wilkinson MF, Joung JK
Nat Biotechnol. 2013;31(12):1137-42 - PMID: 24108092 - PMCID: PMC3858462 - DOI: 10.1038/nbt.2726

Autophagy at the crossroads of metabolism and cellular defense.

Begun J, Xavier RJ
Curr Opin Gastroenterol. 2013;29(6):588-596 - PMID: 24100719 - DOI: 10.1097/MOG.0b013e328365d34d

Fast and accurate nonenzymatic copying of an RNA-like synthetic genetic polymer.

Zhang S, Blain JC, Zielinska D, Gryaznov SM, Szostak JW
Proc Natl Acad Sci U S A. 2013;110(44):17732-7 - PMID: 24101473 - PMCID: PMC3816440 - DOI: 10.1073/pnas.1312329110

Synthesis and structure-activity relationships of phenyl-substituted coumarins with anti-tubercular activity that target FadD32.

Kawate T, Iwase N, Shimizu M, Stanley SA, Wellington S, Kazyanskaya E, Hung DT
Bioorg Med Chem Lett. 2013;23(22):6052-9 - PMID: 24103299 - DOI: 10.1016/j.bmcl.2013.09.035

A Small Volatile Bacterial Molecule Triggers Mitochondrial Dysfunction in Murine Skeletal Muscle.

Tzika AA, Constantinou C, Bandyopadhaya A, Psychogios N, Lee S, Mindrinos M, Martyn JA, Tompkins RG, Rahme LG
PLoS One. 2013;8(9):e74528 - PMID: 24098655 - PMCID: PMC3787027 - DOI: 10.1371/journal.pone.0074528

Human disease locus discovery and mapping to molecular pathways through phylogenetic profiling.

Tabach Y, Golan T, Hernández-Hernández A, Messer AR, Fukuda T, Kouznetsova A, Liu JG, Lilienthal I, Levy C, Ruvkun G
Mol Syst Biol. 2013;9:692 - PMID: 24084807 - PMCID: PMC3817400 - DOI: 10.1038/msb.2013.50

Genetic Variants Synthesize to Produce Paneth Cell Phenotypes that Define Subtypes of Crohn's Disease.

Vandussen KL, Liu TC, Li D, Towfic F, Modiano N, Winter R, Haritunians T, Taylor KD, Dhall D, Targan SR, Xavier RJ, McGovern DP, Stappenbeck TS
Gastroenterology. 2013;146(1):200-9 - PMID: 24076061 - PMCID: PMC3899786 - DOI: 10.1053/j.gastro.2013.09.048

Plant immune response to pathogens differs with changing temperatures.

Cheng C, Gao X, Feng B, Sheen J, Shan L, He P
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Deep Resequencing of GWAS Loci Identifies Rare Variants in CARD9, IL23R and RNF186 That Are Associated with Ulcerative Colitis.

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Cutting Edge: cell-autonomous control of IL-7 response revealed in a novel stage of precursor B cells.

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Concomitant BRAF and PI3K/mTOR Blockade Is Required for Effective Treatment of BRAFV600E Colorectal Cancer.

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Immunity. 2013;38(2):296-308 - PMID: 23333075 - PMCID: PMC3582771 - DOI: 10.1016/j.immuni.2012.10.015

Effector-triggered versus pattern-triggered immunity: how animals sense pathogens.

Stuart LM, Paquette N, Boyer L
Nat Rev Immunol. 2013;13(3):199-206 - PMID: 23411798 - PMCID: PMC4121468 - DOI: 10.1038/nri3398

Development of a Colon Cancer GEMM-Derived Orthotopic Transplant Model for Drug Discovery and Validation.

Martin ES, Belmont PJ, Sinnamon MJ, Georgeon Richard L, Yuan J, Coffee EM, Roper J, Lee L, Heidari P, Lunt SY, Goel G, Ji C, Xie J, Xie T, Lamb J, Weinrich S, Vanarsdale TL, Bronson RT, Xavier RJ, Vander Heiden M, Kan JL, Mahmood U, Hung KE
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Genomic responses in mouse models poorly mimic human inflammatory diseases.

Seok J, Warren HS, Cuenca AG, Mindrinos MN, Baker HV, Xu W, Richards DR, McDonald-Smith GP, Gao H, Hennessy L, Finnerty CC, López CM, Honari S, Moore EE, Minei JP, Cuschieri J, Bankey PE, Johnson JL, Sperry J, Nathens AB, Billiar TR, West MA, Jeschke MG, Klein MB, Gamelli RL, Gibran NS, Brownstein BH, Miller-Graziano C, Calvano SE, Mason PH, Cobb JP, Rahme LG, Lowry SF, Maier RV, Moldawer LL, Herndon DN, Davis RW, Xiao W, Tompkins RG,
Proc Natl Acad Sci U S A. 2013;110(9):3507-12 - PMID: 23401516 - PMCID: PMC3587220 - DOI: 10.1073/pnas.1222878110

Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing.

Kirby A, Gnirke A, Jaffe DB, Barešová V, Pochet N, Blumenstiel B, Ye C, Aird D, Stevens C, Robinson JT, Cabili MN, Gat-Viks I, Kelliher E, Daza R, Defelice M, H?lková H, Sovová J, Vylet'al P, Antignac C, Guttman M, Handsaker RE, Perrin D, Steelman S, Sigurdsson S, Scheinman SJ, Sougnez C, Cibulskis K, Parkin M, Green T, Rossin E, Zody MC, Xavier RJ, Pollak MR, Alper SL, Lindblad-Toh K, Gabriel S, Hart PS, Regev A, Nusbaum C, Kmoch S, Bleyer AJ, Lander ES, Daly MJ
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Robust, synergistic regulation of human gene expression using TALE activators.

Maeder ML, Linder SJ, Reyon D, Angstman JF, Fu Y, Sander JD, Joung JK
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Phosphorylation of D-allose by hexokinase involved in regulation of OsABF1 expression for growth inhibition in Oryza sativa L.

Fukumoto T, Kano A, Ohtani K, Inoue M, Yoshihara A, Izumori K, Tajima S, Shigematsu Y, Tanaka K, Ohkouchi T, Ishida Y, Nishizawa Y, Tada Y, Ichimura K, Gomi K, Yoo SD, Sheen J, Akimitsu K
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?-6 Polyunsaturated fatty acids extend life span through the activation of autophagy.

O'Rourke EJ, Kuballa P, Xavier R, Ruvkun G
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Burn injury-induced IRS-1 degradation in mouse skeletal muscle.

Lu XM, Tompkins R, Fischman A
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Development of a Genomic Metric That Can Be Rapidly Used to Predict Clinical Outcome in Severely Injured Trauma Patients.

Cuenca AG, Gentile LF, Lopez MC, Ungaro R, Liu H, Xiao W, Seok J, Mindrinos MN, Ang D, Ozrazgat Baslanti T, Bihorac A, Efron PA, Cuschieri J, Warren HS, Tompkins RG, Maier RV, Baker HV, Moldawer LL,
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Bifurcation of Arabidopsis NLR Immune Signaling via Ca(2+)-Dependent Protein Kinases.

Gao X, Chen X, Lin W, Chen S, Lu D, Niu Y, Li L, Cheng C, McCormack M, Sheen J, Shan L, He P
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Autophagy modulates Borrelia burgdorferi-induced production of interleukin-1? (IL-1?).

Buffen K, Oosting M, Mennens S, Anand PK, Plantinga TS, Sturm P, van de Veerdonk FL, van der Meer JW, Xavier RJ, Kannegati TD, Netea MG, Joosten LA
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Translating the Genomics Revolution: The Need for an International Gene Therapy Consortium for Monogenic Diseases.

Tremblay JP, Xiao X, Aartsma-Rus A, Barbas C, Blau HM, Bogdanove AJ, Boycott K, Braun S, Breakefield XO, Bueren JA, Buschmann M, Byrne BJ, Calos M, Cathomen T, Chamberlain J, Chuah M, Cornetta K, Davies KE, Dickson JG, Duchateau P, Flotte TR, Gaudet D, Gersbach CA, Gilbert R, Glorioso J, Herzog RW, High KA, Huang W, Huard J, Joung JK, Liu D, Liu D, Lochmüller H, Lustig L, Martens J, Massie B, Mavilio F, Mendell JR, Nathwani A, Ponder K, Porteus M, Puymirat J, Samulski J, Takeda S, Thrasher A ...
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High-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes.

Shi Z, Montgomery TA, Qi Y, Ruvkun G
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Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence.

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Efficient genome editing in zebrafish using a CRISPR-Cas system.

Hwang WY, Fu Y, Reyon D, Maeder ML, Tsai SQ, Sander JD, Peterson RT, Yeh JR, Joung JK
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Identification of Novel Host-Targeted Compounds That Protect From Anthrax Lethal Toxin-Induced Cell Death.

Slater LH, Hett EC, Mark K, Chumbler NM, Patel D, Lacy DB, Collier RJ, Hung DT
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Radiation resistance of biological reagents for in situ life detection.

Carr CE, Rowedder H, Vafadari C, Lui CS, Cascio E, Zuber MT, Ruvkun G
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ATG5 regulates plasma cell differentiation.

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Nitric oxide activates intradomain disulfide bond formation in the kinase loop of Akt1/PKB? after burn injury.

Lu XM, Tompkins RG, Fischman AJ
Int J Mol Med. 2013;31(3):740-50 - PMID: 23314241 - PMCID: PMC3597556 - DOI: 10.3892/ijmm.2013.1241

Functional genomics identifies type I interferon pathway as central for host defense against Candida albicans.

Smeekens SP, Ng A, Kumar V, Johnson MD, Plantinga TS, van Diemen C, Arts P, Verwiel ET, Gresnigt MS, Fransen K, van Sommeren S, Oosting M, Cheng SC, Joosten LA, Hoischen A, Kullberg BJ, Scott WK, Perfect JR, van der Meer JW, Wijmenga C, Netea MG, Xavier RJ
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Identification of Pseudomonas aeruginosa Phenazines that Kill Caenorhabditis elegans.

Cezairliyan B, Vinayavekhin N, Grenfell-Lee D, Yuen GJ, Saghatelian A, Ausubel FM
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Simvastatin Protects Hepatocytes From Apoptosis by Suppressing the TNF-?/Caspase-3 Signaling Pathway in Mice With Burn Injury.

Zhao G, Yu YM, Kaneki M, Tompkins RG, Fischman AJ
Ann Surg. 2012;257(6):1129-36 - PMID: 23275311 - PMCID: PMC4102342 - DOI: 10.1097/SLA.0b013e318273fdca

Synthesis of N3´-P5´-Phosphoramidate DNA by Non-enzymatic Template-directed Primer Extension.

Zhang S, Zhang N, Blain JC, Szostak JW
J Am Chem Soc. 2012;135(2):924-32 - PMID: 23252395 - PMCID: PMC3548433 - DOI: 10.1021/ja311164j

The LRR and RING Domain Protein LRSAM1 Is an E3 Ligase Crucial for Ubiquitin-Dependent Autophagy of Intracellular Salmonella Typhimurium.

Huett A, Heath RJ, Begun J, Sassi SO, Baxt LA, Vyas JM, Goldberg MB, Xavier RJ
Cell Host Microbe. 2012;12(6):778-90 - PMID: 23245322 - PMCID: PMC3785244 - DOI: 10.1016/j.chom.2012.10.019

Concentration-driven growth of model protocell membranes.

Budin I, Debnath A, Szostak JW
J Am Chem Soc. 2012;134(51):20812-9 - PMID: 23198690 - PMCID: PMC3530389 - DOI: 10.1021/ja310382d

Stem Cell Signaling in Immunity and Development.

Lee H, Chah OK, Plotnikov J, Sheen J
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TALENs: a widely applicable technology for targeted genome editing.

Joung JK, Sander JD
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Brown Adipose Tissue and Its Modulation by a Mitochondria-targeted Peptide in Rat Burn Injury Induced Hypermetabolism.

Yo K, Yu YM, Zhao G, Bonab AA, Aikawa N, Tompkins RG, Fischman AJ
Am J Physiol Endocrinol Metab. 2012;304(4):E331-41 - PMID: 23169784 - PMCID: PMC3566510 - DOI: 10.1152/ajpendo.00098.2012

A High-content Imaging Workflow to Study Grb2 Signaling Complexes by Expression Cloning.

Freeman J, Kriston-Vizi J, Seed B, Ketteler R
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Combination of Radiation and Burn Injury Alters [18F] 2-Fluoro-2-Deoxy-D-Glucose Uptake in Mice.

Carter EA, Winter D, Tolman C, Paul K, Hamrahi V, Tompkins RG, Fischman AJ
J Burn Care Res. 2012;33(6):723-30 - PMID: 23143615 - PMCID: PMC3673011 - DOI: 10.1097/BCR.0b013e31825d678f

Prediction of C. elegans Longevity Genes by Human and Worm Longevity Networks.

Tacutu R, Shore DE, Budovsky A, de Magalhães JP, Ruvkun G, Fraifeld VE, Curran SP
PLoS One. 2012;7(10):e48282 - PMID: 23144747 - PMCID: PMC3483217 - DOI: 10.1371/journal.pone.0048282

Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.

Jostins L, Ripke S, Weersma RK, Duerr RH, McGovern DP, Hui KY, Lee JC, Schumm LP, Sharma Y, Anderson CA, Essers J, Mitrovic M, Ning K, Cleynen I, Theatre E, Spain SL, Raychaudhuri S, Goyette P, Wei Z, Abraham C, Achkar JP, Ahmad T, Amininejad L, Ananthakrishnan AN, Andersen V, Andrews JM, Baidoo L, Balschun T, Bampton PA, Bitton A, Boucher G, Brand S, Büning C, Cohain A, Cichon S, D'Amato M, De Jong D, Devaney KL, Dubinsky M, Edwards C, Ellinghaus D, Ferguson LR, Franchimont D, Fransen K, Ge ...
Nature. 2012;491(7422):119-24 - PMID: 23128233 - PMCID: PMC3491803 - DOI: 10.1038/nature11582

Measurement of Phagocytosis, Phagosome Acidification, and Intracellular Killing of Staphylococcus aureus.

Sokolovska A, Becker CE, Stuart LM
Curr Protoc Immunol. 2012;Chapter 14:Unit14.30 - PMID: 23129153 - DOI: 10.1002/0471142735.im1430s99

Essential cell autonomous role for interferon regulatory factor 1 in interferon-?-mediated inhibition of norovirus replication in macrophages.

Maloney NS, Thackray LB, Goel G, Hwang S, Duan E, Vachharajani P, Xavier R, Virgin HW
J Virol. 2012;86(23):12655-64 - PMID: 22973039 - PMCID: PMC3497668 - DOI: 10.1128/JVI.01564-12

Common alleles that influence autophagy and the risk for inflammatory bowel disease.

Gardet A, Xavier RJ
Curr Opin Immunol. 2012;24(5):522-9 - PMID: 23041451 - DOI: 10.1016/j.coi.2012.08.001

Engineering Designer Transcription Activator--Like Effector Nucleases (TALENs) by REAL or REAL-Fast Assembly.

Reyon D, Khayter C, Regan MR, Joung JK, Sander JD
Curr Protoc Mol Biol. 2012;Chapter 12:Unit12.15 - PMID: 23026907 - PMCID: PMC3753116 - DOI: 10.1002/0471142727.mb1215s100

The American Burn Association in the New Millennium.

Tompkins RG
J Burn Care Rehabil. 2001;22(6):369-374 - PMID: 11773770

The role of proinflammatory cytokines in inflammatory and metabolic responses.

Tompkins RG
Ann Surg. 1997;225(3):243-5 - PMID: 9060578 - PMCID: PMC1190672

Separation and quantitation of polyethylene glycols 400 and 3350 from human urine by high-performance liquid chromatography.

Ryan CM, Yarmush ML, Tompkins RG
J Pharm Sci. 1992;81(4):350-2 - PMID: 1501072

Cryopreservation of isolated primary rat hepatocytes: enhanced survival and long-term hepatospecific function.

Sosef MN, Baust JM, Sugimachi K, Fowler A, Tompkins RG, Toner M
Ann Surg. 2005;241(1):125-33 - PMID: 15622000 - PMCID: PMC1356855

Modified Stryker frame for intraoperative positioning of the patient with burns.

Sheridan RL, Hurley J, Lynch L, Balmer J, Ryan CM, Bondoc CC, Quinby WC, Tompkins RG, Burke JF
J Burn Care Rehabil. 1995;15(5):438-40 - PMID: 7995819

Control of methicillin-resistant Staphylococcus aureus in a pediatric burn unit.

Sheridan RL, Weber J, Benjamin J, Pasternack MS, Tompkins RG
Am J Infect Control. 1994;22(6):340-5 - PMID: 7695112

Technique for expanding the donor liver pool: heat shock preconditioning in a rat fatty liver model.

Mokuno Y, Berthiaume F, Tompkins RG, Balis UJ, Yarmush ML
Liver Transpl. 2004;10(2):264-72 - PMID: 14762865 - DOI: 10.1002/lt.20014

Effective postoperative protection for grafted posterior surfaces: the quilted dressing.

Sheridan RL, Behringer GE, Ryan CM, Bondoc CC, Quinby WC, Tompkins RG, Burke JF
J Burn Care Rehabil. 1996;16(6):607-9 - PMID: 8582939

Characterization of a composite tissue model that supports clonal growth of human melanocytes in vitro and in vivo.

Medalie DA, Tompkins RG, Morgan JR
J Invest Dermatol. 1998;111(5):810-6 - PMID: 9804343 - DOI: 10.1046/j.1523-1747.1998.00368.x

Low-density lipoprotein transport in blood vessel walls of squirrel monkeys.

Tompkins RG, Yarmush ML, Schnitzer JJ, Colton CK, Smith KA, Stemerman MB
Am J Physiol. 1989;257(2 Pt 2):H452-64 - PMID: 2764130 - DOI: 10.1152/ajpheart.1989.257.2.H452

Flavobacterial sepsis in massively burned pediatric patients.

Sheridan RL, Ryan CM, Pasternack MS, Weber JM, Tompkins RG
Clin Infect Dis. 1993;17(2):185-7 - PMID: 8399864

Short-term enteral glutamine does not enhance protein accretion in burned children: a stable isotope study.

Sheridan RL, Prelack K, Yu YM, Lydon M, Petras L, Young VR, Tompkins RG
Surgery. 2004;135(6):671-8 - PMID: 15179374 - DOI: 10.1016/j.surg.2003.11.014

Melanin in the rat brain.

Kastin AJ, Kuzemchak B, Tompkins RG, Schally AV, Miller MC
Brain Res Bull. 1977;1(6):567-72 - PMID: 1021212

Regional in vitro uptake of a synthetic 3H-labeled-melanin into rat brain.

Porter JR, Kastin AJ, Pelle-Day G, Tompkins RG
Brain Res Bull. 1978;2(6):401-4 - PMID: 606338

Fulminant hepatic failure treated with anti-endotoxin antibody.

Tompkins RG
Crit Care Med. 1992;20(11):1507 - PMID: 1424690

Human recombinant interleukin-1 receptor antagonist in the treatment of sepsis syndrome.

Tompkins RG
Crit Care Med. 1994;22(1):3 - PMID: 8124969

Pulmonary artery wedge pressures in mitral valve disease; relationship to left atrial pressures.

CONNOLLY DC, TOMPKINS RG, LEV R, KIRKLIN JW, WOOD EH
Proc Staff Meet Mayo Clin. 1953;28(3):72-8 - PMID: 13014128

Quantitation of beat-to-beat changes in stroke volume from the aortic pulse contour in man.

WARNER HR, SWAN HJ, CONNOLLY DC, TOMPKINS RG, WOOD EH
J Appl Physiol. 1953;5(9):495-507 - PMID: 13034677 - DOI: 10.1152/jappl.1953.5.9.495

Early and late hemodynamic effects of mitral commissurotomy.

LYONS WS, TOMPKINS RG, KIRKLIN JW, WOOD EH
J Lab Clin Med. 1959;53(4):499-516 - PMID: 13654887

Surgical treatment of infundibular stenosis with intact ventricular septum.

KIRKLIN JW, OPENSHAW CR, TOMPKINS RG
Ann Surg. 1953;137(2):228-31 - PMID: 13017523 - PMCID: PMC1802459

Staphylococcal toxic shock syndrome in a paediatric burn unit.

Bacha EA, Sheridan RL, Donohue GA, Tompkins RG
Burns. 1994;20(6):499-502 - PMID: 7880413

Differences in dermal analogs influence subsequent pigmentation, epidermal differentiation, basement membrane, and rete ridge formation of transplanted composite skin grafts.

Medalie DA, Eming SA, Collins ME, Tompkins RG, Yarmush ML, Morgan JR
Transplantation. 1997;64(3):454-65 - PMID: 9275113

Prognostic significance of prehospital cardiac or pulmonary resuscitation in paediatric burns patients.

Sheridan RL, Tompkins RG
Burns. 1994;20(3):265-6 - PMID: 8054145

Laser ablation of burns: initial clinical trial.

Sheridan RL, Lydon MM, Petras LM, Schomacker KT, Tompkins RG, Glatter RD, Parrish JA
Surgery. 1999;125(1):92-5 - PMID: 9889803

The burn unit as a resource for the management of acute nonburn conditions in children.

Sheridan RL, Briggs SE, Remensnyder JP, Gagnon SW, Doody DP, Ryan DP, Tompkins RG
J Burn Care Rehabil. 1995;16(1):62-4 - PMID: 7721912

Evaluation of human skin reconstituted from composite grafts of cultured keratinocytes and human acellular dermis transplanted to athymic mice.

Medalie DA, Eming SA, Tompkins RG, Yarmush ML, Krueger GG, Morgan JR
J Invest Dermatol. 1996;107(1):121-7 - PMID: 8752850

Urinary urea nitrogen is imprecise as a predictor of protein balance in burned children.

Prelack K, Dwyer J, Yu YM, Sheridan RL, Tompkins RG
J Am Diet Assoc. 1997;97(5):489-95 - PMID: 9145086 - DOI: 10.1016/S0002-8223(97)00127-2

Antibody-targeted photolysis: in vitro immunological, photophysical, and cytotoxic properties of monoclonal antibody-dextran-Sn(IV) chlorin e6 immunoconjugates.

Rakestraw SL, Ford WE, Tompkins RG, Rodgers MA, Thorpe WP, Yarmush ML
Biotechnol Prog. 1992;8(1):30-9 - PMID: 1371392 - DOI: 10.1021/bp00013a006

Analysis of Pseudomonas aeruginosa 4-hydroxy-2-alkylquinolines (HAQs) reveals a role for 4-hydroxy-2-heptylquinoline in cell-to-cell communication.

Déziel E, Lépine F, Milot S, He J, Mindrinos MN, Tompkins RG, Rahme LG
Proc Natl Acad Sci U S A. 2004;101(5):1339-44 - PMID: 14739337 - PMCID: PMC337054 - DOI: 10.1073/pnas.0307694100

Preparation and characterization of immunoconjugates for antibody-targeted photolysis.

Rakestraw SL, Tompkins RG, Yarmush ML
Bioconjug Chem. 1991;1(3):212-21 - PMID: 1710935

Antibody-targeted photolysis: in vitro studies with Sn(IV) chlorin e6 covalently bound to monoclonal antibodies using a modified dextran carrier.

Rakestraw SL, Tompkins RG, Yarmush ML
Proc Natl Acad Sci U S A. 1990;87(11):4217-21 - PMID: 1693435 - PMCID: PMC54079

Penetration of tumor tissue by antibodies and other immunoproteins.

Shockley TR, Lin K, Nagy JA, Tompkins RG, Dvorak HF, Yarmush ML
Ann N Y Acad Sci. 1991;618:367-82 - PMID: 2006796

Spatial distribution of tumor-specific monoclonal antibodies in human melanoma xenografts.

Shockley TR, Lin K, Nagy JA, Tompkins RG, Yarmush ML, Dvorak HF
Cancer Res. 1992;52(2):367-76 - PMID: 1728408

Genetically modified human keratinocytes overexpressing PDGF-A enhance the performance of a composite skin graft.

Eming SA, Medalie DA, Tompkins RG, Yarmush ML, Morgan JR
Hum Gene Ther. 1998;9(4):529-39 - PMID: 9525314 - DOI: 10.1089/hum.1998.9.4-529

Central venous catheter sepsis with weekly catheter change in paediatric burn patients: an analysis of 221 catheters.

Sheridan RL, Weber JM, Peterson HF, Tompkins RG
Burns. 1995;21(2):127-9 - PMID: 7766321

Dishwasher effluent burns in infants.

Sheridan RL, Sheridan MG, Tompkins RG
Pediatrics. 1993;91(1):142-4 - PMID: 8416479

Permissive hypercapnia as a ventilatory strategy in burned children: effect on barotrauma, pneumonia, and mortality.

Sheridan RL, Kacmarek RM, McEttrick MM, Weber JM, Ryan CM, Doody DP, Ryan DP, Schnitzer JJ, Tompkins RG
J Trauma. 1995;39(5):854-9 - PMID: 7474000

Objective estimates of the probability of death from burn injuries.

Ryan CM, Schoenfeld DA, Thorpe WP, Sheridan RL, Cassem EH, Tompkins RG
N Engl J Med. 1998;338(6):362-6 - PMID: 9449729 - DOI: 10.1056/NEJM199802053380604

Evolution of intrahepatic carbon, nitrogen, and energy metabolism in a D-galactosamine-induced rat liver failure model.

Yokoyama T, Banta S, Berthiaume F, Nagrath D, Tompkins RG, Yarmush ML
Metab Eng. 2005;7(2):88-103 - PMID: 15781418 - DOI: 10.1016/j.ymben.2004.09.003

Planimetry study of the percent of body surface represented by the hand and palm: sizing irregular burns is more accurately done with the palm.

Sheridan RL, Petras L, Basha G, Salvo P, Cifrino C, Hinson M, McCabe M, Fallon J, Tompkins RG
J Burn Care Rehabil. 1996;16(6):605-6 - PMID: 8582938

Intraoperative reflectance oximetry in burn patients.

Sheridan RL, Prelack KM, Petras LM, Szyfelbein SK, Tompkins RG
J Clin Monit. 1995;11(1):32-4 - PMID: 7745451

Initial experience with a composite autologous skin substitute.

Sheridan RL, Morgan JR, Cusick JL, Petras LM, Lydon MM, Tompkins RG
Burns. 2001;27(5):421-4 - PMID: 11451592

Acute hand burns in children: management and long-term outcome based on a 10-year experience with 698 injured hands.

Sheridan RL, Baryza MJ, Pessina MA, O'Neill KM, Cipullo HM, Donelan MB, Ryan CM, Schulz JT, Schnitzer JJ, Tompkins RG
Ann Surg. 1999;229(4):558-64 - PMID: 10203090 - PMCID: PMC1191743

Hepatocytes from rat liver perfusions. Physicochemical effects on polyribosome size.

Dunn JC, Friedberg JS, Tompkins RG, Yarmush ML
ASAIO J. 1993;38(4):841-5 - PMID: 1450483

Hepatocytes in collagen sandwich: evidence for transcriptional and translational regulation.

Dunn JC, Tompkins RG, Yarmush ML
J Cell Biol. 1992;116(4):1043-53 - PMID: 1734019 - PMCID: PMC2289333

Improved management of the perineal wound after proctectomy.

Tompkins RG, Warshaw AL
Ann Surg. 1985;202(6):760-5 - PMID: 4073988 - PMCID: PMC1251011

A quantitative analysis of tumor specific monoclonal antibody uptake by human melanoma xenografts: effects of antibody immunological properties and tumor antigen expression levels.

Shockley TR, Lin K, Sung C, Nagy JA, Tompkins RG, Dedrick RL, Dvorak HF, Yarmush ML
Cancer Res. 1992;52(2):357-66 - PMID: 1728407

Rapid quantitation of recombinant retroviruses.

Morgan JR, Lee J, Tompkins RG, Yarmush ML
Biotechnol Prog. 1994;10(4):441-6 - PMID: 7765097 - DOI: 10.1021/bp00028a014

Strategies for success in academic surgery.

Souba WW, Gamelli RL, Lorber MI, Thompson JS, Kron IL, Tompkins RG, Hoyt DB
Surgery. 1995;117(1):90-5 - PMID: 7809842

An effective technique of scrotal harvest.

Sheridan RL, Ryan CM, Tompkins RG
J Burn Care Rehabil. 1993;14(5):557-8 - PMID: 8245111

Relations among arginine, citrulline, ornithine, and leucine kinetics in adult burn patients.

Yu YM, Ryan CM, Burke JF, Tompkins RG, Young VR
Am J Clin Nutr. 1995;62(5):960-8 - PMID: 7572742 - DOI: 10.1093/ajcn/62.5.960

Antibody Targeted Photolysis.

Yarmush ML, Thorpe WP, Strong L, Rakestraw SL, Toner M, Tompkins RG
Crit Rev Ther Drug Carrier Syst. 1994;10(3):197-252 - PMID: 8258158

Use of Integra artificial skin is associated with decreased length of stay for severely injured adult burn survivors.

Ryan CM, Schoenfeld DA, Malloy M, Schulz JT, Sheridan RL, Tompkins RG
J Burn Care Rehabil. 2002;23(5):311-7 - PMID: 12352131 - DOI: 10.1097/01.BCR.0000028566.85892.54

A fulminant hepatic failure model in the rat: involvement of interleukin-1beta and tumor necrosis factor-alpha.

Shito M, Balis UJ, Tompkins RG, Yarmush ML, Toner M
Dig Dis Sci. 2001;46(8):1700-8 - PMID: 11508670

Arginine and ornithine kinetics in severely burned patients: increased rate of arginine disposal.

Yu YM, Ryan CM, Castillo L, Lu XM, Beaumier L, Tompkins RG, Young VR
Am J Physiol Endocrinol Metab. 2001;280(3):E509-17 - PMID: 11171607 - DOI: 10.1152/ajpendo.2001.280.3.E509

Postburn pancreatitis.

Ryan CM, Sheridan RL, Schoenfeld DA, Warshaw AL, Tompkins RG
Ann Surg. 1995;222(2):163-70 - PMID: 7543741 - PMCID: PMC1234774

Kinetics of plasma arginine and leucine in pediatric burn patients.

Yu YM, Sheridan RL, Burke JF, Chapman TE, Tompkins RG, Young VR
Am J Clin Nutr. 1996;64(1):60-6 - PMID: 8669415 - DOI: 10.1093/ajcn/64.1.60

Management of burn wounds with prompt excision and immediate closure.

Sheridan RL, Tompkins RG, Burke JF
J Intensive Care Med. 1994;9(1):6-17 - PMID: 10146651 - DOI: 10.1177/088506669400900103

Evaluation of acellular human dermis as a dermal analog in a composite skin graft.

Medalie DA, Tompkins RG, Morgan JR
ASAIO J. 1997;42(5):M455-62 - PMID: 8944923

Extracorporeal plasma perfusion of cultured hepatocytes: effect of intermittent perfusion on hepatocyte function and morphology.

Stefanovich P, Matthew HW, Toner M, Tompkins RG, Yarmush ML
J Surg Res. 1996;66(1):57-63 - PMID: 8954832 - DOI: 10.1006/jsre.1996.0372

Effectiveness of bacteria-controlled nursing units in preventing cross-colonization with resistant bacteria in severely burned children.

Weber JM, Sheridan RL, Schulz JT, Tompkins RG, Ryan CM
Infect Control Hosp Epidemiol. 2002;23(9):549-51 - PMID: 12269456 - DOI: 10.1086/502106

Circulating interleukin-1 beta and tumor necrosis factor-alpha concentrations after burn injury in humans.

Cannon JG, Friedberg JS, Gelfand JA, Tompkins RG, Burke JF, Dinarello CA
Crit Care Med. 1992;20(10):1414-9 - PMID: 1395662

Burns in children younger than two years of age: an experience with 200 consecutive admissions.

Sheridan RL, Ryan CM, Petras LM, Lydon MK, Weber JM, Tompkins RG
Pediatrics. 1997;100(4):721-3 - PMID: 9310533

Gut macromolecular permeability in pancreatitis correlates with severity of disease in rats.

Ryan CM, Schmidt J, Lewandrowski K, Compton CC, Rattner DW, Warshaw AL, Tompkins RG
Gastroenterology. 1993;104(3):890-5 - PMID: 8440440

Plasma L-5-oxoproline kinetics and whole blood glutathione synthesis rates in severely burned adult humans.

Yu YM, Ryan CM, Fei ZW, Lu XM, Castillo L, Schultz JT, Tompkins RG, Young VR
Am J Physiol Endocrinol Metab. 2002;282(2):E247-58 - PMID: 11788355 - DOI: 10.1152/ajpendo.00206.2001

Skin substitutes in burns.

Sheridan RL, Tompkins RG
Burns. 1999;25(2):97-103 - PMID: 10208382

Maximal parenteral glucose oxidation in hypermetabolic young children: a stable isotope study.

Sheridan RL, Yu YM, Prelack K, Young VR, Burke JF, Tompkins RG
JPEN J Parenter Enteral Nutr. 1998;22(4):212-6 - PMID: 9661121 - DOI: 10.1177/0148607198022004212

Increased survival after massive thermal injuries in adults: preliminary report using artificial skin.

Tompkins RG, Hilton JF, Burke JF, Schoenfeld DA, Hegarty MT, Bondoc CC, Quinby WC, Behringer GE, Ackroyd FW
Crit Care Med. 1989;17(8):734-40 - PMID: 2546715

Burn wound closure using permanent skin replacement materials.

Tompkins RG, Burke JF
World J Surg. 1993;16(1):47-52 - PMID: 1290266

Effects of malignancy and interleukin-2 infusion on gut macromolecular permeability.

Ryan CM, Atkins MB, Mier JW, Gelfand JA, Tompkins RG
Crit Care Med. 1995;23(11):1801-6 - PMID: 7587254

Retrovirus infection: effect of time and target cell number.

Morgan JR, LeDoux JM, Snow RG, Tompkins RG, Yarmush ML
J Virol. 1995;69(11):6994-7000 - PMID: 7474118 - PMCID: PMC189618

Cutaneous herpetic infections complicating burns.

Sheridan RL, Schulz JT, Weber JM, Ryan CM, Pasternack MS, Tompkins RG
Burns. 2000;26(7):621-4 - PMID: 10925184

Management strategy in purpura fulminans with multiple organ failure in children.

Sheridan RL, Briggs SE, Remensnyder JP, Tompkins RG
Burns. 1996;22(1):53-6 - PMID: 8719318

A unique mechanism of desensitization to lipolysis mediated by beta(3)-adrenoceptor in rats with thermal injury.

Ikezu T, Yasuhara S, Granneman JG, Kraemer FB, Okamoto T, Tompkins RG, Martyn JA
Am J Physiol. 1999;277(2 Pt 1):E316-24 - PMID: 10444428 - DOI: 10.1152/ajpendo.1999.277.2.E316

A rabbit model for metabolic studies after burn injury.

Hu RH, Yu YM, Costa D, Young VR, Ryan CM, Burke JF, Tompkins RG
J Surg Res. 1998;75(2):153-60 - PMID: 9655088 - DOI: 10.1006/jsre.1998.5274

Effect of burn injury on glucose and nitrogen metabolism in the liver: preliminary studies in a perfused liver system.

Yamaguchi Y, Yu YM, Zupke C, Yarmush DM, Berthiaume F, Tompkins RG, Yarmush ML
Surgery. 1997;121(3):295-303 - PMID: 9092130

Transport of fluorescent dextrans across the rat ileum after cutaneous thermal injury.

Berthiaume F, Ezzell RM, Toner M, Yarmush ML, Tompkins RG
Crit Care Med. 1994;22(3):455-64 - PMID: 7510222

Burn injury causes mitochondrial dysfunction in skeletal muscle.

Padfield KE, Astrakas LG, Zhang Q, Gopalan S, Dai G, Mindrinos MN, Tompkins RG, Rahme LG, Tzika AA
Proc Natl Acad Sci U S A. 2005;102(15):5368-73 - PMID: 15809440 - PMCID: PMC556259 - DOI: 10.1073/pnas.0501211102

Proton NMR spectroscopy shows lipids accumulate in skeletal muscle in response to burn trauma-induced apoptosis.

Astrakas LG, Goljer I, Yasuhara S, Padfield KE, Zhang Q, Gopalan S, Mindrinos MN, Dai G, Yu YM, Martyn JA, Tompkins RG, Rahme LG, Tzika AA
FASEB J. 2005;19(11):1431-40 - PMID: 16126910 - DOI: 10.1096/fj.04-2005com

TCA cycle flux estimates from NMR- and GC-MS-determined [13C]glutamate isotopomers in liver.

Vogt JA, Yarmush DM, Yu YM, Zupke C, Fischman AJ, Tompkins RG, Burke JF
Am J Physiol. 1997;272(6 Pt 1):C2049-62 - PMID: 9227434 - DOI: 10.1152/ajpcell.1997.272.6.C2049

Cutaneous burn injury alters relative tricarboxylic acid cycle fluxes in rat liver.

Yarmush DM, MacDonald AD, Foy BD, Berthiaume F, Tompkins RG, Yarmush ML
J Burn Care Rehabil. 1999;20(4):292-302 - PMID: 10425591

Analysis of thermal injury-induced insulin resistance in rodents. Implication of postreceptor mechanisms.

Ikezu T, Okamoto T, Yonezawa K, Tompkins RG, Martyn JA
J Biol Chem. 1997;272(40):25289-95 - PMID: 9312146

Isolation and long-term culture of human hepatocytes.

Ryan CM, Carter EA, Jenkins RL, Sterling LM, Yarmush ML, Malt RA, Tompkins RG
Surgery. 1993;113(1):48-54 - PMID: 8417488

Central role of interleukin-6 in burn induced stimulation of hepatic amino acid transport.

Pawlik TM, Carter EA, Bode BP, Fischman AJ, Tompkins RG
Int J Mol Med. 2003;12(4):541-8 - PMID: 12964032

In vivo bioactivity and biodistribution of chemotactic peptide analogs in nonhuman primates.

Fischman AJ, Rauh D, Solomon H, Babich JW, Tompkins RG, Kroon D, Strauss HW, Rubin RH
J Nucl Med. 1993;34(12):2130-4 - PMID: 8254400

Technetium-99m-labeled chemotactic peptides: comparison with indium-111-labeled white blood cells for localizing acute bacterial infection in the rabbit.

Babich JW, Graham W, Barrow SA, Dragotakes SC, Tompkins RG, Rubin RH, Fischman AJ
J Nucl Med. 1993;34(12):2176-81 - PMID: 8254406

Detection of acute bacterial infection within soft tissue injuries using a 99mTc-labeled chemotactic peptide.

Fischman AJ, Babich JW, Barrow SA, Graham W, Carter E, Tompkins RG, Rubin RH
J Trauma. 1995;38(2):223-7 - PMID: 7869440

Inhibition of in vivo DNA synthesis in regenerating rat liver following thermal injury.

Carter EA, Kirkham SE, Tompkins RG, Burke JF
Biochem Biophys Res Commun. 1989;160(1):196-201 - PMID: 2785385

Redistribution of blood flow after thermal injury and hemorrhagic shock.

Carter EA, Tompkins RG, Yarmush ML, Walker WA, Burke JF
J Appl Physiol. 1988;65(4):1782-8 - PMID: 3182540 - DOI: 10.1152/jappl.1988.65.4.1782

Absence of change in hepatic lactate metabolism after burn injury.

Carter EA, Khalid MA, Burke JF, Tompkins RG
Burns. 1993;19(6):475-8 - PMID: 8292229

Nitric oxide production is intensely and persistently increased in tissue by thermal injury.

Carter EA, Derojas-Walker T, Tamir S, Tannenbaum SR, Yu YM, Tompkins RG
Biochem J. 1994;304 ( Pt 1):201-4 - PMID: 7528006 - PMCID: PMC1137472

Core body temperature responses immediately after cutaneous thermal injury in rats.

Trop M, Tompkins RG, Schiffrin EJ, Carter EA, Burke JF
J Burn Care Rehabil. 1993;13(6):632-8 - PMID: 1469027

Arterial blood pressure immediately after thermal injury: the role of anesthesia.

Trop M, Carter EA, Schiffrin EJ, Tompkins RG
J Burn Care Rehabil. 1994;15(3):224-31 - PMID: 8056811

Additive effects of thermal injury and infection on gut permeability.

Ryan CM, Bailey SH, Carter EA, Schoenfeld DA, Tompkins RG
Arch Surg. 1994;129(3):325-8 - PMID: 8129610

Measurement of muscle protein synthesis by positron emission tomography with L-[methyl-11C]methionine: effects of transamination and transmethylation.

Carter EA, Yu YM, Alpert NM, Bonab AA, Tompkins RG, Fischman AJ
J Trauma. 1999;47(2):341-5 - PMID: 10452471

Injury-induced inhibition of fat absorption.

Carter EA, Tompkins RG
J Burn Care Rehabil. 1994;15(2):154-7 - PMID: 8195256

Injury-induced inhibition of small intestinal protein and nucleic acid synthesis.

Carter EA, Hatz RA, Yarmush ML, Tompkins RG
Gastroenterology. 1990;98(6):1445-51 - PMID: 1692545

Molecular mechanism(s) of burn-induced insulin resistance in murine skeletal muscle: role of IRS phosphorylation.

Zhang Q, Carter EA, Ma BY, White M, Fischman AJ, Tompkins RG
Life Sci. 2005;77(24):3068-77 - PMID: 15982669 - DOI: 10.1016/j.lfs.2005.02.034

Metabolic alterations in muscle of thermally injured rabbits, measured by positron emission tomography.

Carter EA, Tompkins RG, Hsu H, Christian B, Alpert NM, Weise S, Fischman AJ
Life Sci. 1997;61(1):39-44 - PMID: 9200667

Increased transcellular permeability of rat small intestine after thermal injury.

Carter EA, Gonnella A, Tompkins RG
Burns. 1992;18(2):117-20 - PMID: 1590925

Hepatic and intestinal blood flow following thermal injury.

Carter EA, Tompkins RG, Burke JF
J Burn Care Rehabil. 1989;9(4):347-50 - PMID: 3220848

Insulin resistance in thermally-injured rats is associated with post-receptor alterations in skeletal muscle, liver and adipose tissue.

Carter EA, Burks D, Fischman AJ, White M, Tompkins RG
Int J Mol Med. 2004;14(4):653-8 - PMID: 15375597

Thermal injury-induced changes in the rat intestine brush border cytoskeleton.

Ezzell RM, Carter EA, Yarmush ML, Tompkins RG
Surgery. 1993;114(3):591-7 - PMID: 8367816

Increase of sialyltransferase activity in the small intestine following thermal injury in rats.

Ch SW, Carter EA, Tompkins RG, Burke JF
Biochem Biophys Res Commun. 1988;153(1):377-81 - PMID: 3259879

Decreased cerebral glucose utilization in rats during the ebb phase of thermal injury.

Carter EA, Tompkins RG, Babich JW, Correia JA, Fischman AJ
J Trauma. 1996;40(6):930-5 - PMID: 8656479

Thermal injury in rats alters glucose utilization by skin, wound, and small intestine, but not by skeletal muscle.

Carter EA, Tompkins RG, Babich JW, Correia J, Bailey EM, Fischman AJ
Metabolism. 1996;45(9):1161-7 - PMID: 8781305

Low-dose inhaled nitric oxide in acutely burned children with profound respiratory failure.

Sheridan RL, Zapol WM, Ritz RH, Tompkins RG
Surgery. 1999;126(5):856-62 - PMID: 10568185

Proline-mediated enhancement of hepatocyte function in a collagen gel sandwich culture configuration.

Lee J, Morgan JR, Tompkins RG, Yarmush ML
FASEB J. 1993;7(6):586-91 - PMID: 8472895

Inducible nitric oxide synthase plays a role in LPS-induced hyperglycemia and insulin resistance.

Sugita H, Kaneki M, Tokunaga E, Sugita M, Koike C, Yasuhara S, Tompkins RG, Martyn JA
Am J Physiol Endocrinol Metab. 2002;282(2):E386-94 - PMID: 11788371 - DOI: 10.1152/ajpendo.00087.2001

Death in the burn unit: sterile multiple organ failure.

Sheridan RL, Ryan CM, Yin LM, Hurley J, Tompkins RG
Burns. 1998;24(4):307-11 - PMID: 9688194

Management of severe toxic epidermal necrolysis in children.

Sheridan RL, Weber JM, Schulz JT, Ryan CM, Low HM, Tompkins RG
J Burn Care Rehabil. 2000;20(6):497-500 - PMID: 10613688

Energy and protein provisions for thermally injured children revisited: an outcome-based approach for determining requirements.

Prelack K, Cunningham JJ, Sheridan RL, Tompkins RG
J Burn Care Rehabil. 1997;18(2):177-81; discussion 176 - PMID: 9095430

A 15-year experience with varicella infections in a pediatric burn unit.

Sheridan RL, Weber JM, Pasternak MM, Mulligan JM, Tompkins RG
Burns. 1999;25(4):353-6 - PMID: 10431985

Current expectations for survival in pediatric burns.

Sheridan RL, Remensnyder JP, Schnitzer JJ, Schulz JT, Ryan CM, Tompkins RG
Arch Pediatr Adolesc Med. 2000;154(3):245-9 - PMID: 10710021

Hepatocyte function and extracellular matrix geometry: long-term culture in a sandwich configuration.

Dunn JC, Yarmush ML, Koebe HG, Tompkins RG
FASEB J. 1989;3(2):174-7 - PMID: 2914628

Intestinal production of interleukin-1 alpha during endotoxemia in the mouse.

Mester M, Tompkins RG, Gelfand JA, Dinarello CA, Burke JF, Clark BD
J Surg Res. 1993;54(6):584-91 - PMID: 8412068 - DOI: 10.1006/jsre.1993.1089

Accelerated healing and reduced need for grafting in pediatric patients with burns treated with arginine-glycine-aspartic acid peptide matrix. RGD Study Group.

Hansbrough JF, Herndon DN, Heimbach DM, Solem LD, Gamelli RL, Tompkins RG
J Burn Care Rehabil. 1996;16(4):377-87 - PMID: 8582916

Plasma arginine and leucine kinetics and urea production rates in burn patients.

Yu YM, Young VR, Castillo L, Chapman TE, Tompkins RG, Ryan CM, Burke JF
Metabolism. 1995;44(5):659-66 - PMID: 7752916

Support of the metabolic response to burn injury.

Herndon DN, Tompkins RG
Lancet. 2004;363(9424):1895-902 - PMID: 15183630 - DOI: 10.1016/S0140-6736(04)16360-5

Burn depth estimation by use of indocyanine green fluorescence: initial human trial.

Sheridan RL, Schomaker KT, Lucchina LC, Hurley J, Yin LM, Tompkins RG, Jerath M, Torri A, Greaves KW, Bua DP
J Burn Care Rehabil. 1996;16(6):602-4 - PMID: 8582937

Thermal injury induces very early production of interleukin-1 alpha in the rat by mechanisms other than endotoxemia.

Mester M, Carter EA, Tompkins RG, Gelfand JA, Dinarello CA, Burke JF, Clark BD
Surgery. 1994;115(5):588-96 - PMID: 8178258

Cultured autologous epithelium in patients with burns of ninety percent or more of the body surface.

Sheridan RL, Tompkins RG
J Trauma. 1995;38(1):48-50 - PMID: 7745657

Percutaneous cholecystostomy in the critically ill burn patient.

Sheridan RL, Ryan CM, Lee MJ, Mueller PR, Tompkins RG
J Trauma. 1995;38(2):248-51 - PMID: 7869446

Cutaneous thermal injury alters macromolecular permeability of rat small intestine.

Carter EA, Tompkins RG, Schiffrin E, Burke JF
Surgery. 1990;107(3):335-41 - PMID: 2309150

Hepatic tissue engineering. Development of critical technologies.

Yarmush ML, Toner M, Dunn JC, Rotem A, Hubel A, Tompkins RG
Ann N Y Acad Sci. 1992;665:238-52 - PMID: 1416606

Dynamics of photoinduced cell plasma membrane injury.

Thorpe WP, Toner M, Ezzell RM, Tompkins RG, Yarmush ML
Biophys J. 1995;68(5):2198-206 - PMID: 7612864 - PMCID: PMC1282125 - DOI: 10.1016/S0006-3495(95)80402-9

A network-based analysis of systemic inflammation in humans.

Calvano SE, Xiao W, Richards DR, Felciano RM, Baker HV, Cho RJ, Chen RO, Brownstein BH, Cobb JP, Tschoeke SK, Miller-Graziano C, Moldawer LL, Mindrinos MN, Davis RW, Tompkins RG, Lowry SF,
Nature. 2005;437(7061):1032-7 - PMID: 16136080 - DOI: 10.1038/nature03985

Whole blood and leukocyte RNA isolation for gene expression analyses.

Feezor RJ, Baker HV, Mindrinos M, Hayden D, Tannahill CL, Brownstein BH, Fay A, MacMillan S, Laramie J, Xiao W, Moldawer LL, Cobb JP, Laudanski K, Miller-Graziano CL, Maier RV, Schoenfeld D, Davis RW, Tompkins RG,
Physiol Genomics. 2004;19(3):247-54 - PMID: 15548831 - DOI: 10.1152/physiolgenomics.00020.2004

Application of genome-wide expression analysis to human health and disease.

Cobb JP, Mindrinos MN, Miller-Graziano C, Calvano SE, Baker HV, Xiao W, Laudanski K, Brownstein BH, Elson CM, Hayden DL, Herndon DN, Lowry SF, Maier RV, Schoenfeld DA, Moldawer LL, Davis RW, Tompkins RG, Baker HV, Bankey P, Billiar T, Brownstein BH, Calvano SE, Camp D, Chaudry I, Cobb JP, Davis RW, Elson CM, Freeman B, Gamelli R, Gibran N, Harbrecht B, Hayden DL, Heagy W, Heimbach D, Herndon DN, Horton J, Hunt J, Laudanski K, Lederer J, Lowry SF, Maier RV, Mannick J, McKinley B, Miller-Grazi ...
Proc Natl Acad Sci U S A. 2005;102(13):4801-6 - PMID: 15781863 - PMCID: PMC555033 - DOI: 10.1073/pnas.0409768102

The Drosophila melanogaster toll pathway participates in resistance to infection by the gram-negative human pathogen Pseudomonas aeruginosa.

Lau GW, Goumnerov BC, Walendziewicz CL, Hewitson J, Xiao W, Mahajan-Miklos S, Tompkins RG, Perkins LA, Rahme LG
Infect Immun. 2003;71(7):4059-66 - PMID: 12819096 - PMCID: PMC162001

A quantitative model of invasive Pseudomonas infection in burn injury.

Stevens EJ, Ryan CM, Friedberg JS, Barnhill RL, Yarmush ML, Tompkins RG
J Burn Care Rehabil. 1994;15(3):232-5 - PMID: 8056812

Nucleation and growth of ice crystals inside cultured hepatocytes during freezing in the presence of dimethyl sulfoxide.

Karlsson JO, Cravalho EG, Borel Rinkes IH, Tompkins RG, Yarmush ML, Toner M
Biophys J. 1993;65(6):2524-36 - PMID: 8312489 - PMCID: PMC1225995 - DOI: 10.1016/S0006-3495(93)81319-5

Cryopreservation of isolated hepatocytes: intracellular ice formation under various chemical and physical conditions.

Harris CL, Toner M, Hubel A, Cravalho EG, Yarmush ML, Tompkins RG
Cryobiology. 1991;28(5):436-44 - PMID: 1752131

Intracellular ice formation during the freezing of hepatocytes cultured in a double collagen gel.

Hubel A, Toner M, Cravalho EG, Yarmush ML, Tompkins RG
Biotechnol Prog. 1992;7(6):554-9 - PMID: 1367755 - DOI: 10.1021/bp00012a011

The use of pentafluorophenyl derivatives for the 18F labelling of proteins.

Herman LW, Fischman AJ, Tompkins RG, Hanson RN, Byon C, Strauss HW, Elmaleh DR
Nucl Med Biol. 1994;21(7):1005-10 - PMID: 9234356

Synthesis of 2-[18F]fluoro-2-deoxy-L-glucose and positron emission tomography studies in monkeys.

Meng J, Elmaleh DR, Jyawook S, Weiss S, Alpert NM, Babich JW, Tompkins RG, Fischman AJ
Nucl Med Biol. 1994;21(4):633-40 - PMID: 9234321

Sn-chlorin e6 antibacterial immunoconjugates. An in vitro and in vivo analysis.

Lu XM, Fischman AJ, Stevens E, Lee TT, Strong L, Tompkins RG, Yarmush ML
J Immunol Methods. 1992;156(1):85-99 - PMID: 1431166

Antisense DNA delivery in vivo: liver targeting by receptor-mediated uptake.

Lu XM, Fischman AJ, Jyawook SL, Hendricks K, Tompkins RG, Yarmush ML
J Nucl Med. 1994;35(2):269-75 - PMID: 8294998

Autoradiographic method for quantitation of radiolabeled proteins in tissues using indium-111.

Morrell EM, Tompkins RG, Fischman AJ, Wilkinson RA, Burke JF, Rubin RH, Strauss HW, Yarmush ML
J Nucl Med. 1989;30(9):1538-45 - PMID: 2504892

Mapping of local renal blood flow with PET and H(2)(15)O.

Alpert NM, Rabito CA, Correia DJ, Babich JW, Littman BH, Tompkins RG, Rubin NT, Rubin RH, Fischman AJ
J Nucl Med. 2002;43(4):470-5 - PMID: 11937589

Antibody-targeted photolysis. Bacteriocidal effects of Sn (IV) chlorin e6-dextran-monoclonal antibody conjugates.

Friedberg JS, Tompkins RG, Rakestraw SL, Warren SW, Fischman AJ, Yarmush ML
Ann N Y Acad Sci. 1991;618:383-93 - PMID: 1706578

Imaging infections with antibodies. A quantitative autoradiographic analysis.

Morrel EM, Tompkins RG, Fischman AJ, Wilkinson RA, Yarmush ML
J Immunol Methods. 1990;130(1):39-48 - PMID: 2193059

Localization of radiolabeled chemotactic peptide at focal sites of Escherichia coli infection in rabbits: evidence for a receptor-specific mechanism.

Babich JW, Tompkins RG, Graham W, Barrow SA, Fischman AJ
J Nucl Med. 1997;38(8):1316-22 - PMID: 9255175

Imaging infections with antibodies. A method to localize occult infections.

Tompkins RG, Fischman AJ, Yarmush ML
Chest. 1991;100(3 Suppl):169S-172S - PMID: 1909225

A new approach for sequencing human IRS1 phosphotyrosine-containing peptides using CapLC-Q-TOF(micro).

Lu XM, Lu MY, Fischman AJ, Tompkins RG
J Mass Spectrom. 2005;40(5):599-607 - PMID: 15739155 - DOI: 10.1002/jms.826

Acute adrenal insufficiency in the burn intensive care unit.

Sheridan RL, Ryan CM, Tompkins RG
Burns. 1993;19(1):63-6 - PMID: 8435119

Regulation of signaling pathways downstream of IGF-I/insulin by androgen in skeletal muscle of glucocorticoid-treated rats.

Yin HN, Chai JK, Yu YM, Shen CA, Wu YQ, Yao YM, Liu H, Liang LM, Tompkins RG, Sheng ZY
J Trauma. 2009;66(4):1083-90 - PMID: 19359918 - PMCID: PMC4085982 - DOI: 10.1097/TA.0b013e31817e7420

Dynamics of cell membrane permeability changes at supraphysiological temperatures.

Bischof JC, Padanilam J, Holmes WH, Ezzell RM, Lee RC, Tompkins RG, Yarmush ML, Toner M
Biophys J. 1995;68(6):2608-14 - PMID: 7647264 - PMCID: PMC1282171 - DOI: 10.1016/S0006-3495(95)80445-5

In vitro and in vivo evaluation of albumin synthesis rate of porcine hepatocytes in a flat-plate bioreactor.

Shito M, Kim NH, Baskaran H, Tilles AW, Tompkins RG, Yarmush ML, Toner M
Artif Organs. 2001;25(7):571-8 - PMID: 11493279

Antibody-targeted photolysis of bacteria in vivo.

Berthiaume F, Reiken SR, Toner M, Tompkins RG, Yarmush ML
Biotechnology (N Y). 1994;12(7):703-6 - PMID: 7764916

Genetically modified human epidermis overexpressing PDGF-A directs the development of a cellular and vascular connective tissue stroma when transplanted to athymic mice--implications for the use of genetically modified keratinocytes to modulate dermal regeneration.

Eming SA, Lee J, Snow RG, Tompkins RG, Yarmush ML, Morgan JR
J Invest Dermatol. 1995;105(6):756-63 - PMID: 7490468

Assessment of artificial liver support technology.

Yarmush ML, Dunn JC, Tompkins RG
Cell Transplant. 1994;1(5):323-41 - PMID: 1344305

Nonequilibrium freezing of one-cell mouse embryos. Membrane integrity and developmental potential.

Toner M, Cravalho EG, Stachecki J, Fitzgerald T, Tompkins RG, Yarmush ML, Armant DR
Biophys J. 1993;64(6):1908-21 - PMID: 8369414 - PMCID: PMC1262525 - DOI: 10.1016/S0006-3495(93)81562-5

A new approach to the cryopreservation of hepatocytes in a sandwich culture configuration.

Koebe HG, Dunn JC, Toner M, Sterling LM, Hubel A, Cravalho EG, Yarmush ML, Tompkins RG
Cryobiology. 1990;27(5):576-84 - PMID: 2249459

Amino acid supplementation improves cell-specific functions of the rat hepatocytes exposed to human plasma.

Washizu J, Chan C, Berthiaume F, Tompkins RG, Toner M, Yarmush ML
Tissue Eng. 2000;6(5):497-504 - PMID: 11074936 - DOI: 10.1089/107632700750022143

Effects of hypothermia on the function, membrane integrity, and cytoskeletal structure of hepatocytes.

Stefanovich P, Ezzell RM, Sheehan SJ, Tompkins RG, Yarmush ML, Toner M
Cryobiology. 1995;32(4):389-403 - PMID: 7656572 - DOI: 10.1006/cryo.1995.1039

Optimization of rat hepatocyte culture in citrated human plasma.

Washizu J, Berthiaume F, Chan C, Tompkins RG, Toner M, Yarmush ML
J Surg Res. 2000;93(2):237-46 - PMID: 11027466 - DOI: 10.1006/jsre.2000.5986

Ice formation in isolated human hepatocytes and human liver tissue.

Bischof JC, Ryan CM, Tompkins RG, Yarmush ML, Toner M
ASAIO J. 1997;43(4):271-8 - PMID: 9242939

Effects of dimethyl sulfoxide on cultured rat hepatocytes in sandwich configuration.

Borel Rinkes IH, Toner M, Ezzell RM, Tompkins RG, Yarmush ML
Cryobiology. 1992;29(4):443-53 - PMID: 1395682

Long-term functional recovery of hepatocytes after cryopreservation in a three-dimensional culture configuration.

Borel Rinkes IH, Toner M, Sheeha SJ, Tompkins RG, Yarmush ML
Cell Transplant. 1994;1(4):281-92 - PMID: 1344301

Culture matrix configuration and composition in the maintenance of hepatocyte polarity and function.

Moghe PV, Berthiaume F, Ezzell RM, Toner M, Tompkins RG, Yarmush ML
Biomaterials. 1996;17(3):373-85 - PMID: 8745335

Intrahepatic amino acid and glucose metabolism in a D-galactosamine-induced rat liver failure model.

Arai K, Lee K, Berthiaume F, Tompkins RG, Yarmush ML
Hepatology. 2001;34(2):360-71 - PMID: 11481621 - DOI: 10.1053/jhep.2001.26515

Immobilized IL-2 preserves the viability of an IL-2 dependent cell line.

Horwitz JI, Toner M, Tompkins RG, Yarmush ML
Mol Immunol. 1993;30(11):1041-8 - PMID: 8350874

Development of a microfabricated cytometry platform for characterization and sorting of individual leukocytes.

Revzin A, Sekine K, Sin A, Tompkins RG, Toner M
Lab Chip. 2004;5(1):30-7 - PMID: 15616737 - DOI: 10.1039/b405557h

An extracorporeal microscopy perfusion chamber for on-line studies of environmental effects on cultured hepatocytes.

Borel Rinkes IH, Toner M, Tompkins RG, Yarmush ML
J Biomech Eng. 1994;116(2):135-9 - PMID: 8078319

Efficacy of an extracorporeal flat-plate bioartificial liver in treating fulminant hepatic failure.

Shito M, Tilles AW, Tompkins RG, Yarmush ML, Toner M
J Surg Res. 2003;111(1):53-62 - PMID: 12842448

Selective adhesion of hepatocytes on patterned surfaces.

Bhatia SN, Toner M, Tompkins RG, Yarmush ML
Ann N Y Acad Sci. 1994;745:187-209 - PMID: 7832508

Bioengineering of liver assist devices.

Tilles AW, Berthiaume F, Yarmush ML, Tompkins RG, Toner M
J Hepatobiliary Pancreat Surg. 2003;9(6):686-96 - PMID: 12658402 - DOI: 10.1007/s005340200095

A device to measure the oxygen uptake rate of attached cells: importance in bioartificial organ design.

Foy BD, Rotem A, Toner M, Tompkins RG, Yarmush ML
Cell Transplant. 1995;3(6):515-27 - PMID: 7881763

Continuous flow microfluidic device for rapid erythrocyte lysis.

Sethu P, Anahtar M, Moldawer LL, Tompkins RG, Toner M
Anal Chem. 2004;76(21):6247-53 - PMID: 15516115 - DOI: 10.1021/ac049429p

Single-cell chemical lysis in picoliter-scale closed volumes using a microfabricated device.

Irimia D, Tompkins RG, Toner M
Anal Chem. 2004;76(20):6137-43 - PMID: 15481964 - DOI: 10.1021/ac0497508

Effect of flow and surface conditions on human lymphocyte isolation using microfluidic chambers.

Murthy SK, Sin A, Tompkins RG, Toner M
Langmuir. 2004;20(26):11649-55 - PMID: 15595794 - DOI: 10.1021/la048047b

Enrichment using antibody-coated microfluidic chambers in shear flow: model mixtures of human lymphocytes.

Sin A, Murthy SK, Revzin A, Tompkins RG, Toner M
Biotechnol Bioeng. 2005;91(7):816-26 - PMID: 16037988 - DOI: 10.1002/bit.20556

Blood glutathione synthesis rates in healthy adults receiving a sulfur amino acid-free diet.

Lyons J, Rauh-Pfeiffer A, Yu YM, Lu XM, Zurakowski D, Tompkins RG, Ajami AM, Young VR, Castillo L
Proc Natl Acad Sci U S A. 2000;97(10):5071-6 - PMID: 10792033 - PMCID: PMC25783 - DOI: 10.1073/pnas.090083297

Recent clinical experience with cultured autologous epithelium.

Sheridan RL, Tompkins RG
Br J Plast Surg. 1996;49(1):72-4 - PMID: 8705108

Metabolic fate of extrahepatic arginine in liver after burn injury.

Chen CL, Fei Z, Carter EA, Lu XM, Hu RH, Young VR, Tompkins RG, Yu YM
Metabolism. 2003;52(10):1232-9 - PMID: 14564672

Burn therapy 1985: acute management.

Tompkins RG, Burke JF
Intensive Care Med. 1986;12(4):289-95 - PMID: 3531277

A general model for analysis of the tricarboxylic acid cycle with use of [13C]glutamate isotopomer measurements.

Vogt JA, Fischman AJ, Kempf M, Yu YM, Tompkins RG, Burke JF
Am J Physiol. 1994;266(6 Pt 1):E1012-22 - PMID: 7912892 - DOI: 10.1152/ajpendo.1994.266.6.E1012

Regional measurement of canine skeletal muscle blood flow by positron emission tomography with H2(15)O.

Fischman AJ, Hsu H, Carter EA, Yu YM, Tompkins RG, Guerrero JL, Young VR, Alpert NM
J Appl Physiol. 2002;92(4):1709-16 - PMID: 11896041 - DOI: 10.1152/japplphysiol.00445.2001

Muscle protein synthesis by positron-emission tomography with L-[methyl-11C]methionine in adult humans.

Fischman AJ, Yu YM, Livni E, Babich JW, Young VR, Alpert NM, Tompkins RG
Proc Natl Acad Sci U S A. 1998;95(22):12793-8 - PMID: 9788993 - PMCID: PMC23595

Measurement of muscle protein synthesis by positron emission tomography with L-[methyl-11C]methionine.

Hsu H, Yu YM, Babich JW, Burke JF, Livni E, Tompkins RG, Young VR, Alpert NM, Fischman AJ
Proc Natl Acad Sci U S A. 1996;93(5):1841-6 - PMID: 8700846 - PMCID: PMC39869

Quantitative aspects of interorgan relationships among arginine and citrulline metabolism.

Yu YM, Burke JF, Tompkins RG, Martin R, Young VR
Am J Physiol. 1996;271(6 Pt 1):E1098-109 - PMID: 8997231 - DOI: 10.1152/ajpendo.1996.271.6.E1098

Prophylactic antibiotics and their role in the prevention of surgical wound infection.

Sheridan RL, Tompkins RG, Burke JF
Adv Surg. 1994;27:43-65 - PMID: 8140979

Young age is not a predictor of mortality in burns.

Sheridan RL, Weber JM, Schnitzer JJ, Schulz JT, Ryan CM, Tompkins RG
Pediatr Crit Care Med. 2001;2(3):223-224 - PMID: 12793945

Both C3a and C3a(desArg) regulate interleukin-6 synthesis in human peripheral blood mononuclear cells.

Takabayashi T, Vannier E, Burke JF, Tompkins RG, Gelfand JA, Clark BD
J Infect Dis. 1998;177(6):1622-8 - PMID: 9607842

Comparative evaluation of the quantitative utilization of parenterally and enterally administered leucine and L-[1-13C,15N]leucine within the whole body and the splanchnic region.

Yu YM, Young VR, Tompkins RG, Burke JF
JPEN J Parenter Enteral Nutr. 1996;19(3):209-15 - PMID: 8551649 - DOI: 10.1177/0148607195019003209

What's new in burns and metabolism.

Sheridan RL, Tompkins RG
J Am Coll Surg. 2004;198(2):243-63 - PMID: 14759783 - DOI: 10.1016/j.jamcollsurg.2003.11.007

Rectal necrosis after pelvic crush injury.

Tompkins RG, McCabe CJ, Burke JF, Keating MA, Wright CD
J Trauma. 1988;28(5):697-9 - PMID: 3367418

The acutely burned hand: management and outcome based on a ten-year experience with 1047 acute hand burns.

Sheridan RL, Hurley J, Smith MA, Ryan CM, Bondoc CC, Quinby WC, Tompkins RG, Burke JF
J Trauma. 1995;38(3):406-11 - PMID: 7897728

Control of hypertrophic scar growth using selective photothermolysis.

Reiken SR, Wolfort SF, Berthiaume F, Compton C, Tompkins RG, Yarmush ML
Lasers Surg Med. 1997;21(1):7-12 - PMID: 9228634

Significant reductions in mortality for children with burn injuries through the use of prompt eschar excision.

Tompkins RG, Remensnyder JP, Burke JF, Tompkins DM, Hilton JF, Schoenfeld DA, Behringer GE, Bondoc CC, Briggs SE, Quinby WC
Ann Surg. 1988;208(5):577-85 - PMID: 3190284 - PMCID: PMC1493782

Selective activation of peripheral blood T cell subsets by endotoxin infusion in healthy human subjects corresponds to differential chemokine activation.

De AK, Miller-Graziano CL, Calvano SE, Laudanski K, Lowry SF, Moldawer LL, Remick DG, Rajicic N, Schoenfeld D, Tompkins RG
J Immunol. 2005;175(9):6155-62 - PMID: 16237112

Measurement of 125I-low density lipoprotein uptake in selected tissues of the squirrel monkey by quantitative autoradiography.

Tompkins RG, Schnitzer JJ, Yarmush ML, Colton CK, Smith KA
Am J Pathol. 1988;132(3):526-42 - PMID: 3414782 - PMCID: PMC1880767

Interaction with autologous platelets multiplies interleukin-1 and tumor necrosis factor production in mononuclear cells.

Aiura K, Clark BD, Dinarello CA, Margolis NH, Kaplanski G, Burke JF, Tompkins RG, Gelfand JA
J Infect Dis. 1997;175(1):123-9 - PMID: 8985205

Long-term function of cryopreserved rat hepatocytes in a coculture system.

Sugimachi K, Sosef MN, Baust JM, Fowler A, Tompkins RG, Toner M
Cell Transplant. 2004;13(2):187-95 - PMID: 15129765

Macromolecular transport within heart valves.

Tompkins RG, Schnitzer JJ, Yarmush ML
Circ Res. 1989;64(6):1213-23 - PMID: 2720921

Artificial skin.

Schulz JT, Tompkins RG, Burke JF
Annu Rev Med. 2000;51:231-44 - PMID: 10774462 - DOI: 10.1146/annurev.med.51.1.231

Emergency management of major hydrofluoric acid exposures.

Sheridan RL, Ryan CM, Quinby WC, Blair J, Tompkins RG, Burke JF
Burns. 1995;21(1):62-4 - PMID: 7718123

Long-term consequences of toxic epidermal necrolysis in children.

Sheridan RL, Schulz JT, Ryan CM, Schnitzer JJ, Lawlor D, Driscoll DN, Donelan MB, Tompkins RG
Pediatrics. 2002;109(1):74-8 - PMID: 11773544

Nosocomial infections in pediatric patients with burns.

Weber JM, Sheridan RL, Pasternack MS, Tompkins RG
Am J Infect Control. 1997;25(3):195-201 - PMID: 9202814

A 10-year experience with toxic epidermal necrolysis.

Schulz JT, Sheridan RL, Ryan CM, MacKool B, Tompkins RG
J Burn Care Rehabil. 2000;21(3):199-204 - PMID: 10850900

Candidemia in the pediatric patient with burns.

Sheridan RL, Weber JM, Budkevich LG, Tompkins RG
J Burn Care Rehabil. 1996;16(4):440-3 - PMID: 8582925

The metabolic basis of the increase of the increase in energy expenditure in severely burned patients.

Yu YM, Tompkins RG, Ryan CM, Young VR
JPEN J Parenter Enteral Nutr. 1999;23(3):160-8 - PMID: 10338224 - DOI: 10.1177/0148607199023003160

Midazolam infusion in pediatric patients with burns who are undergoing mechanical ventilation.

Sheridan RL, McEttrick M, Bacha G, Stoddard F, Tompkins RG
J Burn Care Rehabil. 1995;15(6):515-8 - PMID: 7852455

Antibiotic prophylaxis for group A streptococcal burn wound infection is not necessary.

Sheridan RL, Weber JM, Pasternack MS, Tompkins RG
J Trauma. 2001;51(2):352-5 - PMID: 11493799

Occult gastrointestinal bleeding: newer techniques and diagnosis and therapy.

Moncure AC, Tompkins RG, Athanasoulis CA, Welch CE
Adv Surg. 1989;22:141-77 - PMID: 2645744

Site-specific detection of S-nitrosylated PKB alpha/Akt1 from rat soleus muscle using CapLC-Q-TOF(micro) mass spectrometry.

Lu XM, Lu M, Tompkins RG, Fischman AJ
J Mass Spectrom. 2005;40(9):1140-8 - PMID: 16041729 - DOI: 10.1002/jms.885

Progress in burn treatment and the use of artificial skin.

Tompkins RG, Burke JF
World J Surg. 1991;14(6):819-24 - PMID: 2256353

Inhaled nitric oxide in burn patients with respiratory failure.

Sheridan RL, Hurford WE, Kacmarek RM, Ritz RH, Yin LM, Ryan CM, Tompkins RG
J Trauma. 1997;42(4):629-34 - PMID: 9137249

Solid organ procurement from burn patients.

Sheridan RL, Stewart B, Tompkins RG
J Trauma. 1995;38(5):824-5 - PMID: 7760420

Intracompartmental sepsis in burn patients.

Sheridan RL, Tompkins RG, McManus WF, Pruitt BA
J Trauma. 1994;36(3):301-5 - PMID: 8145308

Control of hypertrophic scar growth using antibody-targeted photolysis.

Wolfort SF, Reiken SR, Berthiaume F, Tompkins RG, Yarmush ML
J Surg Res. 1996;62(1):17-22 - PMID: 8606503 - DOI: 10.1006/jsre.1996.0166

Quantitative analysis of blood vessel permeability of squirrel monkeys.

Tompkins RG
Am J Physiol. 1991;260(4 Pt 2):H1194-204 - PMID: 2012223 - DOI: 10.1152/ajpheart.1991.260.4.H1194

Quantitative proteome analysis of human plasma following in vivo lipopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach.

Qian WJ, Monroe ME, Liu T, Jacobs JM, Anderson GA, Shen Y, Moore RJ, Anderson DJ, Zhang R, Calvano SE, Lowry SF, Xiao W, Moldawer LL, Davis RW, Tompkins RG, Camp DG, Smith RD,
Mol Cell Proteomics. 2005;4(5):700-9 - PMID: 15753121 - PMCID: PMC1829297 - DOI: 10.1074/mcp.M500045-MCP200

Ultra-high-efficiency strong cation exchange LC/RPLC/MS/MS for high dynamic range characterization of the human plasma proteome.

Shen Y, Jacobs JM, Camp DG, Fang R, Moore RJ, Smith RD, Xiao W, Davis RW, Tompkins RG
Anal Chem. 2004;76(4):1134-44 - PMID: 14961748 - DOI: 10.1021/ac034869m

Long-term in vitro function of adult hepatocytes in a collagen sandwich configuration.

Dunn JC, Tompkins RG, Yarmush ML
Biotechnol Prog. 1991;7(3):237-45 - PMID: 1367596 - DOI: 10.1021/bp00009a007

Circulating interleukin-1 and tumor necrosis factor in septic shock and experimental endotoxin fever.

Cannon JG, Tompkins RG, Gelfand JA, Michie HR, Stanford GG, van der Meer JW, Endres S, Lonnemann G, Corsetti J, Chernow B
J Infect Dis. 1990;161(1):79-84 - PMID: 2295861

Equilibrium binding characteristics of monoclonal antibodies recognizing melanoma cell surface antigens.

Shockley TR, Mandeville JT, Tompkins RG, Yarmush ML
Hybridoma. 1990;9(6):527-44 - PMID: 2076895 - DOI: 10.1089/hyb.1990.9.527

Prompt eschar excision: a treatment system contributing to reduced burn mortality. A statistical evaluation of burn care at the Massachusetts General Hospital (1974-1984).

Tompkins RG, Burke JF, Schoenfeld DA, Bondoc CC, Quinby WC, Behringer GC, Ackroyd FW
Ann Surg. 1986;204(3):272-81 - PMID: 3753058 - PMCID: PMC1251276

Technetium-99m-labeled hydrazino nicotinamide derivatized chemotactic peptide analogs for imaging focal sites of bacterial infection.

Babich JW, Solomon H, Pike MC, Kroon D, Graham W, Abrams MJ, Tompkins RG, Rubin RH, Fischman AJ
J Nucl Med. 1993;34(11):1964-74 - PMID: 8229242

Increased gut permeability early after burns correlates with the extent of burn injury.

Ryan CM, Yarmush ML, Burke JF, Tompkins RG
Crit Care Med. 1992;20(11):1508-12 - PMID: 1424691

Effectiveness of poloxamer 188 in arresting calcein leakage from thermally damaged isolated skeletal muscle cells.

Padanilam JT, Bischof JC, Lee RC, Cravalho EG, Tompkins RG, Yarmush ML, Toner M
Ann N Y Acad Sci. 1994;720:111-23 - PMID: 7516633

Femoral arterial catheterization in paediatric burn patients.

Sheridan RL, Weber JM, Tompkins RG
Burns. 1994;20(5):451-2 - PMID: 7999277

Clinical experience with the use of biodegradable tacks in pediatric patients with burns.

Sheridan RL, Petras L, Basha G, Tompkins RG
J Burn Care Rehabil. 1995;16(2 Pt 1):143-4 - PMID: 7775509

In vivo rabbit hindquarter model for assessment of regional burn hypermetabolism.

Xu J, Fei Z, Yu YM, Xu W, Rhodes A, Tompkins RG, Schulz JT
J Appl Physiol. 2002;94(1):135-40 - PMID: 12391055 - DOI: 10.1152/japplphysiol.00513.2002

A stable long-term hepatocyte culture system for studies of physiologic processes: cytokine stimulation of the acute phase response in rat and human hepatocytes.

Bader A, Borel Rinkes IH, Closs EI, Ryan CM, Toner M, Cunningham JM, Tompkins RG, Yarmush ML
Biotechnol Prog. 1992;8(3):219-25 - PMID: 1368259 - DOI: 10.1021/bp00015a007

Effect of collagen gel configuration on the cytoskeleton in cultured rat hepatocytes.

Ezzell RM, Toner M, Hendricks K, Dunn JC, Tompkins RG, Yarmush ML
Exp Cell Res. 1993;208(2):442-52 - PMID: 8375473 - DOI: 10.1006/excr.1993.1266

Comparative proteome analyses of human plasma following in vivo lipopolysaccharide administration using multidimensional separations coupled with tandem mass spectrometry.

Qian WJ, Jacobs JM, Camp DG, Monroe ME, Moore RJ, Gritsenko MA, Calvano SE, Lowry SF, Xiao W, Moldawer LL, Davis RW, Tompkins RG, Smith RD
Proteomics. 2005;5(2):572-84 - PMID: 15627965 - PMCID: PMC1781926 - DOI: 10.1002/pmic.200400942

Long-term maintenance of cytochrome P450 activities by rat hepatocyte/3T3 cell co-cultures in heparinized human plasma.

Washizu J, Berthiaume F, Mokuno Y, Tompkins RG, Toner M, Yarmush ML
Tissue Eng. 2001;7(6):691-703 - PMID: 11749727 - DOI: 10.1089/107632701753337654

Cellular distribution of endotoxin after injection of chemically purified lipopolysaccharide differs from that after injection of live bacteria.

Ge Y, Ezzell RM, Tompkins RG, Warren HS
J Infect Dis. 1994;169(1):95-104 - PMID: 8277203

Significance analysis of time course microarray experiments.

Storey JD, Xiao W, Leek JT, Tompkins RG, Davis RW
Proc Natl Acad Sci U S A. 2005;102(36):12837-42 - PMID: 16141318 - PMCID: PMC1201697 - DOI: 10.1073/pnas.0504609102

Long-term outcome of children surviving massive burns.

Sheridan RL, Hinson MI, Liang MH, Nackel AF, Schoenfeld DA, Ryan CM, Mulligan JL, Tompkins RG
JAMA. 2000;283(1):69-73 - PMID: 10632282

Radiochemical purification of bacteriophage lambda integrase.

Ausubel FM
Nature. 1974;247(437):152-4 - PMID: 4589454

Recombination between bacterial plasmids leading to the formation of plasmid multimers.

Bedbrook JR, Ausubel FM
Cell. 1976;9(4 PT 2):707-16 - PMID: 797459

Radiochemical identification of the kil gene product of bacteriophage lambda.

Greer H, Ausubel FM
Virology. 1979;95(2):577-80 - PMID: 462802

Cyanobacterial ribonucleic acid polymerases recognize lambda promoters.

Miller SS, Ausubel FM, Bogorad L
J Bacteriol. 1979;140(1):246-50 - PMID: 159286 - PMCID: PMC216802

Directive segregation in the basis of colE1 plasmid incompatibility.

Bedbrook JR, Lehrach H, Ausubel FM
Nature. 1979;281(5731):447-52 - PMID: 386132

Biological nitrogen fixation: recent advances and future prospects.

Ausubel FM
Regul Toxicol Pharmacol. 1986;6(1):1-10 - PMID: 3704206

Molecular genetics of symbiotic nitrogen fixation.

Ausubel FM
Cell. 1982;29(1):1-2 - PMID: 6286135

Signal transduction mutants of Arabidopsis uncouple nuclear CAB and RBCS gene expression from chloroplast development.

Susek RE, Ausubel FM, Chory J
Cell. 1993;74(5):787-99 - PMID: 7690685

A superfamily of Arabidopsis thaliana retrotransposons.

Konieczny A, Voytas DF, Cummings MP, Ausubel FM
Genetics. 1991;127(4):801-9 - PMID: 1709409 - PMCID: PMC1204407

Rhizobium meliloti ntrA (rpoN) gene is required for diverse metabolic functions.

Ronson CW, Nixon BT, Albright LM, Ausubel FM
J Bacteriol. 1987;169(6):2424-31 - PMID: 3034856 - PMCID: PMC212082

Interference between Rhizobium meliloti and Rhizobium trifolii nodulation genes: genetic basis of R. meliloti dominance.

Debellé F, Maillet F, Vasse J, Rosenberg C, de Billy F, Truchet G, Dénarié J, Ausubel FM
J Bacteriol. 1988;170(12):5718-27 - PMID: 2848012 - PMCID: PMC211674

Identification and characterization of the Rhizobium meliloti ntrC gene: R. meliloti has separate regulatory pathways for activation of nitrogen fixation genes in free-living and symbiotic cells.

Szeto WW, Nixon BT, Ronson CW, Ausubel FM
J Bacteriol. 1987;169(4):1423-32 - PMID: 2881918 - PMCID: PMC211963

Regulation of Flavonoid Biosynthetic Genes in Germinating Arabidopsis Seedlings.

Kubasek WL, Shirley BW, McKillop A, Goodman HM, Briggs W, Ausubel FM
Plant Cell. 1992;4(10):1229-1236 - PMID: 12297632 - PMCID: PMC160210 - DOI: 10.1105/tpc.4.10.1229

Five components of the ethylene-response pathway identified in a screen for weak ethylene-insensitive mutants in Arabidopsis.

Alonso JM, Stepanova AN, Solano R, Wisman E, Ferrari S, Ausubel FM, Ecker JR
Proc Natl Acad Sci U S A. 2003;100(5):2992-7 - PMID: 12606727 - PMCID: PMC151454 - DOI: 10.1073/pnas.0438070100

Specialized binary vector for plant transformation: expression of the Arabidopsis thaliana AHAS gene in Nicotiana tabacum.

Olszewski NE, Martin FB, Ausubel FM
Nucleic Acids Res. 1988;16(22):10765-82 - PMID: 3060849 - PMCID: PMC338938

The centromere region of Arabidopsis thaliana chromosome 1 contains telomere-similar sequences.

Richards EJ, Goodman HM, Ausubel FM
Nucleic Acids Res. 1991;19(12):3351-7 - PMID: 1648204 - PMCID: PMC328334

Differential roles of the Pseudomonas aeruginosa PA14 rpoN gene in pathogenicity in plants, nematodes, insects, and mice.

Hendrickson EL, Plotnikova J, Mahajan-Miklos S, Rahme LG, Ausubel FM
J Bacteriol. 2001;183(24):7126-34 - PMID: 11717271 - PMCID: PMC95561 - DOI: 10.1128/JB.183.24.7126-7134.2001

The art of serendipity: killing of Caenorhabditis elegans by human pathogens as a model of bacterial and fungal pathogenesis.

Mylonakis E, Ausubel FM, Tang RJ, Calderwood SB
Expert Rev Anti Infect Ther. 2003;1(1):167-73 - PMID: 15482109

Conditionally replicating plasmid vectors that can integrate into the Klebsiella pneumoniae chromosome via bacteriophage P4 site-specific recombination.

Ow DW, Ausubel FM
J Bacteriol. 1983;155(2):704-13 - PMID: 6307977 - PMCID: PMC217740

The Caenorhabditis elegans MAPK phosphatase VHP-1 mediates a novel JNK-like signaling pathway in stress response.

Mizuno T, Hisamoto N, Terada T, Kondo T, Adachi M, Nishida E, Kim DH, Ausubel FM, Matsumoto K
EMBO J. 2004;23(11):2226-34 - PMID: 15116070 - PMCID: PMC419906 - DOI: 10.1038/sj.emboj.7600226

Molecular genetics of plant disease resistance.

Staskawicz BJ, Ausubel FM, Baker BJ, Ellis JG, Jones JD
Science. 1995;268(5211):661-7 - PMID: 7732374

Identification of virulence genes in a pathogenic strain of Pseudomonas aeruginosa by representational difference analysis.

Choi JY, Sifri CD, Goumnerov BC, Rahme LG, Ausubel FM, Calderwood SB
J Bacteriol. 2002;184(4):952-61 - PMID: 11807055 - PMCID: PMC134824

VPEgamma exhibits a caspase-like activity that contributes to defense against pathogens.

Rojo E, Martín R, Carter C, Zouhar J, Pan S, Plotnikova J, Jin H, Paneque M, Sánchez-Serrano JJ, Baker B, Ausubel FM, Raikhel NV
Curr Biol. 2004;14(21):1897-906 - PMID: 15530390 - DOI: 10.1016/j.cub.2004.09.056

Positive correlation between virulence of Pseudomonas aeruginosa mutants in mice and insects.

Jander G, Rahme LG, Ausubel FM
J Bacteriol. 2000;182(13):3843-5 - PMID: 10851003 - PMCID: PMC94559

Pseudomonas aeruginosa killing of Caenorhabditis elegans used to identify P. aeruginosa virulence factors.

Tan MW, Rahme LG, Sternberg JA, Tompkins RG, Ausubel FM
Proc Natl Acad Sci U S A. 1999;96(5):2408-13 - PMID: 10051655 - PMCID: PMC26797

Elucidating the molecular mechanisms of bacterial virulence using non-mammalian hosts.

Mahajan-Miklos S, Rahme LG, Ausubel FM
Mol Microbiol. 2000;37(5):981-8 - PMID: 10972817

Cytotoxicity of hydrogen peroxide produced by Enterococcus faecium.

Moy TI, Mylonakis E, Calderwood SB, Ausubel FM
Infect Immun. 2004;72(8):4512-20 - PMID: 15271910 - PMCID: PMC470665 - DOI: 10.1128/IAI.72.8.4512-4520.2004

Aerobic inactivation of Rhizobium meliloti NifA in Escherichia coli is mediated by lon and two newly identified genes, snoB and snoC.

Huala E, Moon AL, Ausubel FM
J Bacteriol. 1991;173(1):382-90 - PMID: 1846139 - PMCID: PMC207197

Conservation of structure and location of Rhizobium meliloti and Klebsiella pneumoniae nifB genes.

Buikema WJ, Klingensmith JA, Gibbons SL, Ausubel FM
J Bacteriol. 1987;169(3):1120-6 - PMID: 3029020 - PMCID: PMC211909

Use of the Galleria mellonella caterpillar as a model host to study the role of the type III secretion system in Pseudomonas aeruginosa pathogenesis.

Miyata S, Casey M, Frank DW, Ausubel FM, Drenkard E
Infect Immun. 2003;71(5):2404-13 - PMID: 12704110 - PMCID: PMC153283

Caenorhabditis elegans as a model host for Staphylococcus aureus pathogenesis.

Sifri CD, Begun J, Ausubel FM, Calderwood SB
Infect Immun. 2003;71(4):2208-17 - PMID: 12654843 - PMCID: PMC152095

Conservation of nodulation genes between Rhizobium meliloti and a slow-growing Rhizobium strain that nodulates a nonlegume host.

Marvel DJ, Kuldau G, Hirsch A, Richards E, Torrey JG, Ausubel FM
Proc Natl Acad Sci U S A. 1985;82(17):5841-5 - PMID: 16593600 - PMCID: PMC390649

Differential induction of 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase genes in Arabidopsis thaliana by wounding and pathogenic attack.

Keith B, Dong XN, Ausubel FM, Fink GR
Proc Natl Acad Sci U S A. 1991;88(19):8821-5 - PMID: 1681544 - PMCID: PMC52602

Mode of action of the Arabidopsis thaliana phytoalexin camalexin and its role in Arabidopsis-pathogen interactions.

Rogers EE, Glazebrook J, Ausubel FM
Mol Plant Microbe Interact. 1996;9(8):748-57 - PMID: 8870273

Caenorhabditis elegans as a host for the study of host-pathogen interactions.

Aballay A, Ausubel FM
Curr Opin Microbiol. 2002;5(1):97-101 - PMID: 11834377

Molecular genetic analysis of Klebsiella pneumoniae nitrogen-fixation (nif) genes.

Ausubel FM, Cannon FC
Cold Spring Harb Symp Quant Biol. 1981;45 Pt 2:487-99 - PMID: 6266743

Large, identical, tandem repeating units in the C protein alpha antigen gene, bca, of group B streptococci.

Michel JL, Madoff LC, Olson K, Kling DE, Kasper DL, Ausubel FM
Proc Natl Acad Sci U S A. 1992;89(21):10060-4 - PMID: 1438195 - PMCID: PMC50277

The roles of mucD and alginate in the virulence of Pseudomonas aeruginosa in plants, nematodes and mice.

Yorgey P, Rahme LG, Tan MW, Ausubel FM
Mol Microbiol. 2001;41(5):1063-76 - PMID: 11555287

Caenorhabditis elegans: a model genetic host to study Pseudomonas aeruginosa pathogenesis.

Tan MW, Ausubel FM
Curr Opin Microbiol. 2000;3(1):29-34 - PMID: 10679415

The worm has turned--microbial virulence modeled in Caenorhabditis elegans.

Sifri CD, Begun J, Ausubel FM
Trends Microbiol. 2005;13(3):119-27 - PMID: 15737730 - DOI: 10.1016/j.tim.2005.01.003

Symbiotic nitrogen fixation: developmental genetics of nodule formation.

Lang-Unnasch N, Dunn K, Ausubel FM
Cold Spring Harb Symp Quant Biol. 1986;50:555-63 - PMID: 3868494

Developmental regulation of nodule-specific genes in alfalfa root nodules.

Dunn K, Dickstein R, Feinbaum R, Burnett BK, Peterman TK, Thoidis G, Goodman HM, Ausubel FM
Mol Plant Microbe Interact. 1988;1(2):66-74 - PMID: 2908768

High intensity and blue light regulated expression of chimeric chalcone synthase genes in transgenic Arabidopsis thaliana plants.

Feinbaum RL, Storz G, Ausubel FM
Mol Gen Genet. 1991;226(3):449-56 - PMID: 2038307

Glutamine synthetase mutations which affect expression of nitrogen fixation genes in Klebsiella pneumoniae.

Ausubel FM, Bird SC, Durbin KJ, Janssen KA, Margolskee RF, Peskin AP
J Bacteriol. 1979;140(2):597-606 - PMID: 40960 - PMCID: PMC216687

Ultrastructural analysis of ineffective alfalfa nodules formed by nif::Tn5 mutants of Rhizobium meliloti.

Hirsch AM, Bang M, Ausubel FM
J Bacteriol. 1983;155(1):367-80 - PMID: 6575011 - PMCID: PMC217689

Recombinant P4 bacteriophages propagate as viable lytic phages or as autonomous plasmids in Klebsiella pneumoniae.

Ow DW, Ausubel FM
Mol Gen Genet. 1981;180(1):165-75 - PMID: 6255293

Overlapping sequences of Klebsiella pneumoniae nifDNA cloned and characterized.

Cannon FC, Riedel GE, Ausubel FM
Mol Gen Genet. 1979;174(1):59-66 - PMID: 384162

Nucleotide sequence of the gene coding for the nitrogenase iron protein from Klebsiella pneumoniae.

Sundaresan V, Ausubel FM
J Biol Chem. 1981;256(6):2808-12 - PMID: 6259144

Regulation of nitrogen fixation genes.

Ausubel FM
Cell. 1984;37(1):5-6 - PMID: 6373013

Nitrogen fixation specific regulatory genes of Klebsiella pneumoniae and Rhizobium meliloti share homology with the general nitrogen regulatory gene ntrC of K. pneumoniae.

Buikema WJ, Szeto WW, Lemley PV, Orme-Johnson WH, Ausubel FM
Nucleic Acids Res. 1985;13(12):4539-55 - PMID: 2989799 - PMCID: PMC321805

Strains of Escherichia coli O157:H7 differ primarily by insertions or deletions, not single-nucleotide polymorphisms.

Kudva IT, Evans PS, Perna NT, Barrett TJ, Ausubel FM, Blattner FR, Calderwood SB
J Bacteriol. 2002;184(7):1873-9 - PMID: 11889093 - PMCID: PMC134921

Galleria mellonella as a model system to study Cryptococcus neoformans pathogenesis.

Mylonakis E, Moreno R, El Khoury JB, Idnurm A, Heitman J, Calderwood SB, Ausubel FM, Diener A
Infect Immun. 2005;73(7):3842-50 - PMID: 15972469 - PMCID: PMC1168598 - DOI: 10.1128/IAI.73.7.3842-3850.2005

RESISTANCE TO FUSARIUM OXYSPORUM 1, a dominant Arabidopsis disease-resistance gene, is not race specific.

Diener AC, Ausubel FM
Genetics. 2005;171(1):305-21 - PMID: 15965251 - PMCID: PMC1456520 - DOI: 10.1534/genetics.105.042218

Isolation and characterization of symbiotic mutants of bradyrhizobium sp. (Arachis) strain NC92: mutants with host-specific defects in nodulation and nitrogen fixation.

Wilson KJ, Anjaiah V, Nambiar PT, Ausubel FM
J Bacteriol. 1987;169(5):2177-86 - PMID: 3032910 - PMCID: PMC212124

Genome-wide mapping with biallelic markers in Arabidopsis thaliana.

Cho RJ, Mindrinos M, Richards DR, Sapolsky RJ, Anderson M, Drenkard E, Dewdney J, Reuber TL, Stammers M, Federspiel N, Theologis A, Yang WH, Hubbell E, Au M, Chung EY, Lashkari D, Lemieux B, Dean C, Lipshutz RJ, Ausubel FM, Davis RW, Oefner PJ
Nat Genet. 1999;23(2):203-7 - PMID: 10508518 - DOI: 10.1038/13833

Tandemly duplicated Arabidopsis genes that encode polygalacturonase-inhibiting proteins are regulated coordinately by different signal transduction pathways in response to fungal infection.

Ferrari S, Vairo D, Ausubel FM, Cervone F, De Lorenzo G
Plant Cell. 2003;15(1):93-106 - PMID: 12509524 - PMCID: PMC143454

Hypersusceptibility of cystic fibrosis mice to chronic Pseudomonas aeruginosa oropharyngeal colonization and lung infection.

Coleman FT, Mueschenborn S, Meluleni G, Ray C, Carey VJ, Vargas SO, Cannon CL, Ausubel FM, Pier GB
Proc Natl Acad Sci U S A. 2003;100(4):1949-54 - PMID: 12578988 - PMCID: PMC149939 - DOI: 10.1073/pnas.0437901100

Physical and genetic characterization of Rhizobium meliloti symbiotic mutants.

Buikema WJ, Long SR, Brown SE, van den Bos RC, Earl C, Ausubel FM
J Mol Appl Genet. 1984;2(3):249-60 - PMID: 6363587

Pseudomonas syringae manipulates systemic plant defenses against pathogens and herbivores.

Cui J, Bahrami AK, Pringle EG, Hernandez-Guzman G, Bender CL, Pierce NE, Ausubel FM
Proc Natl Acad Sci U S A. 2005;102(5):1791-6 - PMID: 15657122 - PMCID: PMC547856 - DOI: 10.1073/pnas.0409450102

Roles of salicylic acid, jasmonic acid, and ethylene in cpr-induced resistance in arabidopsis.

Clarke JD, Volko SM, Ledford H, Ausubel FM, Dong X
Plant Cell. 2000;12(11):2175-90 - PMID: 11090217 - PMCID: PMC150166

Evolutionary perspectives on innate immunity from the study of Caenorhabditis elegans.

Kim DH, Ausubel FM
Curr Opin Immunol. 2005;17(1):4-10 - PMID: 15653303 - DOI: 10.1016/j.coi.2004.11.007

Rhizobium meliloti nodulation genes allow Agrobacterium tumefaciens and Escherichia coli to form pseudonodules on alfalfa.

Hirsch AM, Wilson KJ, Jones JD, Bang M, Walker VV, Ausubel FM
J Bacteriol. 1984;158(3):1133-43 - PMID: 6327629 - PMCID: PMC215561

Regulation of nitrogen fixation genes.

Gussin GN, Ronson CW, Ausubel FM
Annu Rev Genet. 1987;20:567-91 - PMID: 3545064 - DOI: 10.1146/annurev.ge.20.120186.003031

Three unique mutants of Arabidopsis identify eds loci required for limiting growth of a biotrophic fungal pathogen.

Dewdney J, Reuber TL, Wildermuth MC, Devoto A, Cui J, Stutius LM, Drummond EP, Ausubel FM
Plant J. 2000;24(2):205-18 - PMID: 11069695

Mediation of pathogen resistance by exudation of antimicrobials from roots.

Bais HP, Prithiviraj B, Jha AK, Ausubel FM, Vivanco JM
Nature. 2005;434(7030):217-21 - PMID: 15759001 - DOI: 10.1038/nature03356

Molecular characterization of Tn5-induced symbiotic (Fix-) mutants of Rhizobium meliloti.

Zimmerman JL, Szeto WW, Ausubel FM
J Bacteriol. 1983;156(3):1025-34 - PMID: 6196347 - PMCID: PMC217946

Isolation and characterization of disease resistance gene homologues from rice cultivar IR64.

Ilag LL, Yadav RC, Huang N, Ronald PC, Ausubel FM
Gene. 2000;255(2):245-55 - PMID: 11024284

Modulation of expression of the ToxR regulon in Vibrio cholerae by a member of the two-component family of response regulators.

Wong SM, Carroll PA, Rahme LG, Ausubel FM, Calderwood SB
Infect Immun. 1998;66(12):5854-61 - PMID: 9826365 - PMCID: PMC108741

A light-independent developmental mechanism potentiates flavonoid gene expression in Arabidopsis seedlings.

Kubasek WL, Ausubel FM, Shirley BW
Plant Mol Biol. 1998;37(2):217-23 - PMID: 9617795

Arabidopsis mutants compromised for the control of cellular damage during pathogenesis and aging.

Greenberg JT, Ausubel FM
Plant J. 1993;4(2):327-41 - PMID: 8220484

Analysis of Arabidopsis mutants deficient in flavonoid biosynthesis.

Shirley BW, Kubasek WL, Storz G, Bruggemann E, Koornneef M, Ausubel FM, Goodman HM
Plant J. 1995;8(5):659-71 - PMID: 8528278

Isolation of Arabidopsis genes that differentiate between resistance responses mediated by the RPS2 and RPM1 disease resistance genes.

Reuber TL, Ausubel FM
Plant Cell. 1996;8(2):241-9 - PMID: 8742710 - PMCID: PMC161094 - DOI: 10.1105/tpc.8.2.241

Simulation of fungal-mediated cell death by fumonisin B1 and selection of fumonisin B1-resistant (fbr) Arabidopsis mutants.

Stone JM, Heard JE, Asai T, Ausubel FM
Plant Cell. 2000;12(10):1811-22 - PMID: 11041878 - PMCID: PMC149121

Use of Arabidopsis for genetic dissection of plant defense responses.

Glazebrook J, Rogers EE, Ausubel FM
Annu Rev Genet. 1998;31:547-69 - PMID: 9442907 - DOI: 10.1146/annurev.genet.31.1.547

Genetic and structural analysis of the Rhizobium meliloti fixA, fixB, fixC, and fixX genes.

Earl CD, Ronson CW, Ausubel FM
J Bacteriol. 1987;169(3):1127-36 - PMID: 3029021 - PMCID: PMC211910

Paraquat-mediated selection for mutations in the manganese-superoxide dismutase gene sodA.

Bloch CA, Ausubel FM
J Bacteriol. 1986;168(2):795-8 - PMID: 3023287 - PMCID: PMC213554

The cloning and transposon Tn5 mutagenesis of the glnA region of Klebsiella pneumoniae: identification of glnR, a gene involved in the regulation of the nif and hut operons.

de Bruijn FJ, Ausubel FM
Mol Gen Genet. 1982;183(2):289-97 - PMID: 6120440

Construction of a correlated physical and genetic map of the Klebsiella pneumoniae hisDGO region using transposon Tn5 mutagenesis.

de Bruijn FJ, Stroke IL, Marvel DJ, Ausubel FM
EMBO J. 1984;2(10):1831-8 - PMID: 6315405 - PMCID: PMC555367

Molecular recognition of pathogen attack occurs inside of plant cells in plant disease resistance specified by the Arabidopsis genes RPS2 and RPM1.

Leister RT, Ausubel FM, Katagiri F
Proc Natl Acad Sci U S A. 1996;93(26):15497-502 - PMID: 8986840 - PMCID: PMC26433

Mutations affecting regulation of the Klebsiella pneumoniae nifH (nitrogenase reductase) promotor.

Brown SE, Ausubel FM
J Bacteriol. 1984;157(1):143-7 - PMID: 6360993 - PMCID: PMC215143

Nodules elicited by Rhizobium meliloti heme mutants are arrested at an early stage of development.

Dickstein R, Scheirer DC, Fowle WH, Ausubel FM
Mol Gen Genet. 1991;230(3):423-32 - PMID: 1766439

A dual-labeling method for identifying differentially expressed genes: use in the identification of cDNA clones that hybridize to RNAs whose abundance in tomato flowers is potentially regulated by gibberellins.

Olszewski NE, Gast RT, Ausubel FM
Gene. 1989;77(1):155-62 - PMID: 2663653

The alternative sigma factor RpoN is required for hrp activity in Pseudomonas syringae pv. maculicola and acts at the level of hrpL transcription.

Hendrickson EL, Guevera P, Ausubel FM
J Bacteriol. 2000;182(12):3508-16 - PMID: 10852884 - PMCID: PMC101944

Are innate immune signaling pathways in plants and animals conserved?

Ausubel FM
Nat Immunol. 2005;6(10):973-9 - PMID: 16177805 - DOI: 10.1038/ni1253

Expression of nodule-specific genes in alfalfa root nodules blocked at an early stage of development.

Dickstein R, Bisseling T, Reinhold VN, Ausubel FM
Genes Dev. 1988;2(6):677-87 - PMID: 3417147

Virulence effect of Enterococcus faecalis protease genes and the quorum-sensing locus fsr in Caenorhabditis elegans and mice.

Sifri CD, Mylonakis E, Singh KV, Qin X, Garsin DA, Murray BE, Ausubel FM, Calderwood SB
Infect Immun. 2002;70(10):5647-50 - PMID: 12228293 - PMCID: PMC128331

Deduced products of C4-dicarboxylate transport regulatory genes of Rhizobium leguminosarum are homologous to nitrogen regulatory gene products.

Ronson CW, Astwood PM, Nixon BT, Ausubel FM
Nucleic Acids Res. 1987;15(19):7921-34 - PMID: 3671068 - PMCID: PMC306317

Virulence of the phytopathogen Pseudomonas syringae pv. maculicola is rpoN dependent.

Hendrickson EL, Guevera P, Peñaloza-Vàzquez A, Shao J, Bender C, Ausubel FM
J Bacteriol. 2000;182(12):3498-507 - PMID: 10852883 - PMCID: PMC101941

The central domain of Rhizobium leguminosarum DctD functions independently to activate transcription.

Huala E, Stigter J, Ausubel FM
J Bacteriol. 1992;174(4):1428-31 - PMID: 1735730 - PMCID: PMC206444

Rhizobium meliloti has three functional copies of the nodD symbiotic regulatory gene.

Honma MA, Ausubel FM
Proc Natl Acad Sci U S A. 1987;84(23):8558-62 - PMID: 3479806 - PMCID: PMC299584

Identification of a gene linked to Rhizobium meliloti ntrA whose product is homologous to a family to ATP-binding proteins.

Albright LM, Ronson CW, Nixon BT, Ausubel FM
J Bacteriol. 1989;171(4):1932-41 - PMID: 2703463 - PMCID: PMC209842

Conserved domains in bacterial regulatory proteins that respond to environmental stimuli.

Ronson CW, Nixon BT, Ausubel FM
Cell. 1987;49(5):579-81 - PMID: 3555840

A high-throughput, near-saturating screen for type III effector genes from Pseudomonas syringae.

Chang JH, Urbach JM, Law TF, Arnold LW, Hu A, Gombar S, Grant SR, Ausubel FM, Dangl JL
Proc Natl Acad Sci U S A. 2005;102(7):2549-54 - PMID: 15701698 - PMCID: PMC549004 - DOI: 10.1073/pnas.0409660102

Prokaryotic signal transduction mediated by sensor and regulator protein pairs.

Albright LM, Huala E, Ausubel FM
Annu Rev Genet. 1990;23:311-36 - PMID: 2694934 - DOI: 10.1146/annurev.ge.23.120189.001523

Cloned alpha and beta C-protein antigens of group B streptococci elicit protective immunity.

Michel JL, Madoff LC, Kling DE, Kasper DL, Ausubel FM
Infect Immun. 1991;59(6):2023-8 - PMID: 1674738 - PMCID: PMC257960

Nitrogen fixation by Klebsiella pneumoniae is inhibited by certain multicopy hybrid nif plasmids.

Riedel GE, Brown SE, Ausubel FM
J Bacteriol. 1983;153(1):45-56 - PMID: 6336738 - PMCID: PMC217340

The central domain of Rhizobium meliloti NifA is sufficient to activate transcription from the R. meliloti nifH promoter.

Huala E, Ausubel FM
J Bacteriol. 1989;171(6):3354-65 - PMID: 2722751 - PMCID: PMC210058

The epidemiology of resistance to ofloxacin and oxacillin among clinical coagulase-negative staphylococcal isolates: analysis of risk factors and strain types.

Pegues DA, Colby C, Hibberd PL, Cohen LG, Ausubel FM, Calderwood SB, Hooper DC
Clin Infect Dis. 1998;26(1):72-9 - PMID: 9455512

Killing of Caenorhabditis elegans by Cryptococcus neoformans as a model of yeast pathogenesis.

Mylonakis E, Ausubel FM, Perfect JR, Heitman J, Calderwood SB
Proc Natl Acad Sci U S A. 2002;99(24):15675-80 - PMID: 12438649 - PMCID: PMC137775 - DOI: 10.1073/pnas.232568599

Polymorphic amplified typing sequences provide a novel approach to Escherichia coli O157:H7 strain typing.

Kudva IT, Evans PS, Perna NT, Barrett TJ, DeCastro GJ, Ausubel FM, Blattner FR, Calderwood SB
J Clin Microbiol. 2002;40(4):1152-9 - PMID: 11923324 - PMCID: PMC140341

Rhizobium meliloti nodD genes mediate host-specific activation of nodABC.

Honma MA, Asomaning M, Ausubel FM
J Bacteriol. 1990;172(2):901-11 - PMID: 2298703 - PMCID: PMC208518

The genetic engineering of nitrogen fixation.

Earl CD, Ausubel FM
Nutr Rev. 1983;41(1):1-6 - PMID: 6302610

General method for site-directed mutagenesis in Escherichia coli O18ac:K1:H7: deletion of the inducible superoxide dismutase gene, sodA, does not diminish bacteremia in neonatal rats.

Bloch CA, Thorne GM, Ausubel FM
Infect Immun. 1989;57(7):2141-8 - PMID: 2543632 - PMCID: PMC313853

Staphylococcus aureus virulence factors identified by using a high-throughput Caenorhabditis elegans-killing model.

Begun J, Sifri CD, Goldman S, Calderwood SB, Ausubel FM
Infect Immun. 2005;73(2):872-7 - PMID: 15664928 - PMCID: PMC547013 - DOI: 10.1128/IAI.73.2.872-877.2005

Construction of an Enterococcus faecalis Tn917-mediated-gene-disruption library offers insight into Tn917 insertion patterns.

Garsin DA, Urbach J, Huguet-Tapia JC, Peters JE, Ausubel FM
J Bacteriol. 2004;186(21):7280-9 - PMID: 15489440 - PMCID: PMC523214 - DOI: 10.1128/JB.186.21.7280-7289.2004

Isolation of new Arabidopsis mutants with enhanced disease susceptibility to Pseudomonas syringae by direct screening.

Volko SM, Boller T, Ausubel FM
Genetics. 1998;149(2):537-48 - PMID: 9611172 - PMCID: PMC1460196

Integration of Caenorhabditis elegans MAPK pathways mediating immunity and stress resistance by MEK-1 MAPK kinase and VHP-1 MAPK phosphatase.

Kim DH, Liberati NT, Mizuno T, Inoue H, Hisamoto N, Matsumoto K, Ausubel FM
Proc Natl Acad Sci U S A. 2004;101(30):10990-4 - PMID: 15256594 - PMCID: PMC503731 - DOI: 10.1073/pnas.0403546101

Mutational analysis of the Arabidopsis nucleotide binding site-leucine-rich repeat resistance gene RPS2.

Tao Y, Yuan F, Leister RT, Ausubel FM, Katagiri F
Plant Cell. 2000;12(12):2541-2554 - PMID: 11148296 - PMCID: PMC102236

Transcriptional regulation of the Arabidopsis thaliana chalcone synthase gene.

Feinbaum RL, Ausubel FM
Mol Cell Biol. 1988;8(5):1985-92 - PMID: 3386631 - PMCID: PMC363377

Rhizobium meliloti 1021 has three differentially regulated loci involved in glutamine biosynthesis, none of which is essential for symbiotic nitrogen fixation.

de Bruijn FJ, Rossbach S, Schneider M, Ratet P, Messmer S, Szeto WW, Ausubel FM, Schell J
J Bacteriol. 1989;171(3):1673-82 - PMID: 2563998 - PMCID: PMC209797

Contribution of gelatinase, serine protease, and fsr to the pathogenesis of Enterococcus faecalis endophthalmitis.

Engelbert M, Mylonakis E, Ausubel FM, Calderwood SB, Gilmore MS
Infect Immun. 2004;72(6):3628-33 - PMID: 15155673 - PMCID: PMC415677 - DOI: 10.1128/IAI.72.6.3628-3633.2004

Challenge of Drosophila melanogaster with Cryptococcus neoformans and role of the innate immune response.

Apidianakis Y, Rahme LG, Heitman J, Ausubel FM, Calderwood SB, Mylonakis E
Eukaryot Cell. 2004;3(2):413-9 - PMID: 15075271 - PMCID: PMC387633

Inactivation of the alpha C protein antigen gene, bca, by a novel shuttle/suicide vector results in attenuation of virulence and immunity in group B Streptococcus.

Li J, Kasper DL, Ausubel FM, Rosner B, Michel JL
Proc Natl Acad Sci U S A. 1997;94(24):13251-6 - PMID: 9371832 - PMCID: PMC24295

Plants and animals share functionally common bacterial virulence factors.

Rahme LG, Ausubel FM, Cao H, Drenkard E, Goumnerov BC, Lau GW, Mahajan-Miklos S, Plotnikova J, Tan MW, Tsongalis J, Walendziewicz CL, Tompkins RG
Proc Natl Acad Sci U S A. 2000;97(16):8815-21 - PMID: 10922040 - PMCID: PMC34017

Use of cleaved amplified polymorphic sequences to distinguish strains of Staphylococcus epidermidis.

Calderwood SB, Baker MA, Carroll PA, Michel JL, Arbeit RD, Ausubel FM
J Clin Microbiol. 1996;34(11):2860-5 - PMID: 8897202 - PMCID: PMC229423

An Arabidopsis thaliana lipoxygenase gene can be induced by pathogens, abscisic acid, and methyl jasmonate.

Melan MA, Dong X, Endara ME, Davis KR, Ausubel FM, Peterman TK
Plant Physiol. 1993;101(2):441-50 - PMID: 7506426 - PMCID: PMC160590

The TASTY locus on chromosome 1 of Arabidopsis affects feeding of the insect herbivore Trichoplusia ni.

Jander G, Cui J, Nhan B, Pierce NE, Ausubel FM
Plant Physiol. 2001;126(2):890-8 - PMID: 11402216 - PMCID: PMC111178

Signals involved in Arabidopsis resistance to Trichoplusia ni caterpillars induced by virulent and avirulent strains of the phytopathogen Pseudomonas syringae.

Cui J, Jander G, Racki LR, Kim PD, Pierce NE, Ausubel FM
Plant Physiol. 2002;129(2):551-64 - PMID: 12068100 - PMCID: PMC161673 - DOI: 10.1104/pp.010815

Haplotypic divergence coupled with lack of diversity at the Arabidopsis thaliana alcohol dehydrogenase locus: roles for both balancing and directional selection?

Hanfstingl U, Berry A, Kellogg EA, Costa JT, Rüdiger W, Ausubel FM
Genetics. 1994;138(3):811-28 - PMID: 7851777 - PMCID: PMC1206230

Construction of a broad host range cosmid cloning vector and its use in the genetic analysis of Rhizobium mutants.

Friedman AM, Long SR, Brown SE, Buikema WJ, Ausubel FM
Gene. 1982;18(3):289-96 - PMID: 6290332

Structural studies of alfalfa roots infected with nodulation mutants of Rhizobium meliloti.

Hirsch AM, Long SR, Bang M, Haskins N, Ausubel FM
J Bacteriol. 1982;151(1):411-9 - PMID: 7085566 - PMCID: PMC220253

Salmonella typhimurium proliferates and establishes a persistent infection in the intestine of Caenorhabditis elegans.

Aballay A, Yorgey P, Ausubel FM
Curr Biol. 2000;10(23):1539-42 - PMID: 11114525

Caenorhabditis elegans-based screen identifies Salmonella virulence factors required for conserved host-pathogen interactions.

Tenor JL, McCormick BA, Ausubel FM, Aballay A
Curr Biol. 2004;14(11):1018-24 - PMID: 15182677 - DOI: 10.1016/j.cub.2004.05.050

Differential mRNA display.

Reuber TL, Ausubel FM
Methods Cell Biol. 1996;49:431-40 - PMID: 8531774

Arabidopsis thaliana PAD4 encodes a lipase-like gene that is important for salicylic acid signaling.

Jirage D, Tootle TL, Reuber TL, Frost LN, Feys BJ, Parker JE, Ausubel FM, Glazebrook J
Proc Natl Acad Sci U S A. 1999;96(23):13583-8 - PMID: 10557364 - PMCID: PMC23991

Cryptococcus neoformans Kin1 protein kinase homologue, identified through a Caenorhabditis elegans screen, promotes virulence in mammals.

Mylonakis E, Idnurm A, Moreno R, El Khoury J, Rottman JB, Ausubel FM, Heitman J, Calderwood SB
Mol Microbiol. 2004;54(2):407-19 - PMID: 15469513 - DOI: 10.1111/j.1365-2958.2004.04310.x

Use of Arabidopsis thaliana defense-related mutants to dissect the plant response to pathogens.

Ausubel FM, Katagiri F, Mindrinos M, Glazebrook J
Proc Natl Acad Sci U S A. 1995;92(10):4189-96 - PMID: 7753782 - PMCID: PMC41909

The Enterococcus faecalis fsrB gene, a key component of the fsr quorum-sensing system, is associated with virulence in the rabbit endophthalmitis model.

Mylonakis E, Engelbert M, Qin X, Sifri CD, Murray BE, Ausubel FM, Gilmore MS, Calderwood SB
Infect Immun. 2002;70(8):4678-81 - PMID: 12117982 - PMCID: PMC128160

Use of cleaved amplified polymorphic sequences (CAPS) as genetic markers in Arabidopsis thaliana.

Glazebrook J, Drenkard E, Preuss D, Ausubel FM
Methods Mol Biol. 1998;82:173-82 - PMID: 9664424

A simple procedure for the analysis of single nucleotide polymorphisms facilitates map-based cloning in Arabidopsis.

Drenkard E, Richter BG, Rozen S, Stutius LM, Angell NA, Mindrinos M, Cho RJ, Oefner PJ, Davis RW, Ausubel FM
Plant Physiol. 2000;124(4):1483-92 - PMID: 11115864 - PMCID: PMC1539302

Pathogenesis of the human opportunistic pathogen Pseudomonas aeruginosa PA14 in Arabidopsis.

Plotnikova JM, Rahme LG, Ausubel FM
Plant Physiol. 2000;124(4):1766-74 - PMID: 11115892 - PMCID: PMC59873

Arabidopsis genome. A milestone in plant biology.

Ausubel FM
Plant Physiol. 2000;124(4):1451-4 - PMID: 11115856 - PMCID: PMC1539293

Is there left-handed DNA at the ends of yeast chromosomes?

Walmsley RM, Szostak JW, Petes TD
Nature. 1983;302(5903):84-6 - PMID: 6338397

Functional information: Molecular messages.

Szostak JW
Nature. 2003;423(6941):689 - PMID: 12802312 - DOI: 10.1038/423689a

One-step purification of recombinant proteins using a nanomolar-affinity streptavidin-binding peptide, the SBP-Tag.

Keefe AD, Wilson DS, Seelig B, Szostak JW
Protein Expr Purif. 2001;23(3):440-6 - PMID: 11722181 - DOI: 10.1006/prep.2001.1515

Unequal crossing over in the ribosomal DNA of Saccharomyces cerevisiae.

Szostak JW, Wu R
Nature. 1980;284(5755):426-30 - PMID: 6987539

Molecular biology: RNA gets a grip on translation.

Szostak JW
Nature. 2002;419(6910):890-1 - PMID: 12410294 - DOI: 10.1038/419890a

Ribozymes: aiming at RNA replication and protein synthesis.

Hager AJ, Pollard JD, Szostak JW
Chem Biol. 1996;3(9):717-25 - PMID: 8939686

Scanning the human proteome for calmodulin-binding proteins.

Shen X, Valencia CA, Szostak JW, Szostak J, Dong B, Liu R
Proc Natl Acad Sci U S A. 2005;102(17):5969-74 - PMID: 15840729 - PMCID: PMC1087907 - DOI: 10.1073/pnas.0407928102

A DNA metalloenzyme with DNA ligase activity.

Cuenoud B, Szostak JW
Nature. 1995;375(6532):611-4 - PMID: 7791880 - DOI: 10.1038/375611a0

Meiotic recombination on artificial chromosomes in yeast.

Ross LO, Treco D, Nicolas A, Szostak JW, Dawson D
Genetics. 1992;131(3):541-50 - PMID: 1385793 - PMCID: PMC1205028

Evolution of aptamers with a new specificity and new secondary structures from an ATP aptamer.

Huang Z, Szostak JW
RNA. 2003;9(12):1456-63 - PMID: 14624002 - PMCID: PMC1370500

Construction and behavior of circularly permuted and telocentric chromosomes in Saccharomyces cerevisiae.

Murray AW, Szostak JW
Mol Cell Biol. 1986;6(9):3166-72 - PMID: 3537731 - PMCID: PMC367052

Identification of epitope-like consensus motifs using mRNA display.

Baggio R, Burgstaller P, Hale SP, Putney AR, Lane M, Lipovsek D, Wright MC, Roberts RW, Liu R, Szostak JW, Wagner RW
J Mol Recognit. 2002;15(3):126-34 - PMID: 12203838 - DOI: 10.1002/jmr.567

Specific Saccharomyces cerevisiae genes are expressed in response to DNA-damaging agents.

Ruby SW, Szostak JW
Mol Cell Biol. 1985;5(1):75-84 - PMID: 3920512 - PMCID: PMC366680

Isolation of a ribozyme with 5'-5' ligase activity.

Chapman KB, Szostak JW
Chem Biol. 1995;2(5):325-33 - PMID: 9383434

Template-directed primer extension catalyzed by the Tetrahymena ribozyme.

Bartel DP, Doudna JA, Usman N, Szostak JW
Mol Cell Biol. 1991;11(6):3390-4 - PMID: 2038341 - PMCID: PMC360195

The guanosine binding site of the Tetrahymena ribozyme.

Michel F, Hanna M, Green R, Bartel DP, Szostak JW
Nature. 1989;342(6248):391-5 - PMID: 2685606 - DOI: 10.1038/342391a0

Multiple, tandem plasmid integration in Saccharomyces cerevisiae.

Orr-Weaver TL, Szostak JW
Mol Cell Biol. 1983;3(4):747-9 - PMID: 6343844 - PMCID: PMC368590

RNA catalysis in model protocell vesicles.

Chen IA, Salehi-Ashtiani K, Szostak JW
J Am Chem Soc. 2005;127(38):13213-9 - PMID: 16173749 - PMCID: PMC5072289 - DOI: 10.1021/ja051784p

Kinetic and mechanistic analysis of nonenzymatic, template-directed oligoribonucleotide ligation.

Rohatgi R, Bartel DP, Szostak JW
J Am Chem Soc. 1996;118(14):3332-9 - PMID: 11539267

An RNA motif that binds ATP.

Sassanfar M, Szostak JW
Nature. 1993;364(6437):550-3 - PMID: 7687750 - DOI: 10.1038/364550a0

Ribozyme-catalysed amino-acid transfer reactions.

Lohse PA, Szostak JW
Nature. 1996;381(6581):442-4 - PMID: 8632803 - DOI: 10.1038/381442a0

DNA polymerase-mediated DNA synthesis on a TNA template.

Chaput JC, Ichida JK, Szostak JW
J Am Chem Soc. 2003;125(4):856-7 - PMID: 12537469 - DOI: 10.1021/ja028589k

Evolutionary optimization of a nonbiological ATP binding protein for improved folding stability.

Chaput JC, Szostak JW
Chem Biol. 2004;11(6):865-74 - PMID: 15217619 - DOI: 10.1016/j.chembiol.2004.04.006

A novel, modification-dependent ATP-binding aptamer selected from an RNA library incorporating a cationic functionality.

Vaish NK, Larralde R, Fraley AW, Szostak JW, McLaughlin LW
Biochemistry. 2003;42(29):8842-51 - PMID: 12873145 - DOI: 10.1021/bi027354i

An in vitro selection system for TNA.

Ichida JK, Zou K, Horhota A, Yu B, McLaughlin LW, Szostak JW
J Am Chem Soc. 2005;127(9):2802-3 - PMID: 15740086 - PMCID: PMC5072288 - DOI: 10.1021/ja045364w

Kinetic analysis of an efficient DNA-dependent TNA polymerase.

Horhota A, Zou K, Ichida JK, Yu B, McLaughlin LW, Szostak JW, Chaput JC
J Am Chem Soc. 2005;127(20):7427-34 - PMID: 15898792 - PMCID: PMC5042361 - DOI: 10.1021/ja0428255

A strategy for the generation of conditional mutations by protein destabilization.

Park EC, Finley D, Szostak JW
Proc Natl Acad Sci U S A. 1992;89(4):1249-52 - PMID: 1311090 - PMCID: PMC48426

In vitro selection of RNA aptamers against a composite small molecule-protein surface.

Plummer KA, Carothers JM, Yoshimura M, Szostak JW, Verdine GL
Nucleic Acids Res. 2005;33(17):5602-10 - PMID: 16199752 - PMCID: PMC1240114 - DOI: 10.1093/nar/gki867

Structural and kinetic characterization of an acyl transferase ribozyme.

Suga H, Lohse PA, Szostak JW
J Am Chem Soc. 1998;120(6):1151-6 - PMID: 11541113

A multisubunit ribozyme that is a catalyst of and template for complementary strand RNA synthesis.

Doudna JA, Couture S, Szostak JW
Science. 1991;251(5001):1605-8 - PMID: 1707185

The yeast ARD1 gene product is required for repression of cryptic mating-type information at the HML locus.

Whiteway M, Freedman R, Van Arsdell S, Szostak JW, Thorner J
Mol Cell Biol. 1987;7(10):3713-22 - PMID: 3316986 - PMCID: PMC368027

Recombination between sequences in nonhomologous positions.

Sugawara N, Szostak JW
Proc Natl Acad Sci U S A. 1983;80(18):5675-9 - PMID: 6351064 - PMCID: PMC384321

Functional proteins from a random-sequence library.

Keefe AD, Szostak JW
Nature. 2001;410(6829):715-8 - PMID: 11287961 - PMCID: PMC4476321 - DOI: 10.1038/35070613

Unusual metal ion catalysis in an acyl-transferase ribozyme.

Suga H, Cowan JA, Szostak JW
Biochemistry. 1998;37(28):10118-25 - PMID: 9665717 - DOI: 10.1021/bi980432a

In vitro evolution of new ribozymes with polynucleotide kinase activity.

Lorsch JR, Szostak JW
Nature. 1994;371(6492):31-6 - PMID: 7521014 - DOI: 10.1038/371031a0

Chance and necessity in the selection of nucleic acid catalysts.

Lorsch JR, Szostak JW
Acc Chem Res. 1996;29(2):103-10 - PMID: 11539421

Semipermeable lipid bilayers exhibit diastereoselectivity favoring ribose.

Sacerdote MG, Szostak JW
Proc Natl Acad Sci U S A. 2005;102(17):6004-8 - PMID: 15831588 - PMCID: PMC556129 - DOI: 10.1073/pnas.0408440102

Detection of heteroduplex DNA molecules among the products of Saccharomyces cerevisiae meiosis.

Lichten M, Goyon C, Schultes NP, Treco D, Szostak JW, Haber JE, Nicolas A
Proc Natl Acad Sci U S A. 1990;87(19):7653-7 - PMID: 2217196 - PMCID: PMC54806

In vitro evolution suggests multiple origins for the hammerhead ribozyme.

Salehi-Ashtiani K, Szostak JW
Nature. 2001;414(6859):82-4 - PMID: 11689947 - DOI: 10.1038/35102081

Structurally complex and highly active RNA ligases derived from random RNA sequences.

Ekland EH, Szostak JW, Bartel DP
Science. 1995;269(5222):364-70 - PMID: 7618102

Synthesizing life.

Szostak JW, Bartel DP, Luisi PL
Nature. 2001;409(6818):387-90 - PMID: 11201752 - DOI: 10.1038/35053176

In vitro genetics.

Szostak JW
Trends Biochem Sci. 1992;17(3):89-93 - PMID: 1384177

In vitro selection and directed evolution.

Szostak JW
Harvey Lect. 2000;93:95-118 - PMID: 10941421

In vitro selection of functional nucleic acids.

Wilson DS, Szostak JW
Annu Rev Biochem. 2000;68:611-47 - PMID: 10872462 - DOI: 10.1146/annurev.biochem.68.1.611

Isolation of high-affinity GTP aptamers from partially structured RNA libraries.

Davis JH, Szostak JW
Proc Natl Acad Sci U S A. 2002;99(18):11616-21 - PMID: 12185247 - PMCID: PMC129318 - DOI: 10.1073/pnas.182095699

Double-strand breaks at an initiation site for meiotic gene conversion.

Sun H, Treco D, Schultes NP, Szostak JW
Nature. 1989;338(6210):87-90 - PMID: 2645528 - DOI: 10.1038/338087a0

An initiation site for meiotic gene conversion in the yeast Saccharomyces cerevisiae.

Nicolas A, Treco D, Schultes NP, Szostak JW
Nature. 1989;338(6210):35-9 - PMID: 2537472 - DOI: 10.1038/338035a0

Telomerase: the beginning of the ends.

Szostak JW
Nature. 1989;337(6205):303-4 - PMID: 2765013 - DOI: 10.1038/337303a0

Selection of a ribozyme that functions as a superior template in a self-copying reaction.

Green R, Szostak JW
Science. 1992;258(5090):1910-5 - PMID: 1470913

Miniribozymes, small derivatives of the sunY intron, are catalytically active.

Doudna JA, Szostak JW
Mol Cell Biol. 1989;9(12):5480-3 - PMID: 2685567 - PMCID: PMC363717

Suppression of mutations in the core of the Tetrahymena ribozyme by spermidine, ethanol and by substrate stabilization.

Hanna M, Szostak JW
Nucleic Acids Res. 1994;22(24):5326-31 - PMID: 7816622 - PMCID: PMC332078

Mutations in a semiconserved region of the Tetrahymena intron.

Pace U, Szostak JW
FEBS Lett. 1991;280(1):171-4 - PMID: 2009960

Genetic dissection of an RNA enzyme.

Doudna JA, Gerber AS, Cherry JM, Szostak JW
Cold Spring Harb Symp Quant Biol. 1988;52:173-80 - PMID: 2456876

Replicating vesicles as models of primitive cell growth and division.

Hanczyc MM, Szostak JW
Curr Opin Chem Biol. 2004;8(6):660-4 - PMID: 15556412 - DOI: 10.1016/j.cbpa.2004.10.002

A rapid procedure for the construction of linear yeast plasmids.

Szostak JW
Methods Enzymol. 1983;101:245-52 - PMID: 6310327

Identification of healed terminal DNA fragments in linear minichromosomes of Schizosaccharomyces pombe.

Matsumoto T, Fukui K, Niwa O, Sugawara N, Szostak JW, Yanagida M
Mol Cell Biol. 1987;7(12):4424-30 - PMID: 2830493 - PMCID: PMC368126

RNA structure, not sequence, determines the 5' splice-site specificity of a group I intron.

Doudna JA, Cormack BP, Szostak JW
Proc Natl Acad Sci U S A. 1989;86(19):7402-6 - PMID: 2678103 - PMCID: PMC298070

Total chemical synthesis of a ribozyme derived from a group I intron.

Whoriskey SK, Usman N, Szostak JW
Proc Natl Acad Sci U S A. 1995;92(7):2465-9 - PMID: 7708666 - PMCID: PMC42238

Phylogenetic and genetic evidence for base-triples in the catalytic domain of group I introns.

Michel F, Ellington AD, Couture S, Szostak JW
Nature. 1990;347(6293):578-80 - PMID: 2215683 - DOI: 10.1038/347578a0

Reverse transcriptase reads through a 2'-5'linkage and a 2'-thiophosphate in a template.

Lorsch JR, Bartel DP, Szostak JW
Nucleic Acids Res. 1995;23(15):2811-4 - PMID: 7544885 - PMCID: PMC307115

Hybridization with synthetic oligonucleotides.

Szostak JW, Stiles JI, Tye BK, Chiu P, Sherman F, Wu R
Methods Enzymol. 1980;68:419-28 - PMID: 161605

Constructing high complexity synthetic libraries of long ORFs using in vitro selection.

Cho G, Keefe AD, Liu R, Wilson DS, Szostak JW
J Mol Biol. 2000;297(2):309-19 - PMID: 10715203 - DOI: 10.1006/jmbi.2000.3571

Decreasing gradients of gene conversion on both sides of the initiation site for meiotic recombination at the ARG4 locus in yeast.

Schultes NP, Szostak JW
Genetics. 1990;126(4):813-22 - PMID: 1981763 - PMCID: PMC1204280

Structural conventions for group I introns.

Burke JM, Belfort M, Cech TR, Davies RW, Schweyen RJ, Shub DA, Szostak JW, Tabak HF
Nucleic Acids Res. 1987;15(18):7217-21 - PMID: 3658691 - PMCID: PMC306243

Selection in vitro of single-stranded DNA molecules that fold into specific ligand-binding structures.

Ellington AD, Szostak JW
Nature. 1992;355(6363):850-2 - PMID: 1538766 - DOI: 10.1038/355850a0

Mutational analysis of conserved nucleotides in a self-splicing group I intron.

Couture S, Ellington AD, Gerber AS, Cherry JM, Doudna JA, Green R, Hanna M, Pace U, Rajagopal J, Szostak JW
J Mol Biol. 1990;215(3):345-58 - PMID: 1700131

Synthesis of RNA containing inosine: analysis of the sequence requirements for the 5' splice site of the Tetrahymena group I intron.

Green R, Szostak JW, Benner SA, Rich A, Usman N
Nucleic Acids Res. 1991;19(15):4161-6 - PMID: 1714564 - PMCID: PMC328556

Expanding the structural and functional diversity of RNA: analog uridine triphosphates as candidates for in vitro selection of nucleic acids.

Vaish NK, Fraley AW, Szostak JW, McLaughlin LW
Nucleic Acids Res. 2000;28(17):3316-22 - PMID: 10954600 - PMCID: PMC110695

Evidence that the guanosine substrate of the Tetrahymena ribozyme is bound in the anti conformation and that N7 contributes to binding.

Lin CW, Hanna M, Szostak JW
Biochemistry. 1994;33(9):2703-7 - PMID: 8117735

Isolation of novel ribozymes that ligate AMP-activated RNA substrates.

Hager AJ, Szostak JW
Chem Biol. 1997;4(8):607-17 - PMID: 9281527

DNA sequence of a mutation in the leader region of the yeast iso-1-cytochrome c mRNA.

Stiles JI, Szostak JW, Young AT, Wu R, Consaul S, Sherman F
Cell. 1981;25(1):277-84 - PMID: 6268305

Ribozyme-catalyzed primer extension by trinucleotides: a model for the RNA-catalyzed replication of RNA.

Doudna JA, Usman N, Szostak JW
Biochemistry. 1993;32(8):2111-5 - PMID: 7680575

In vitro selection of RNA molecules that bind specific ligands.

Ellington AD, Szostak JW
Nature. 1990;346(6287):818-22 - PMID: 1697402 - DOI: 10.1038/346818a0

Introduction: Combinatorial Chemistry.

Szostak JW
Chem Rev. 1997;97(2):347-348 - PMID: 11848873

In vitro genetic analysis of the Tetrahymena self-splicing intron.

Green R, Ellington AD, Szostak JW
Nature. 1990;347(6291):406-8 - PMID: 2215650 - DOI: 10.1038/347406a0

Replication and resolution of telomeres in yeast.

Szostak JW
Cold Spring Harb Symp Quant Biol. 1983;47 Pt 2:1187-94 - PMID: 6305577

The use of mRNA display to select high-affinity protein-binding peptides.

Wilson DS, Keefe AD, Szostak JW
Proc Natl Acad Sci U S A. 2001;98(7):3750-5 - PMID: 11274392 - PMCID: PMC31124 - DOI: 10.1073/pnas.061028198

Kinetic and thermodynamic characterization of the reaction catalyzed by a polynucleotide kinase ribozyme.

Lorsch JR, Szostak JW
Biochemistry. 1995;34(46):15315-27 - PMID: 7578148

A DNA aptamer that binds adenosine and ATP.

Huizenga DE, Szostak JW
Biochemistry. 1995;34(2):656-65 - PMID: 7819261

1H NMR studies of the high-affinity Rev binding site of the Rev responsive element of HIV-1 mRNA: base pairing in the core binding element.

Peterson RD, Bartel DP, Szostak JW, Horvath SJ, Feigon J
Biochemistry. 1994;33(18):5357-66 - PMID: 8180157

In vitro evolution of a self-alkylating ribozyme.

Wilson C, Szostak JW
Nature. 1995;374(6525):777-82 - PMID: 7723823 - DOI: 10.1038/374777a0

Isolation of a fluorophore-specific DNA aptamer with weak redox activity.

Wilson C, Szostak JW
Chem Biol. 1998;5(11):609-17 - PMID: 9831529

Isolation and characterization of fluorophore-binding RNA aptamers.

Holeman LA, Robinson SL, Szostak JW, Wilson C
Fold Des. 1999;3(6):423-31 - PMID: 9889155 - DOI: 10.1016/S1359-0278(98)00059-5

Roles of the 2 microns gene products in stable maintenance of the 2 microns plasmid of Saccharomyces cerevisiae.

Reynolds AE, Murray AW, Szostak JW
Mol Cell Biol. 1987;7(10):3566-73 - PMID: 3316982 - PMCID: PMC368010

The ARD1 gene of yeast functions in the switch between the mitotic cell cycle and alternative developmental pathways.

Whiteway M, Szostak JW
Cell. 1985;43(2 Pt 1):483-92 - PMID: 3907857

RNA-peptide fusions for the in vitro selection of peptides and proteins.

Roberts RW, Szostak JW
Proc Natl Acad Sci U S A. 1997;94(23):12297-302 - PMID: 9356443 - PMCID: PMC24913

Genetic applications of yeast transformation with linear and gapped plasmids.

Orr-Weaver TL, Szostak JW, Rothstein RJ
Methods Enzymol. 1983;101:228-45 - PMID: 6310326

Fungal recombination.

Orr-Weaver TL, Szostak JW
Microbiol Rev. 1985;49(1):33-58 - PMID: 3884994 - PMCID: PMC373016

The double-strand-break repair model for recombination.

Szostak JW, Orr-Weaver TL, Rothstein RJ, Stahl FW
Cell. 1983;33(1):25-35 - PMID: 6380756

DNA sequences of telomeres maintained in yeast.

Shampay J, Szostak JW, Blackburn EH
Nature. 1984;310(5973):154-7 - PMID: 6330571

Artificial chromosomes.

Murray AW, Szostak JW
Sci Am. 1987;257(5):62-8 - PMID: 3317814

Chromosome segregation in mitosis and meiosis.

Murray AW, Szostak JW
Annu Rev Cell Biol. 1987;1:289-315 - PMID: 3916318 - DOI: 10.1146/annurev.cb.01.110185.001445

Cloning regulated yeast genes from a pool of lacZ fusions.

Ruby SW, Szostak JW, Murray AW
Methods Enzymol. 1983;101:253-69 - PMID: 6310328

An alternative pathway for meiotic chromosome segregation in yeast.

Dawson DS, Murray AW, Szostak JW
Science. 1986;234(4777):713-7 - PMID: 3535068

Pedigree analysis of plasmid segregation in yeast.

Murray AW, Szostak JW
Cell. 1983;34(3):961-70 - PMID: 6354471

Enzymatic activity of the conserved core of a group I self-splicing intron.

Szostak JW
Nature. 1986;322(6074):83-6 - PMID: 3014350 - DOI: 10.1038/322083a0

Chromosome length controls mitotic chromosome segregation in yeast.

Murray AW, Schultes NP, Szostak JW
Cell. 1986;45(4):529-36 - PMID: 3518944

In vitro genetic analysis of the hinge region between helical elements P5-P4-P6 and P7-P3-P8 in the sunY group I self-splicing intron.

Green R, Szostak JW
J Mol Biol. 1994;235(1):140-55 - PMID: 7507168

Specific binding of a synthetic oligodeoxyribonucleotide to yeast cytochrome c mRNA.

Szostak JW, Stiles JI, Bahl CP, Wu R
Nature. 1977;265(5589):61-3 - PMID: 189200

Chemical synthesis of oligoribonucleotides containing 2-aminopurine: substrates for the investigation of ribozyme function.

Doudna JA, Szostak JW, Rich A, Usman N
J Org Chem. 1990;55(21):5547-9 - PMID: 11540922

Selective labeling and detection of specific RNAs in an RNA mixture.

Huang Z, Szostak JW
Anal Biochem. 2003;315(1):129-33 - PMID: 12672421

Cloning yeast telomeres on linear plasmid vectors.

Szostak JW, Blackburn EH
Cell. 1982;29(1):245-55 - PMID: 6286143

Stereochemical course of catalysis by the Tetrahymena ribozyme.

Rajagopal J, Doudna JA, Szostak JW
Science. 1989;244(4905):692-4 - PMID: 2470151

Transfer of yeast telomeres to linear plasmids by recombination.

Dunn B, Szauter P, Pardue ML, Szostak JW
Cell. 1984;39(1):191-201 - PMID: 6091911

Genetic and physical analyses of sister chromatid exchange in yeast meiosis.

Sun H, Dawson D, Szostak JW
Mol Cell Biol. 1991;11(12):6328-36 - PMID: 1944292 - PMCID: PMC361828

Gene conversion adjacent to regions of double-strand break repair.

Orr-Weaver TL, Nicolas A, Szostak JW
Mol Cell Biol. 1988;8(12):5292-8 - PMID: 3072478 - PMCID: PMC365631

Saccharomyces cerevisiae homoserine kinase is homologous to prokaryotic homoserine kinases.

Schultes NP, Ellington AD, Cherry JM, Szostak JW
Gene. 1990;96(2):177-80 - PMID: 2176637

A mutant with a defect in telomere elongation leads to senescence in yeast.

Lundblad V, Szostak JW
Cell. 1989;57(4):633-43 - PMID: 2655926

High fidelity TNA synthesis by Therminator polymerase.

Ichida JK, Horhota A, Zou K, McLaughlin LW, Szostak JW
Nucleic Acids Res. 2005;33(16):5219-25 - PMID: 16157867 - PMCID: PMC1214552 - DOI: 10.1093/nar/gki840

RNA aptamers that bind flavin and nicotinamide redox cofactors.

Lauhon CT, Szostak JW
J Am Chem Soc. 1995;117(4):1246-57 - PMID: 11539282

In vitro selection of RNA aptamers specific for cyanocobalamin.

Lorsch JR, Szostak JW
Biochemistry. 1994;33(4):973-82 - PMID: 7508262

HIV-1 Rev regulation involves recognition of non-Watson-Crick base pairs in viral RNA.

Bartel DP, Zapp ML, Green MR, Szostak JW
Cell. 1991;67(3):529-36 - PMID: 1934059

Experimental models of primitive cellular compartments: encapsulation, growth, and division.

Hanczyc MM, Fujikawa SM, Szostak JW
Science. 2003;302(5645):618-22 - PMID: 14576428 - PMCID: PMC4484575 - DOI: 10.1126/science.1089904

Membrane growth can generate a transmembrane pH gradient in fatty acid vesicles.

Chen IA, Szostak JW
Proc Natl Acad Sci U S A. 2004;101(21):7965-70 - PMID: 15148394 - PMCID: PMC419540 - DOI: 10.1073/pnas.0308045101

Isolation of new ribozymes from a large pool of random sequences [see comment].

Bartel DP, Szostak JW
Science. 1993;261(5127):1411-8 - PMID: 7690155

RNA-catalysed synthesis of complementary-strand RNA.

Doudna JA, Szostak JW
Nature. 1989;339(6225):519-22 - PMID: 2660003 - DOI: 10.1038/339519a0

Mutant ATP-binding RNA aptamers reveal the structural basis for ligand binding.

Dieckmann T, Butcher SE, Sassanfar M, Szostak JW, Feigon J
J Mol Biol. 1997;273(2):467-78 - PMID: 9344753 - DOI: 10.1006/jmbi.1997.1329

Yeast vectors with negative selection.

Brown PA, Szostak JW
Methods Enzymol. 1983;101:278-90 - PMID: 6310330

Telomeric repeat from T. thermophila cross hybridizes with human telomeres.

Allshire RC, Gosden JR, Cross SH, Cranston G, Rout D, Sugawara N, Szostak JW, Fantes PA, Hastie ND
Nature. 1988;332(6165):656-9 - PMID: 2833706 - DOI: 10.1038/332656a0

The emergence of competition between model protocells.

Chen IA, Roberts RW, Szostak JW
Science. 2004;305(5689):1474-6 - PMID: 15353806 - PMCID: PMC4484590 - DOI: 10.1126/science.1100757

Ribozymes. Evolution ex vivo.

Szostak JW
Nature. 1993;361(6408):119-20 - PMID: 7678448 - DOI: 10.1038/361119a0

A poly(dA.dT) tract is a component of the recombination initiation site at the ARG4 locus in Saccharomyces cerevisiae.

Schultes NP, Szostak JW
Mol Cell Biol. 1991;11(1):322-8 - PMID: 1986228 - PMCID: PMC359622

Shrink-wrap vesicles.

Fujikawa SM, Chen IA, Szostak JW
Langmuir. 2005;21(26):12124-9 - PMID: 16342983 - PMCID: PMC2548281 - DOI: 10.1021/la052590q

Ribozyme-catalyzed tRNA aminoacylation.

Lee N, Bessho Y, Wei K, Szostak JW, Suga H
Nat Struct Biol. 2000;7(1):28-33 - PMID: 10625423 - DOI: 10.1038/71225

Extensive 3'-overhanging, single-stranded DNA associated with the meiosis-specific double-strand breaks at the ARG4 recombination initiation site.

Sun H, Treco D, Szostak JW
Cell. 1991;64(6):1155-61 - PMID: 2004421

Insertion of a genetic marker into the ribosomal DNA of yeast.

Szostak JW, Wu R
Plasmid. 1979;2(4):536-54 - PMID: 394173

A kinetic study of the growth of fatty acid vesicles.

Chen IA, Szostak JW
Biophys J. 2004;87(2):988-98 - PMID: 15298905 - PMCID: PMC1304506 - DOI: 10.1529/biophysj.104.039875

Characterization of two telomeric DNA processing reactions in Saccharomyces cerevisiae.

Murray AW, Claus TE, Szostak JW
Mol Cell Biol. 1988;8(11):4642-50 - PMID: 3062364 - PMCID: PMC365553

Yeast recombination: the association between double-strand gap repair and crossing-over.

Orr-Weaver TL, Szostak JW
Proc Natl Acad Sci U S A. 1983;80(14):4417-21 - PMID: 6308623 - PMCID: PMC384049

Optimized synthesis of RNA-protein fusions for in vitro protein selection.

Liu R, Barrick JE, Szostak JW, Roberts RW
Methods Enzymol. 2000;318:268-93 - PMID: 10889994

Construction of artificial chromosomes in yeast.

Murray AW, Szostak JW
Nature. 1983;305(5931):189-93 - PMID: 6350893

Synthesis of alpha-L-threofuranosyl nucleoside triphosphates (tNTPs).

Zou K, Horhota A, Yu B, Szostak JW, McLaughlin LW
Org Lett. 2005;7(8):1485-7 - PMID: 15816733 - PMCID: PMC5022784 - DOI: 10.1021/ol050081+

In vitro selection of catalytic RNAs.

Chapman KB, Szostak JW
Curr Opin Struct Biol. 1997;4:618-22 - PMID: 11539575

A simple method for 3'-labeling of RNA.

Huang Z, Szostak JW
Nucleic Acids Res. 1996;24(21):4360-1 - PMID: 8932396 - PMCID: PMC146232

Informational complexity and functional activity of RNA structures.

Carothers JM, Oestreich SC, Davis JH, Szostak JW
J Am Chem Soc. 2004;126(16):5130-7 - PMID: 15099096 - PMCID: PMC5042360 - DOI: 10.1021/ja031504a

Yeast transformation: a model system for the study of recombination.

Orr-Weaver TL, Szostak JW, Rothstein RJ
Proc Natl Acad Sci U S A. 1981;78(10):6354-8 - PMID: 6273866 - PMCID: PMC349037

A small aptamer with strong and specific recognition of the triphosphate of ATP.

Sazani PL, Larralde R, Szostak JW
J Am Chem Soc. 2004;126(27):8370-1 - PMID: 15237981 - PMCID: PMC4983724 - DOI: 10.1021/ja049171k

Nonenzymatic, template-directed ligation of oligoribonucleotides is highly regioselective for the formation of 3'-5' phosphodiester bonds.

Rohatgi R, Bartel DP, Szostak JW
J Am Chem Soc. 1996;118(14):3340-4 - PMID: 11539268

ARD1 and NAT1 proteins form a complex that has N-terminal acetyltransferase activity.

Park EC, Szostak JW
EMBO J. 1992;11(6):2087-93 - PMID: 1600941 - PMCID: PMC556675

Construction of specific chromosomal rearrangements in yeast.

Sugawara N, Szostak JW
Methods Enzymol. 1983;101:269-78 - PMID: 6310329

Point mutations in the yeast histone H4 gene prevent silencing of the silent mating type locus HML.

Park EC, Szostak JW
Mol Cell Biol. 1990;10(9):4932-4 - PMID: 2117703 - PMCID: PMC361112

Ribosomal synthesis of unnatural peptides.

Josephson K, Hartman MC, Szostak JW
J Am Chem Soc. 2005;127(33):11727-35 - PMID: 16104750 - DOI: 10.1021/ja0515809

TNA synthesis by DNA polymerases.

Chaput JC, Szostak JW
J Am Chem Soc. 2003;125(31):9274-5 - PMID: 12889939 - DOI: 10.1021/ja035917n

Are you expecting a miracle?

Hardy F, Stuart LM, Ross LA
J Md State Dent Assoc. 1982;25(1):19-20 - PMID: 7042882

Laboratory prescriptions for removable partial dentures.

Hardy F, Stuart LM, Travaglini EA
J Md State Dent Assoc. 1982;25(3):108-9 - PMID: 6757356

A critique of materials submitted by dentists to dental laboratories for the fabrication of removable partial dentures.

Hardy F, Stuart LM
Quintessence Dent Technol. 1983;7(2):93-5 - PMID: 6344150

Measurements of the electric and magnetic form factors of the proton from Q2=1.75 to 8.83 (GeV/c)2.

Bosted PE, Andivahis L, Lung A, Stuart LM, Alster J, Arnold RG, Chang CC, Dietrich FS, Dodge W, Gearhart R, Gomez J, Griffioen KA, Hicks RS, Hyde-Wright CE, Keppel C, Kuhn SE, Lichtenstadt J, Miskimen RA, Peterson GA, Petratos GG, Rock SE, Rokni S, Sakumoto WK, Spengos M, Swartz K, Szalata Z, Tao LH
Phys Rev Lett. 1992;68(26):3841-3844 - PMID: 10045818 - DOI: 10.1103/PhysRevLett.68.3841

Measurements of nu W2 and R= sigma L/ sigma T from inelastic electron-aluminum scattering near x=1.

Bosted PE, Lung A, Andivahis L, Stuart LM, Alster J, Arnold RG, Chang CC, Dietrich FS, Dodge W, Gearhart R, Gomez J, Griffioen KA, Hicks RS, Hyde-Wright CE, Keppel C, Kuhn SE, Lichtenstadt J, Miskimen RA, Peterson GA, Petratos GG, Rock SE, Rokni S, Sakumoto WK, Spengos M, Swartz K, Szalata Z, Tao LH
Phys Rev C Nucl Phys. 1992;46(6):2505-2515 - PMID: 9968381

Measurements of the electric and magnetic form factors of the neutron from Q2=1.75 to 4.00 (GeV/c)2.

Lung A, Stuart LM, Bosted PE, Andivahis L, Alster J, Arnold RG, Chang CC, Dietrich FS, Dodge WR, Gearhart R, Gomez J, Griffioen KA, Hicks RS, Hyde-Wright CE, Keppel C, Kuhn SE, Lichtenstadt J, Miskimen RA, Peterson GA, Petratos GG, Rock SE, Rokni SH, Sakumoto WK, Spengos M, Swartz K, Szalata Z, Tao LH
Phys Rev Lett. 1993;70(6):718-721 - PMID: 10054186 - DOI: 10.1103/PhysRevLett.70.718

Determination of the neutron spin structure function.

Anthony PL, Arnold RG, Band HR, Borel H, Bosted PE, Breton V, Cates GD, Chupp TE, Dietrich FS, Dunne J, Erbacher R, Fellbaum J, Fonvieille H, Gearhart R, Holmes R, Hughes EW, Johnson JR, Kawall D, Keppel C, Kuhn SE, Lombard-Nelsen RM, Marroncle J, Maruyama T, Meyer W, Meziani Z, Middleton H, Morgenstern J, Newbury NR, Petratos GG, Pitthan R, Prepost R, Roblin Y, Rock SE, Rokni SH, Shapiro G, Smith T, Souder PA, Spengos M, Staley F, Stuart LM, Szalata ZM, Terrien Y, Thompson AK, White JL, Woo ...
Phys Rev Lett. 1993;71(7):959-962 - PMID: 10055413 - DOI: 10.1103/PhysRevLett.71.959

Measurements of the electric and magnetic form factors of the proton from Q2=1.75 to 8.83 (GeV/c)2.

Andivahis L, Bosted PE, Lung A, Stuart LM, Alster J, Arnold RG, Chang CC, Dietrich FS, Dodge W, Gearhart R, Gomez J, Griffioen KA, Hicks RS, Hyde-Wright CE, Keppel C, Kuhn SE, Lichtenstadt J, Miskimen RA, Peterson GA, Petratos GG, Rock SE, Rokni S, Sakumoto WK, Spengos M, Swartz K, Szalata Z, Tao LH
Phys Rev D Part Fields. 1994;50(9):5491-5517 - PMID: 10018207

A soldier in respiratory distress.

Stuart LM, Rice PS, Lloyd G, Beale RJ
Lancet. 1996;347(8993):30 - PMID: 8531548

Deep inelastic scattering of polarized electrons by polarized 3He and the study of the neutron spin structure.

Anthony PL, Arnold RG, Band HR, Borel H, Bosted PE, Breton V, Cates GD, Chupp TE, Dietrich FS, Dunne J, Erbacher R, Fellbaum J, Fonvieille H, Gearhart R, Holmes R, Hughes EW, Johnson JR, Kawall D, Keppel C, Kuhn SE, Lombard-Nelsen RM, Marroncle J, Maruyama T, Meyer W, Meziani Z, Middleton H, Morgenstern J, Newbury NR, Petratos GG, Pitthan R, Prepost R, Roblin Y, Rock SE, Rokni SH, Shapiro G, Smith T, Souder PA, Spengos M, Staley F, Stuart LM, Szalata ZM, Terrien Y, Thompson AK, White JL, Woo ...
Phys Rev D Part Fields. 1996;54(11):6620-6650 - PMID: 10020671

Domestic violence: old problems, new approaches.

Stuart LM
Links (Oxford). 1997;:4 - PMID: 12320799

Clinical review. Comparative effectiveness of drug treatments to prevent fragility fractures: a systematic review and network meta-analysis.

Murad MH, Drake MT, Mullan RJ, Mauck KF, Stuart LM, Lane MA, Abu Elnour NO, Erwin PJ, Hazem A, Puhan MA, Li T, Montori VM
J Clin Endocrinol Metab. 2012;97(6):1871-80 - PMID: 22466336 - DOI: 10.1210/jc.2011-3060

Clinical review. Risk factors for low bone mass-related fractures in men: a systematic review and meta-analysis.

Drake MT, Murad MH, Mauck KF, Lane MA, Undavalli C, Elraiyah T, Stuart LM, Prasad C, Shahrour A, Mullan RJ, Hazem A, Erwin PJ, Montori VM
J Clin Endocrinol Metab. 2012;97(6):1861-70 - PMID: 22466344 - DOI: 10.1210/jc.2011-3058

Phagocytosis: elegant complexity.

Stuart LM, Ezekowitz RA
Immunity. 2005;22(5):539-50 - PMID: 15894272 - DOI: 10.1016/j.immuni.2005.05.002

Inhibitory effects of apoptotic cell ingestion upon endotoxin-driven myeloid dendritic cell maturation.

Stuart LM, Lucas M, Simpson C, Lamb J, Savill J, Lacy-Hulbert A
J Immunol. 2002;168(4):1627-35 - PMID: 11823490

Eater, a transmembrane protein mediating phagocytosis of bacterial pathogens in Drosophila.

Kocks C, Cho JH, Nehme N, Ulvila J, Pearson AM, Meister M, Strom C, Conto SL, Hetru C, Stuart LM, Stehle T, Hoffmann JA, Reichhart JM, Ferrandon D, Rämet M, Ezekowitz RA
Cell. 2005;123(2):335-46 - PMID: 16239149 - DOI: 10.1016/j.cell.2005.08.034

Mannose-binding lectin-deficient mice display defective apoptotic cell clearance but no autoimmune phenotype.

Stuart LM, Takahashi K, Shi L, Savill J, Ezekowitz RA
J Immunol. 2005;174(6):3220-6 - PMID: 15749852

Response to Staphylococcus aureus requires CD36-mediated phagocytosis triggered by the COOH-terminal cytoplasmic domain.

Stuart LM, Deng J, Silver JM, Takahashi K, Tseng AA, Hennessy EJ, Ezekowitz RA, Moore KJ
J Cell Biol. 2005;170(3):477-85 - PMID: 16061696 - PMCID: PMC2171464 - DOI: 10.1083/jcb.200501113

Apoptotic cells and innate immune stimuli combine to regulate macrophage cytokine secretion.

Lucas M, Stuart LM, Savill J, Lacy-Hulbert A
J Immunol. 2003;171(5):2610-5 - PMID: 12928413

High-throughput beta-galactosidase assay for bacterial cell-based reporter systems.

Thibodeau SA, Fang R, Joung JK
Biotechniques. 2004;36(3):410-5 - PMID: 15038156 - DOI: 10.2144/04363BM07

A bacterial two-hybrid selection system for studying protein-DNA and protein-protein interactions.

Joung JK, Ramm EI, Pabo CO
Proc Natl Acad Sci U S A. 2000;97(13):7382-7 - PMID: 10852947 - PMCID: PMC16554 - DOI: 10.1073/pnas.110149297

Allosteric inhibition of zinc-finger binding in the major groove of DNA by minor-groove binding ligands.

Nguyen-Hackley DH, Ramm E, Taylor CM, Joung JK, Dervan PB, Pabo CO
Biochemistry. 2004;43(13):3880-90 - PMID: 15049695 - DOI: 10.1021/bi030223c

Repression of phase-variable cup gene expression by H-NS-like proteins in Pseudomonas aeruginosa.

Vallet-Gely I, Donovan KE, Fang R, Joung JK, Dove SL
Proc Natl Acad Sci U S A. 2005;102(31):11082-7 - PMID: 16043713 - PMCID: PMC1182424 - DOI: 10.1073/pnas.0502663102

A combined yeast/bacteria two-hybrid system: development and evaluation.

Serebriiskii IG, Fang R, Latypova E, Hopkins R, Vinson C, Joung JK, Golemis EA
Mol Cell Proteomics. 2005;4(6):819-26 - PMID: 15781424 - PMCID: PMC2670611 - DOI: 10.1074/mcp.T500005-MCP200

Synergistic activation of transcription by Escherichia coli cAMP receptor protein.

Joung JK, Le LU, Hochschild A
Proc Natl Acad Sci U S A. 1993;90(7):3083-7 - PMID: 7681995 - PMCID: PMC46241

Activation of prokaryotic transcription through arbitrary protein-protein contacts.

Dove SL, Joung JK, Hochschild A
Nature. 1997;386(6625):627-30 - PMID: 9121589 - DOI: 10.1038/386627a0

Identifying and modifying protein-DNA and protein-protein interactions using a bacterial two-hybrid selection system.

Joung JK
J Cell Biochem Suppl. 2002;Suppl 37:53-7 - PMID: 11842428

Highly specific zinc finger proteins obtained by directed domain shuffling and cell-based selection.

Hurt JA, Thibodeau SA, Hirsh AS, Pabo CO, Joung JK
Proc Natl Acad Sci U S A. 2003;100(21):12271-6 - PMID: 14527993 - PMCID: PMC218748 - DOI: 10.1073/pnas.2135381100

Synergistic activation of transcription by bacteriophage lambda cI protein and E. coli cAMP receptor protein.

Joung JK, Koepp DM, Hochschild A
Science. 1994;265(5180):1863-6 - PMID: 8091212

Genetic strategy for analyzing specificity of dimer formation: Escherichia coli cyclic AMP receptor protein mutant altered in its dimerization specificity.

Joung JK, Chung EH, King G, Yu C, Hirsh AS, Hochschild A
Genes Dev. 1995;9(23):2986-96 - PMID: 7498794

Preparation of an ecdysone immunogen for radioimmunoassay work.

Hung DT, Benner SA, Williams CM
J Biol Chem. 1980;255(13):6047-8 - PMID: 7190146

Sensitization of 9L rat brain gliosarcoma cells to 1,3-bis(2-chloroethyl)-1-nitrosourea by alpha-difluoromethylornithine, an ornithine decarboxylase inhibitor.

Hung DT, Deen DF, Seidenfeld J, Marton LJ
Cancer Res. 1981;41(7):2783-5 - PMID: 6788362

Depletion of intracellular polyamines may alter DNA conformation in 9L rat brain tumor cells.

Hung DT, Marton LJ, Deen DF, Shafer RH
Science. 1983;221(4608):368-70 - PMID: 6408733

Potentiation of 1,3-bis(2-chloroethyl)-1-nitrosourea cytotoxicity in 9L rat brain tumor cells by methylglyoxal-bis(guanylhydrazone), an inhibitor of S-adenosyl-L-methionine decarboxylase.

Hung DT, Oredsson SM, Pegg AE, Deen DF, Marton LJ
Eur J Cancer Clin Oncol. 1984;20(3):417-20 - PMID: 6538500

Decreased cell kill of vincristine and methotrexate against 9L rat brain tumor cells in vitro caused by alpha-difluoromethylornithine-induced polyamine depletion.

Alhonen-Hongisto L, Hung DT, Deen DF, Marton LJ
Cancer Res. 1984;44(10):4440-2 - PMID: 6432313

Molecular cloning of a functional thrombin receptor reveals a novel proteolytic mechanism of receptor activation.

Vu TK, Hung DT, Wheaton VI, Coughlin SR
Cell. 1991;64(6):1057-68 - PMID: 1672265

Domains specifying thrombin-receptor interaction.

Vu TK, Wheaton VI, Hung DT, Charo I, Coughlin SR
Nature. 1991;353(6345):674-7 - PMID: 1717851 - DOI: 10.1038/353674a0

Expression cloning and characterization of a functional thrombin receptor reveals a novel proteolytic mechanism of receptor activation.

Coughlin SR, Vu TK, Hung DT, Wheaton VI
Semin Thromb Hemost. 1992;18(2):161-6 - PMID: 1321504 - DOI: 10.1055/s-2007-1002422

Thrombin receptor structure and function.

Coughlin SR, Scarborough RM, Vu TK, Hung DT
Cold Spring Harb Symp Quant Biol. 1993;57:149-54 - PMID: 1339654

Thrombin-induced events in non-platelet cells are mediated by the unique proteolytic mechanism established for the cloned platelet thrombin receptor.

Hung DT, Vu TH, Nelken NA, Coughlin SR
J Cell Biol. 1992;116(3):827-32 - PMID: 1309820 - PMCID: PMC2289317

Characterization of a functional thrombin receptor. Issues and opportunities.

Coughlin SR, Vu TK, Hung DT, Wheaton VI
J Clin Invest. 1992;89(2):351-5 - PMID: 1310691 - PMCID: PMC442859 - DOI: 10.1172/JCI115592

"Mirror image" antagonists of thrombin-induced platelet activation based on thrombin receptor structure.

Hung DT, Vu TK, Wheaton VI, Charo IF, Nelken NA, Esmon N, Esmon CT, Coughlin SR
J Clin Invest. 1992;89(2):444-50 - PMID: 1310695 - PMCID: PMC442871 - DOI: 10.1172/JCI115604

Cloned platelet thrombin receptor is necessary for thrombin-induced platelet activation.

Hung DT, Vu TK, Wheaton VI, Ishii K, Coughlin SR
J Clin Invest. 1992;89(4):1350-3 - PMID: 1313452 - PMCID: PMC442997 - DOI: 10.1172/JCI115721

HLA-A2-peptide complexes: refolding and crystallization of molecules expressed in Escherichia coli and complexed with single antigenic peptides.

Garboczi DN, Hung DT, Wiley DC
Proc Natl Acad Sci U S A. 1992;89(8):3429-33 - PMID: 1565634 - PMCID: PMC48881

cDNA cloning of a human 25 kDa FK506 and rapamycin binding protein.

Hung DT, Schreiber SL
Biochem Biophys Res Commun. 1992;184(2):733-8 - PMID: 1374240

Tethered ligand agonist peptides. Structural requirements for thrombin receptor activation reveal mechanism of proteolytic unmasking of agonist function.

Scarborough RM, Naughton MA, Teng W, Hung DT, Rose J, Vu TK, Wheaton VI, Turck CW, Coughlin SR
J Biol Chem. 1992;267(19):13146-9 - PMID: 1320011

The cloned platelet thrombin receptor couples to at least two distinct effectors to stimulate phosphoinositide hydrolysis and inhibit adenylyl cyclase.

Hung DT, Wong YH, Vu TK, Coughlin SR
J Biol Chem. 1992;267(29):20831-4 - PMID: 1328213

Identification of the immunophilins capable of mediating inhibition of signal transduction by cyclosporin A and FK506: roles of calcineurin binding and cellular location.

Bram RJ, Hung DT, Martin PK, Schreiber SL, Crabtree GR
Mol Cell Biol. 1993;13(8):4760-9 - PMID: 7687744 - PMCID: PMC360102

Distinct binding and cellular properties of synthetic (+)- and (-)-discodermolides.

Hung DT, Nerenberg JB, Schreiber SL
Chem Biol. 1994;1(1):67-71 - PMID: 9383372

(+)-Discodermolide binds to microtubules in stoichiometric ratio to tubulin dimers, blocks taxol binding and results in mitotic arrest.

Hung DT, Chen J, Schreiber SL
Chem Biol. 1996;3(4):287-93 - PMID: 8807856

Understanding and controlling the cell cycle with natural products.

Hung DT, Jamison TF, Schreiber SL
Chem Biol. 1996;3(8):623-39 - PMID: 8807895

Detection of breast cancer cells in ductal lavage fluid by methylation-specific PCR.

Evron E, Dooley WC, Umbricht CB, Rosenthal D, Sacchi N, Gabrielson E, Soito AB, Hung DT, Ljung B, Davidson NE, Sukumar S
Lancet. 2001;357(9265):1335-6 - PMID: 11343741

Ductal lavage for detection of cellular atypia in women at high risk for breast cancer.

Dooley WC, Ljung BM, Veronesi U, Cazzaniga M, Elledge RM, O'Shaughnessy JA, Kuerer HM, Hung DT, Khan SA, Phillips RF, Ganz PA, Euhus DM, Esserman LJ, Haffty BG, King BL, Kelley MC, Anderson MM, Schmit PJ, Clark RR, Kass FC, Anderson BO, Troyan SL, Arias RD, Quiring JN, Love SM, Page DL, King EB
J Natl Cancer Inst. 2001;93(21):1624-32 - PMID: 11698566

Ductal lavage and the clinical management of women at high risk for breast carcinoma: a commentary.

O'Shaughnessy JA, Ljung BM, Dooley WC, Chang J, Kuerer HM, Hung DT, Grant MD, Khan SA, Phillips RF, Duvall K, Euhus DM, King BL, Anderson BO, Troyan SL, Kim J, Veronesi U, Cazzaniga M
Cancer. 2002;94(2):292-8 - PMID: 11900214 - DOI: 10.1002/cncr.10238

Bile acids induce cholera toxin expression in Vibrio cholerae in a ToxT-independent manner.

Hung DT, Mekalanos JJ
Proc Natl Acad Sci U S A. 2005;102(8):3028-33 - PMID: 15699331 - PMCID: PMC549475 - DOI: 10.1073/pnas.0409559102

Small-molecule inhibitor of Vibrio cholerae virulence and intestinal colonization.

Hung DT, Shakhnovich EA, Pierson E, Mekalanos JJ
Science. 2005;310(5748):670-4 - PMID: 16223984 - DOI: 10.1126/science.1116739

Bile acids stimulate biofilm formation in Vibrio cholerae.

Hung DT, Zhu J, Sturtevant D, Mekalanos JJ
Mol Microbiol. 2006;59(1):193-201 - PMID: 16359328 - DOI: 10.1111/j.1365-2958.2005.04846.x

Systematics-guided bioprospecting for bioactive microbial natural products.

Liu X, Bolla K, Ashforth EJ, Zhuo Y, Gao H, Huang P, Stanley SA, Hung DT, Zhang L
Antonie Van Leeuwenhoek. 2011;101(1):55-66 - PMID: 22086462 - DOI: 10.1007/s10482-011-9671-1

Two-dimensional agarose gel electrophoresis "SeaPlaque" agarose dimension.

Parker RC, Seed B
Methods Enzymol. 1980;65(1):358-63 - PMID: 6246359

Diazotizable arylamine cellulose papers for the coupling and hybridization of nucleic acids.

Seed B
Nucleic Acids Res. 1982;10(5):1799-810 - PMID: 7071022 - PMCID: PMC320567

Representation of DNA sequences in recombinant DNA libraries prepared by restriction enzyme partial digestion.

Seed B, Parker RC, Davidson N
Gene. 1982;19(2):201-9 - PMID: 6293929

Theoretical study of the fraction of a long-chain DNA that can be incorporated in a recombinant DNA partial-digest library.

Seed B
Biopolymers. 1982;21(9):1793-810 - PMID: 7126756 - DOI: 10.1002/bip.360210909

Minimal size plasmids containing an M13 origin for production of single-strand transducing particles.

Levinson A, Silver D, Seed B
J Mol Appl Genet. 1985;2(6):507-17 - PMID: 6099398

A comparison of postmigration and migration-coupled mismatch correction mechanisms for branch migration-mediated gene conversion.

Seed B
Genetics. 1984;106(3):549-67 - PMID: 6706113 - PMCID: PMC1224256

The knockout mouse project.

Austin CP, Battey JF, Bradley A, Bucan M, Capecchi M, Collins FS, Dove WF, Duyk G, Dymecki S, Eppig JT, Grieder FB, Heintz N, Hicks G, Insel TR, Joyner A, Koller BH, Lloyd KC, Magnuson T, Moore MW, Nagy A, Pollock JD, Roses AD, Sands AT, Seed B, Skarnes WC, Snoddy J, Soriano P, Stewart DJ, Stewart F, Stillman B, Varmus H, Varticovski L, Verma IM, Vogt TF, von Melchner H, Witkowski J, Woychik RP, Wurst W, Yancopoulos GD, Young SG, Zambrowicz B
Nat Genet. 2004;36(9):921-4 - PMID: 15340423 - PMCID: PMC2716027 - DOI: 10.1038/ng0904-921

Myelinated, synapsing cultures of murine spinal cord--validation as an in vitro model of the central nervous system.

Thomson CE, McCulloch M, Sorenson A, Barnett SC, Seed BV, Griffiths IR, McLaughlin M
Eur J Neurosci. 2008;28(8):1518-35 - PMID: 18793322 - PMCID: PMC2777255 - DOI: 10.1111/j.1460-9568.2008.06415.x

Plasmid vectors for the rapid isolation and transcriptional analysis of human beta-globin gene alleles.

Little PF, Treisman R, Bierut L, Seed B, Maniatis T
Mol Biol Med. 1983;1(5):473-88 - PMID: 6094959

A simple phase-extraction assay for chloramphenicol acyltransferase activity.

Seed B, Sheen JY
Gene. 1988;67(2):271-7 - PMID: 3169576

Purification of genomic sequences from bacteriophage libraries by recombination and selection in vivo.

Seed B
Nucleic Acids Res. 1983;11(8):2427-45 - PMID: 6856467 - PMCID: PMC325894

Endothelial leukocyte adhesion molecule 1: an inducible receptor for neutrophils related to complement regulatory proteins and lectins.

Bevilacqua MP, Stengelin S, Gimbrone MA, Seed B
Science. 1989;243(4895):1160-5 - PMID: 2466335

Lipid rafts and pseudotyping.

Pickl WF, Pimentel-Muiños FX, Seed B
J Virol. 2001;75(15):7175-83 - PMID: 11435598 - PMCID: PMC114446 - DOI: 10.1128/JVI.75.15.7175-7183.2001

Monoclonal antibody and ligand binding sites of the T cell erythrocyte receptor (CD2).

Peterson A, Seed B
Nature. 1987;329(6142):842-6 - PMID: 2444890 - DOI: 10.1038/329842a0

A B-lymphocyte activation molecule related to the nerve growth factor receptor and induced by cytokines in carcinomas.

Stamenkovic I, Clark EA, Seed B
EMBO J. 1989;8(5):1403-10 - PMID: 2475341 - PMCID: PMC400967

Molecular cloning of a CD28 cDNA by a high-efficiency COS cell expression system.

Aruffo A, Seed B
Proc Natl Acad Sci U S A. 1987;84(23):8573-7 - PMID: 2825196 - PMCID: PMC299587

An LFA-3 cDNA encodes a phospholipid-linked membrane protein homologous to its receptor CD2.

Seed B
Nature. 1987;329(6142):840-2 - PMID: 3313052 - DOI: 10.1038/329840a0

Functional analysis of CD2, CD4, and CD8 in T-cell activation.

Bierer BE, Greenstein JL, Sleckman B, Ratnofsky S, Peterson A, Seed B, Burakoff SJ
Ann N Y Acad Sci. 1988;532:199-206 - PMID: 3052208

Targeted disruption of the murine Fanconi anemia gene, Fancg/Xrcc9.

Yang Y, Kuang Y, Montes De Oca R, Hays T, Moreau L, Lu N, Seed B, D'Andrea AD
Blood. 2001;98(12):3435-40 - PMID: 11719385

Analysis of two cDNA clones encoding the B lymphocyte antigen CD20 (B1, Bp35), a type III integral membrane protein.

Stamenkovic I, Seed B
J Exp Med. 1988;167(6):1975-80 - PMID: 3260267 - PMCID: PMC2189672

Expression of the T-cell surface molecule CD2 and an epitope-loss CD2 mutant to define the role of lymphocyte function-associated antigen 3 (LFA-3) in T-cell activation.

Bierer BE, Peterson A, Barbosa J, Seed B, Burakoff SJ
Proc Natl Acad Sci U S A. 1988;85(4):1194-8 - PMID: 2448792 - PMCID: PMC279733

ortho-Substituted C-aryl glucosides as highly potent and selective renal sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors.

Xu B, Feng Y, Lv B, Xu G, Zhang L, Du J, Peng K, Xu M, Dong J, Zhang W, Zhang T, Zhu L, Ding H, Sheng Z, Welihinda A, Seed B, Chen Y
Bioorg Med Chem. 2010;18(12):4422-32 - PMID: 20576578 - DOI: 10.1016/j.bmc.2010.04.088

Endoplasmic reticulum chaperone gp96 is required for innate immunity but not cell viability.

Randow F, Seed B
Nat Cell Biol. 2001;3(10):891-6 - PMID: 11584270 - DOI: 10.1038/ncb1001-891

Identification of eosinophil lineage-committed progenitors in the murine bone marrow.

Iwasaki H, Mizuno S, Mayfield R, Shigematsu H, Arinobu Y, Seed B, Gurish MF, Takatsu K, Akashi K
J Exp Med. 2005;201(12):1891-7 - PMID: 15955840 - PMCID: PMC2212039 - DOI: 10.1084/jem.20050548

A lymphocyte molecule implicated in lymph node homing is a member of the cartilage link protein family.

Stamenkovic I, Amiot M, Pesando JM, Seed B
Cell. 1989;56(6):1057-62 - PMID: 2466575

CD36 directly mediates cytoadherence of Plasmodium falciparum parasitized erythrocytes.

Oquendo P, Hundt E, Lawler J, Seed B
Cell. 1989;58(1):95-101 - PMID: 2473841

Identification of two sequences in the cytoplasmic tail of the human immunodeficiency virus type 1 envelope glycoprotein that inhibit cell surface expression.

Bültmann A, Muranyi W, Seed B, Haas J
J Virol. 2001;75(11):5263-76 - PMID: 11333908 - PMCID: PMC114932 - DOI: 10.1128/JVI.75.11.5263-5276.2001

Efficient and stable retroviral transfection of ovine endothelial cells with green fluorescent protein for cardiovascular tissue engineering.

Afting M, Stock UA, Nasseri B, Pomerantseva I, Seed B, Vacanti JP
Tissue Eng. 2003;9(1):137-41 - PMID: 12625962 - DOI: 10.1089/107632703762687618

C-aryl glucosides substituted at the 4'-position as potent and selective renal sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors for the treatment of type 2 diabetes.

Xu B, Feng Y, Cheng H, Song Y, Lv B, Wu Y, Wang C, Li S, Xu M, Du J, Peng K, Dong J, Zhang W, Zhang T, Zhu L, Ding H, Sheng Z, Welihinda A, Roberge JY, Seed B, Chen Y
Bioorg Med Chem Lett. 2011;21(15):4465-70 - PMID: 21737266 - DOI: 10.1016/j.bmcl.2011.06.032

Genetic analysis of monoclonal antibody and HIV binding sites on the human lymphocyte antigen CD4.

Peterson A, Seed B
Cell. 1988;54(1):65-72 - PMID: 2454749

Exploration of O-spiroketal C-arylglucosides as novel and selective renal sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors.

Lv B, Xu B, Feng Y, Peng K, Xu G, Du J, Zhang L, Zhang W, Zhang T, Zhu L, Ding H, Sheng Z, Welihinda A, Seed B, Chen Y
Bioorg Med Chem Lett. 2009;19(24):6877-81 - PMID: 19896374 - DOI: 10.1016/j.bmcl.2009.10.088

Expression and function of CD4 in a murine T-cell hybridoma.

Sleckman BP, Peterson A, Jones WK, Foran JA, Greenstein JL, Seed B, Burakoff SJ
Nature. 1987;328(6128):351-3 - PMID: 3037388 - DOI: 10.1038/328351a0

Site-specific gene targeting in mouse embryonic stem cells with intact bacterial artificial chromosomes.

Yang Y, Seed B
Nat Biotechnol. 2003;21(4):447-51 - PMID: 12627171 - DOI: 10.1038/nbt803

O-Spiro C-aryl glucosides as novel sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors.

Xu B, Lv B, Feng Y, Xu G, Du J, Welihinda A, Sheng Z, Seed B, Chen Y
Bioorg Med Chem Lett. 2009;19(19):5632-5 - PMID: 19700318 - DOI: 10.1016/j.bmcl.2009.08.030

EGT1442, a potent and selective SGLT2 inhibitor, attenuates blood glucose and HbA(1c) levels in db/db mice and prolongs the survival of stroke-prone rats.

Zhang W, Welihinda A, Mechanic J, Ding H, Zhu L, Lu Y, Deng Z, Sheng Z, Lv B, Chen Y, Roberge JY, Seed B, Wang YX
Pharmacol Res. 2011;63(4):284-93 - PMID: 21215314 - DOI: 10.1016/j.phrs.2011.01.001

Conformationally constrained spiro C-arylglucosides as potent and selective renal sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors.

Lv B, Feng Y, Dong J, Xu M, Xu B, Zhang W, Sheng Z, Welihinda A, Seed B, Chen Y
ChemMedChem. 2010;5(6):827-31 - PMID: 20414917 - DOI: 10.1002/cmdc.201000051

The Fc gamma receptor of natural killer cells is a phospholipid-linked membrane protein.

Simmons D, Seed B
Nature. 1988;333(6173):568-70 - PMID: 2967436 - DOI: 10.1038/333568a0

Electrolyte gradient gels for DNA sequencing.

Sheen JY, Seed B
Biotechniques. 1990;6(10):942-4 - PMID: 3273397

Isolation of cDNAs of scrapie-modulated RNAs by subtractive hybridization of a cDNA library.

Duguid JR, Rohwer RG, Seed B
Proc Natl Acad Sci U S A. 1988;85(15):5738-42 - PMID: 2456582 - PMCID: PMC281836

Improved suppressor tRNA cloning vectors and plasmid-phage recombination.

Huang HV, Little PF, Seed B
Biotechnology. 1989;10:269-83 - PMID: 3061517

Syrinx 2A: an improved lambda phage vector designed for screening DNA libraries by recombination in vivo.

Lutz CT, Hollifield WC, Seed B, Davie JM, Huang HV
Proc Natl Acad Sci U S A. 1987;84(13):4379-83 - PMID: 2955406 - PMCID: PMC305092

Isolation and expression of functional high-affinity Fc receptor complementary DNAs.

Allen JM, Seed B
Science. 1989;243(4889):378-81 - PMID: 2911749

Molecular cloning of two CD7 (T-cell leukemia antigen) cDNAs by a COS cell expression system.

Aruffo A, Seed B
EMBO J. 1987;6(11):3313-6 - PMID: 3501369 - PMCID: PMC553785

CD19, the earliest differentiation antigen of the B cell lineage, bears three extracellular immunoglobulin-like domains and an Epstein-Barr virus-related cytoplasmic tail.

Stamenkovic I, Seed B
J Exp Med. 1988;168(3):1205-10 - PMID: 2459292 - PMCID: PMC2189043

Epstein-Barr virus latent infection membrane protein 1 TRAF-binding site induces NIK/IKK alpha-dependent noncanonical NF-kappaB activation.

Luftig M, Yasui T, Soni V, Kang MS, Jacobson N, Cahir-McFarland E, Seed B, Kieff E
Proc Natl Acad Sci U S A. 2003;101(1):141-6 - PMID: 14691250 - PMCID: PMC314152 - DOI: 10.1073/pnas.2237183100

Selection of oligonucleotide probes for protein coding sequences.

Wang X, Seed B
Bioinformatics. 2003;19(7):796-802 - PMID: 12724288

Isolation of cDNAs for two distinct human Fc receptors by ligand affinity cloning.

Stengelin S, Stamenkovic I, Seed B
EMBO J. 1988;7(4):1053-9 - PMID: 3402431 - PMCID: PMC454434

The primary structure of the human leukocyte antigen CD37, a species homologue of the rat MRC OX-44 antigen.

Classon BJ, Williams AF, Willis AC, Seed B, Stamenkovic I
J Exp Med. 1989;169(4):1497-502 - PMID: 2466944 - PMCID: PMC2189247

Dynamic imaging of collagen and its modulation in tumors in vivo using second-harmonic generation.

Brown E, McKee T, diTomaso E, Pluen A, Seed B, Boucher Y, Jain RK
Nat Med. 2003;9(6):796-800 - PMID: 12754503 - DOI: 10.1038/nm879

Differential transplantability of tumor-associated stromal cells.

Duda DG, Fukumura D, Munn LL, Booth MF, Brown EB, Huang P, Seed B, Jain RK
Cancer Res. 2004;64(17):5920-4 - PMID: 15342367 - DOI: 10.1158/0008-5472.CAN-04-1268

Hypoxia and acidosis independently up-regulate vascular endothelial growth factor transcription in brain tumors in vivo.

Fukumura D, Xu L, Chen Y, Gohongi T, Seed B, Jain RK
Cancer Res. 2001;61(16):6020-4 - PMID: 11507045

Nucleotide sequence of three cDNAs for the human high affinity Fc receptor (FcRI).

Allen JM, Seed B
Nucleic Acids Res. 1988;16(24):11824 - PMID: 2974947 - PMCID: PMC339124

A PCR primer bank for quantitative gene expression analysis.

Wang X, Seed B
Nucleic Acids Res. 2003;31(24):e154 - PMID: 14654707 - PMCID: PMC291882

Isolation of a cDNA encoding CD33, a differentiation antigen of myeloid progenitor cells.

Simmons D, Seed B
J Immunol. 1988;141(8):2797-800 - PMID: 3139766

Molecular cloning of the CD2 antigen, the T-cell erythrocyte receptor, by a rapid immunoselection procedure.

Seed B, Aruffo A
Proc Natl Acad Sci U S A. 1987;84(10):3365-9 - PMID: 2437578 - PMCID: PMC304871

B cell maturation antigen, the receptor for a proliferation-inducing ligand and B cell-activating factor of the TNF family, induces antigen presentation in B cells.

Yang M, Hase H, Legarda-Addison D, Varughese L, Seed B, Ting AT
J Immunol. 2005;175(5):2814-24 - PMID: 16116167

Monocyte antigen CD14 is a phospholipid anchored membrane protein.

Simmons DL, Tan S, Tenen DG, Nicholson-Weller A, Seed B
Blood. 1989;73(1):284-9 - PMID: 2462937

ICAM, an adhesion ligand of LFA-1, is homologous to the neural cell adhesion molecule NCAM.

Simmons D, Makgoba MW, Seed B
Nature. 1988;331(6157):624-7 - PMID: 3340213 - DOI: 10.1038/331624a0

Cloning and expression of the human interleukin-6 (BSF-2/IFN beta 2) receptor.

Yamasaki K, Taga T, Hirata Y, Yawata H, Kawanishi Y, Seed B, Taniguchi T, Hirano T, Kishimoto T
Science. 1988;241(4867):825-8 - PMID: 3136546

The cell adhesion protein P-selectin glycoprotein ligand-1 is a substrate for the aspartyl protease BACE1.

Lichtenthaler SF, Dominguez DI, Westmeyer GG, Reiss K, Haass C, Saftig P, De Strooper B, Seed B
J Biol Chem. 2003;278(49):48713-9 - PMID: 14507929 - DOI: 10.1074/jbc.M303861200

The Two-Component Sensor KinB Acts as a Phosphatase to Regulate Pseudomonas aeruginosa Virulence.

Chand NS, Clatworthy AE, Hung DT
J Bacteriol. 2012;194(23):6537-47 - PMID: 23024348 - PMCID: PMC3497526 - DOI: 10.1128/JB.01168-12

Expression of cDNA clones encoding the thymocyte antigens CD1a, b, c demonstrates a hierarchy of exclusion in fibroblasts.

Aruffo A, Seed B
J Immunol. 1989;143(5):1723-30 - PMID: 2701945

A human macrophage-associated antigen (CD68) detected by six different monoclonal antibodies.

Micklem K, Rigney E, Cordell J, Simmons D, Stross P, Turley H, Seed B, Mason D
Br J Haematol. 1989;73(1):6-11 - PMID: 2803980

Leu-8/TQ1 is the human equivalent of the Mel-14 lymph node homing receptor.

Camerini D, James SP, Stamenkovic I, Seed B
Nature. 1989;342(6245):78-82 - PMID: 2509939 - DOI: 10.1038/342078a0

A CD4 domain important for HIV-mediated syncytium formation lies outside the virus binding site.

Camerini D, Seed B
Cell. 1990;60(5):747-54 - PMID: 2107024

Improved genetic selection for screening bacteriophage libraries by homologous recombination in vivo.

Kurnit DM, Seed B
Proc Natl Acad Sci U S A. 1990;87(8):3166-9 - PMID: 2183225 - PMCID: PMC53855

The B-cell antigen CD22 mediates monocyte and erythrocyte adhesion.

Stamenkovic I, Seed B
Nature. 1990;345(6270):74-7 - PMID: 1691828 - DOI: 10.1038/345074a0

Expression and characterization of human CD4:immunoglobulin fusion proteins.

Zettlmeissl G, Gregersen JP, Duport JM, Mehdi S, Reiner G, Seed B
DNA Cell Biol. 1990;9(5):347-53 - PMID: 2196903 - DOI: 10.1089/dna.1990.9.347

CD44 is the principal cell surface receptor for hyaluronate.

Aruffo A, Stamenkovic I, Melnick M, Underhill CB, Seed B
Cell. 1990;61(7):1303-13 - PMID: 1694723

Identification of the intracytoplasmic region essential for signal transduction through a B cell activation molecule, CD40.

Inui S, Kaisho T, Kikutani H, Stamenkovic I, Seed B, Clark EA, Kishimoto T
Eur J Immunol. 1990;20(8):1747-53 - PMID: 1698631 - DOI: 10.1002/eji.1830200819

Expression of the CD6 T lymphocyte differentiation antigen in normal human brain.

Mayer B, Funke I, Seed B, Riethmüller G, Weiss E
J Neuroimmunol. 1990;29(1-3):193-202 - PMID: 2211985

The primary structure of the human leukocyte antigen CD37, a species homologue of the rat MRC OX-44 antigen.

Classon BJ, Williams AF, Willis AC, Seed B, Stamenkovic I
J Exp Med. 1990;172(3):1007 - PMID: 2388030 - PMCID: PMC2188538

Recognition by ELAM-1 of the sialyl-Lex determinant on myeloid and tumor cells.

Walz G, Aruffo A, Kolanus W, Bevilacqua M, Seed B
Science. 1990;250(4984):1132-5 - PMID: 1701275

The hematopoietic and epithelial forms of CD44 are distinct polypeptides with different adhesion potentials for hyaluronate-bearing cells.

Stamenkovic I, Aruffo A, Amiot M, Seed B
EMBO J. 1991;10(2):343-8 - PMID: 1991450 - PMCID: PMC452652

Cellular immunity to HIV activated by CD4 fused to T cell or Fc receptor polypeptides.

Romeo C, Seed B
Cell. 1991;64(5):1037-46 - PMID: 1900456

The lymphocyte glycoprotein CD6 contains a repeated domain structure characteristic of a new family of cell surface and secreted proteins.

Aruffo A, Melnick MB, Linsley PS, Seed B
J Exp Med. 1991;174(4):949-52 - PMID: 1919444 - PMCID: PMC2118957

CD62/P-selectin recognition of myeloid and tumor cell sulfatides.

Aruffo A, Kolanus W, Walz G, Fredman P, Seed B
Cell. 1991;67(1):35-44 - PMID: 1717159

The T cell activation antigen CD27 is a member of the nerve growth factor/tumor necrosis factor receptor gene family.

Camerini D, Walz G, Loenen WA, Borst J, Seed B
J Immunol. 1991;147(9):3165-9 - PMID: 1655907

Activation of immune system effector function by T-cell or Fc receptor intracellular domains.

Romeo C, Kolanus W, Amiot M, Seed B
Cold Spring Harb Symp Quant Biol. 1993;57:117-25 - PMID: 1339650

Molecular cloning of a cDNA encoding CD34, a sialomucin of human hematopoietic stem cells.

Simmons DL, Satterthwaite AB, Tenen DG, Seed B
J Immunol. 1992;148(1):267-71 - PMID: 1370171

Molecular cloning and expression of a new member of the nerve growth factor receptor family that is characteristic for Hodgkin's disease.

Dürkop H, Latza U, Hummel M, Eitelbach F, Seed B, Stein H
Cell. 1992;68(3):421-7 - PMID: 1310894

Sequence requirements for induction of cytolysis by the T cell antigen/Fc receptor zeta chain.

Romeo C, Amiot M, Seed B
Cell. 1992;68(5):889-97 - PMID: 1547489

Cloning and functional expression of the T cell activation antigen CD26.

Tanaka T, Camerini D, Seed B, Torimoto Y, Dang NH, Kameoka J, Dahlberg HN, Schlossman SF, Morimoto C
J Immunol. 1992;149(2):481-6 - PMID: 1352530

Marked by a mucin.

Seed B
Curr Biol. 1992;2(9):457-9 - PMID: 15335892

Lineage-independent activation of immune system effector function by myeloid Fc receptors.

Kolanus W, Romeo C, Seed B
EMBO J. 1992;11(13):4861-8 - PMID: 1464313 - PMCID: PMC556962

Antiviral effects of different CD4-immunoglobulin constructs against HIV-1 and SIV: immunological characterization, pharmacokinetic data and in vivo experiments.

Langner KD, Niedrig M, Fultz P, Anderson D, Reiner G, Repke H, Gelderblom H, Seed B, Hilfenhaus J, Zettlmeissl G
Arch Virol. 1993;130(1-2):157-70 - PMID: 8503781

T cell activation by clustered tyrosine kinases.

Kolanus W, Romeo C, Seed B
Cell. 1993;74(1):171-83 - PMID: 8334702

Nonreceptor tyrosine kinases in aggregation-mediated cell activation.

Seed B, Kolanus W, Romeo C, Xavier R
Adv Exp Med Biol. 1995;365:111-9 - PMID: 7887297

4A11, a monoclonal antibody recognizing a novel antigen expressed on aberrant vascular endothelium. Upregulation in an in vivo model of contact dermatitis.

Koch AE, Nickoloff BJ, Holgersson J, Seed B, Haines GK, Burrows JC, Leibovich SJ
Am J Pathol. 1994;144(2):244-59 - PMID: 8311112 - PMCID: PMC1887152

Association of Raf with the CD3 delta and gamma chains of the T cell receptor-CD3 complex.

Loh C, Romeo C, Seed B, Bruder JT, Rapp U, Rao A
J Biol Chem. 1994;269(12):8817-25 - PMID: 8132616

Making agonists of antagonists.

Seed B
Chem Biol. 1994;1(3):125-9 - PMID: 9383381

Initiation of signal transduction by receptor aggregation: role of nonreceptor tyrosine kinases.

Seed B
Semin Immunol. 1995;7(1):3-11 - PMID: 7612893

RIP: a novel protein containing a death domain that interacts with Fas/APO-1 (CD95) in yeast and causes cell death.

Stanger BZ, Leder P, Lee TH, Kim E, Seed B
Cell. 1995;81(4):513-23 - PMID: 7538908

Developments in expression cloning.

Seed B
Curr Opin Biotechnol. 1995;6(5):567-73 - PMID: 7579669

PSGL-1 recognition of P-selectin is controlled by a tyrosine sulfation consensus at the PSGL-1 amino terminus.

Pouyani T, Seed B
Cell. 1995;83(2):333-43 - PMID: 7585950

The XRCC4 gene encodes a novel protein involved in DNA double-strand break repair and V(D)J recombination.

Li Z, Otevrel T, Gao Y, Cheng HL, Seed B, Stamato TD, Taccioli GE, Alt FW
Cell. 1995;83(7):1079-89 - PMID: 8548796

Clustered syk tyrosine kinase domains trigger phagocytosis.

Greenberg S, Chang P, Wang DC, Xavier R, Seed B
Proc Natl Acad Sci U S A. 1996;93(3):1103-7 - PMID: 8577722 - PMCID: PMC40038

Codon usage limitation in the expression of HIV-1 envelope glycoprotein.

Haas J, Park EC, Seed B
Curr Biol. 1996;6(3):315-24 - PMID: 8805248

Alpha L beta 2 integrin/LFA-1 binding to ICAM-1 induced by cytohesin-1, a cytoplasmic regulatory molecule.

Kolanus W, Nagel W, Schiller B, Zeitlmann L, Godar S, Stockinger H, Seed B
Cell. 1996;86(2):233-42 - PMID: 8706128

RIP mediates tumor necrosis factor receptor 1 activation of NF-kappaB but not Fas/APO-1-initiated apoptosis.

Ting AT, Pimentel-Muiños FX, Seed B
EMBO J. 1996;15(22):6189-96 - PMID: 8947041 - PMCID: PMC452440

Integrins and inside-out signal transduction: converging signals from PKC and PIP3.

Kolanus W, Seed B
Curr Opin Cell Biol. 1997;9(5):725-31 - PMID: 9330877

PPAR-gamma agonists inhibit production of monocyte inflammatory cytokines.

Jiang C, Ting AT, Seed B
Nature. 1998;391(6662):82-6 - PMID: 9422509 - DOI: 10.1038/34184

Increased immune response elicited by DNA vaccination with a synthetic gp120 sequence with optimized codon usage.

André S, Seed B, Eberle J, Schraut W, Bültmann A, Haas J
J Virol. 1998;72(2):1497-503 - PMID: 9445053 - PMCID: PMC124631

Membrane compartmentation is required for efficient T cell activation.

Xavier R, Brennan T, Li Q, McCormack C, Seed B
Immunity. 1998;8(6):723-32 - PMID: 9655486

Muskelin, a novel intracellular mediator of cell adhesive and cytoskeletal responses to thrombospondin-1.

Adams JC, Seed B, Lawler J
EMBO J. 1998;17(17):4964-74 - PMID: 9724633 - PMCID: PMC1170825 - DOI: 10.1093/emboj/17.17.4964

PPARgamma and colorectal carcinoma: conflicts in a nuclear family.

Seed B
Nat Med. 1998;4(9):1004-5 - PMID: 9734386 - DOI: 10.1038/1990

Tumor induction of VEGF promoter activity in stromal cells.

Fukumura D, Xavier R, Sugiura T, Chen Y, Park EC, Lu N, Selig M, Nielsen G, Taksir T, Jain RK, Seed B
Cell. 1998;94(6):715-25 - PMID: 9753319

Membrane compartmentation and the response to antigen.

Xavier R, Seed B
Curr Opin Immunol. 1999;11(3):265-9 - PMID: 10375560

The Epstein-Barr virus oncoprotein latent membrane protein 1 engages the tumor necrosis factor receptor-associated proteins TRADD and receptor-interacting protein (RIP) but does not induce apoptosis or require RIP for NF-kappaB activation.

Izumi KM, Cahir McFarland ED, Ting AT, Riley EA, Seed B, Kieff ED
Mol Cell Biol. 1999;19(8):5759-67 - PMID: 10409763 - PMCID: PMC84426

Regulated commitment of TNF receptor signaling: a molecular switch for death or activation.

Pimentel-Muiños FX, Seed B
Immunity. 1999;11(6):783-93 - PMID: 10626900

Mechanisms of NSAID-induced gastrointestinal injury defined using mutant mice.

Beck PL, Xavier R, Lu N, Nanda NN, Dinauer M, Podolsky DK, Seed B
Gastroenterology. 2000;119(3):699-705 - PMID: 10982764

Episomal segregation of the adenovirus enhancer sequence by conditional genome rearrangement abrogates late viral gene expression.

Wang X, Zeng W, Murakawa M, Freeman MW, Seed B
J Virol. 2000;74(23):11296-303 - PMID: 11070029 - PMCID: PMC113234

Fas triggers an alternative, caspase-8-independent cell death pathway using the kinase RIP as effector molecule.

Holler N, Zaru R, Micheau O, Thome M, Attinger A, Valitutti S, Bodmer JL, Schneider P, Seed B, Tschopp J
Nat Immunol. 2000;1(6):489-95 - PMID: 11101870 - DOI: 10.1038/82732

Safety and dosing of bevacizumab (avastin) for the treatment of recurrent respiratory papillomatosis.

Best SR, Friedman AD, Landau-Zemer T, Barbu AM, Burns JA, Freeman MW, Halvorsen YD, Hillman RE, Zeitels SM
Ann Otol Rhinol Laryngol. 2012;121(9):587-93 - PMID: 23012897 - DOI: 10.1177/000348941212100905

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment.

Morgan XC, Tickle TL, Sokol H, Gevers D, Devaney KL, Ward DV, Reyes JA, Shah SA, Leleiko N, Snapper SB, Bousvaros A, Korzenik J, Sands BE, Xavier RJ, Huttenhower C
Genome Biol. 2012;13(9):R79 - PMID: 23013615 - PMCID: PMC3506950 - DOI: 10.1186/gb-2012-13-9-r79

Bacille Calmette-Guerin induces NOD2-dependent nonspecific protection from reinfection via epigenetic reprogramming of monocytes.

Kleinnijenhuis J, Quintin J, Preijers F, Joosten LA, Ifrim DC, Saeed S, Jacobs C, van Loenhout J, de Jong D, Stunnenberg HG, Xavier RJ, van der Meer JW, van Crevel R, Netea MG
Proc Natl Acad Sci U S A. 2012;109(43):17537-42 - PMID: 22988082 - PMCID: PMC3491454 - DOI: 10.1073/pnas.1202870109

Atherosclerosis and innate immunity signaling

Laberge MA, Moore KJ, and MW Freeman.
Annals of Medicine. 2005;37:130-140

Statins, cholesterol, and the prevention of coronary heart disease

MW Freeman
FASEB J. 2006;20(2):200-201

Tangier Disease and Neuropathy. In: Dyck, PJ and Thomas, PK, Eds

Gilmore O’Neill and MW Freeman
Peripheral Neuropathy 4th edition. 2005;:ePub

Approach to the patient with hypercholesterolemia. In: Goroll A, May L, Mulley A, eds

MW Freeman
Primary Care Medicine, 5th Edition. 2005;:ePub

Scavenger receptors in atherosclerosis

MW Freeman and KJ Moore
Arterioscler Thromb Vasc Biol. 2006;8:1702-1711

Lipid Disorders and Coronary Heart Disease. In: Runge, MS and Patterson, W Eds.

MW Freeman
Molecular Medicine. 2006;:ePub

Targeting innate immunity for CV benefit

KJ Moore and MW Freeman
Drug Discovery Today: Therapeutic Strategies. 2008;5:15-23

Screening for hyperlipidemia. In: Goroll A and Mulley A, eds.

Haydock GS and MW Freeman
Primary Care Medicine, 6th Edition. 2009;:ePub

Approach to the patient with hypercholesterolemia. In: Goroll A, May L, Mulley A, eds

MW Freeman
Primary Care Medicine, 6th Edition. 2009;:ePub

Lipoprotein Metabolism and the Treatment of Lipid Disorders, Chapter 42. In: DeGroot LJ and JL Jameson, eds

MW Freeman
Endocrinology, 6th edition. 2010;:ePub

Screening for hyperlipidemia. In: Goroll A, May L, Mulley A, eds

Haydock GS and MW Freeman
1995. 1995;Primary Care Medicine, 3rd Edit:72-75

Of mice, men and cholesterol

Aftring RP and MW Freeman
Hepatology. 1994;19:1054-1056

Macrophage scavenger receptors

MW Freeman
Current Opinions in Lipidology . 1994;5:143-148

Risk factors in coronary artery disease and cardiac rehabilitation. In: Haber E, Eagle KA, Austen WG, eds

Freeman MW, Rigotti NA, and T. Force
The Practice of Cardiology. 1989;:563-614

Preproparathyroid hormone: Use of mutants to study secretion. In: Cohn DV, Martin TJ, Meunier PJ, eds.

Kronenberg HM, Wiren KM, Freeman MW, JT Potts Jr
Calcium Regulation and Bone Metabolism: Basic and Clinical Aspects, Vol. 9. Amsterdam: Excerpta Medica. 1987;9:773-777

What to do about high cholesterol

M Freeman, Consultant editor, 4th edition. Buckley, Rita
President and Fellows of Harvard College. Harvard Health Publications. 2009;:ePub

What to do about high cholesterol

M Freeman, Consultant editor 3rd edition Junge C, Skerret PJ, and Emond, SD.
President and Fellows of Harvard College. Harvard Health Publications. 2005;:ePub

The Treatment of Dyslipidemia: LDL Reduction and Beyond

MW Freeman
In Endocrinology Rounds. 2002;1, Issue 8:ePub

What to do about high cholesterol

M Freeman, Consultant editor 2nd edition. PJ Skerret and SD Emond
President and Fellows of Harvard College. Harvard Health Publications. 2000;:ePub

What to do about high cholesterol

M Freeman, Consultant editor. PJ Skerret and SD Emond
President and Fellows of Harvard College. Harvard Health Publications. 1993;:ePub

CDPKs in immune and stress signaling.

Boudsocq M, Sheen J
Trends Plant Sci. 2012;18(1):30-40 - PMID: 22974587 - PMCID: PMC3534830 - DOI: 10.1016/j.tplants.2012.08.008

Evaluation of OPEN Zinc Finger Nucleases for Direct Gene Targeting of the ROSA26 Locus in Mouse Embryos.

Hermann M, Maeder ML, Rector K, Ruiz J, Becher B, Bürki K, Khayter C, Aguzzi A, Joung JK, Buch T, Pelczar P
PLoS One. 2012;7(9):e41796 - PMID: 22970113 - PMCID: PMC3435328 - DOI: 10.1371/journal.pone.0041796

Harvard Medical School Guide to Lowering your Cholesterol

MW Freeman and Christine Junge
2005;:ePub

Postmenopausal hormone-replacement therapy

Martin KA, and Freeman MW
New Engl J Med. 1993;328:1115-1117

Preproparathyroid hormone: a model for analyzing the secretory pathway.

Wiren KM, Freeman MW, Potts JT Jr, HM Kronenberg
Ann NY Acad Sci. 1987;493:43-49

Chemistry, molecular biology, and mode of action of parathyroid hormone.

Potts, JT Jr, Nussbaum S, Wiren K, Freeman M, Igarashi T, Okazaki T, Zajac J, Abou-Samra AB, Bringhurst FR, Segre G, HM Kronenberg
Proceedings of the First International Conference on New Actions of Parathyroid Hormone. Kobe, Japan. 1987;:ePub

Guidelines for the use and interpretation of assays for monitoring autophagy.

Klionsky DJ, Abdalla FC, Abeliovich H, Abraham RT, Acevedo-Arozena A, Adeli K, Agholme L, Agnello M, Agostinis P, Aguirre-Ghiso JA, Ahn HJ, Ait-Mohamed O, Ait-Si-Ali S, Akematsu T, Akira S, Al-Younes HM, Al-Zeer MA, Albert ML, Albin RL, Alegre-Abarrategui J, Aleo MF, Alirezaei M, Almasan A, Almonte-Becerril M, Amano A, Amaravadi R, Amarnath S, Amer AO, Andrieu-Abadie N, Anantharam V, Ann DK, Anoopkumar-Dukie S, Aoki H, Apostolova N, Auberger P, Baba M, Backues SK, Baehrecke EH, Bahr BA, Bai ...
Autophagy. 2012;8(4):445-544 - PMID: 22966490 - PMCID: PMC3404883

The effect of oxandrolone on low and high density lipoprotein profiles in retired breeder rats.

Freeman MW, Spring-Mills E, Jones AL
J Gerontol. 1980;35(1):31-8 - PMID: 7350219

Nucleotide sequence of the human parathyroid hormone gene.

Vasicek TJ, McDevitt BE, Freeman MW, Fennick BJ, Hendy GN, Potts JT, Rich A, Kronenberg HM
Proc Natl Acad Sci U S A. 1983;80(8):2127-31 - PMID: 6220408 - PMCID: PMC393770

Structure and expression of the human parathyroid hormone gene.

Kronenberg HM, Igarashi T, Freeman MW, Okazaki T, Brand SJ, Wiren KM, Potts JT
Recent Prog Horm Res. 1986;42:641-63 - PMID: 3526456

Preproparathyroid hormone. A model for analyzing the secretory pathway.

Wiren KM, Freeman MW, Potts JT, Kronenberg HM
Ann N Y Acad Sci. 1987;493:43-9 - PMID: 3473968

Consequences of amino-terminal deletions of preproparathyroid hormone signal sequence.

Freeman MW, Wiren KM, Rapoport A, Lazar M, Potts JT, Kronenberg HM
Mol Endocrinol. 1987;1(9):628-38 - PMID: 3153480 - DOI: 10.1210/mend-1-9-628

Central nervous system lesions in pediatric patients: Gd-DTPA-enhanced MR imaging.

Powers TA, Partain CL, Kessler RM, Freeman MW, Robertson RH, Wyatt SH, Whelan HT
Radiology. 1988;169(3):723-6 - PMID: 3055036 - DOI: 10.1148/radiology.169.3.3055036

Mutations in signal sequence cleavage domain of preproparathyroid hormone alter protein translocation, signal sequence cleavage, and membrane-binding properties.

Wiren KM, Ivashkiv L, Ma P, Freeman MW, Potts JT, Kronenberg HM
Mol Endocrinol. 1989;3(2):240-50 - PMID: 2710131 - DOI: 10.1210/mend-3-2-240

Thymosin beta 4 is expressed in ROS 17/2.8 osteosarcoma cells in a regulated manner.

Atkinson MJ, Freeman MW, Kronenberg HM
Mol Endocrinol. 1990;4(1):69-74 - PMID: 2325669 - DOI: 10.1210/mend-4-1-69

Rabbit aortic smooth muscle cells express inducible macrophage scavenger receptor messenger RNA that is absent from endothelial cells.

Bickel PE, Freeman MW
J Clin Invest. 1992;90(4):1450-7 - PMID: 1401078 - PMCID: PMC443191 - DOI: 10.1172/JCI116012

Ascorbic acid oxidation product(s) protect human low density lipoprotein against atherogenic modification. Anti- rather than prooxidant activity of vitamin C in the presence of transition metal ions.

Retsky KL, Freeman MW, Frei B
J Biol Chem. 1993;268(2):1304-9 - PMID: 8419332

Postmenopausal hormone-replacement therapy.

Martin KA, Freeman MW
N Engl J Med. 1993;328(15):1115-7 - PMID: 8455670 - DOI: 10.1056/NEJM199304153281509

Surface expression of human CD14 in Chinese hamster ovary fibroblasts imparts macrophage-like responsiveness to bacterial endotoxin.

Golenbock DT, Liu Y, Millham FH, Freeman MW, Zoeller RA
J Biol Chem. 1993;268(29):22055-9 - PMID: 7691822

Macrophage scavenger receptors.

Freeman MW
Curr Opin Lipidol. 1994;5(2):143-8 - PMID: 8044417

Of mice, men and cholesterol.

Aftring RP, Freeman MW
Hepatology. 1994;19(4):1054-6 - PMID: 8138246

Regulation of smooth muscle cell scavenger receptor expression in vivo by atherogenic diets and in vitro by cytokines.

Li H, Freeman MW, Libby P
J Clin Invest. 1995;95(1):122-33 - PMID: 7814605 - PMCID: PMC295387 - DOI: 10.1172/JCI117628

Structure of the murine macrophage scavenger receptor gene and evaluation of sequences that regulate expression in the macrophage cell line, P388D.

Aftring RP, Freeman MW
J Lipid Res. 1995;36(6):1305-14 - PMID: 7666008

Scavenger receptors in atherosclerosis.

Freeman MW
Curr Opin Hematol. 1997;4(1):41-7 - PMID: 9050378

Decreased cholesterol efflux from fibroblasts of a patient without Tangier disease, but with markedly reduced high density lipoprotein cholesterol levels.

Eberhart GP, Mendez AJ, Freeman MW
J Clin Endocrinol Metab. 1998;83(3):836-46 - PMID: 9506737 - DOI: 10.1210/jcem.83.3.4642

Functional changes in scavenger receptor binding conformation are induced by charge mutants spanning the entire collagen domain.

Andersson L, Freeman MW
J Biol Chem. 1998;273(31):19592-601 - PMID: 9677385

In vitro-differentiated embryonic stem cell macrophages: a model system for studying atherosclerosis-associated macrophage functions.

Moore KJ, Fabunmi RP, Andersson LP, Freeman MW
Arterioscler Thromb Vasc Biol. 1998;18(10):1647-54 - PMID: 9763539

Leukotriene B4 receptor transgenic mice reveal novel protective roles for lipoxins and aspirin-triggered lipoxins in reperfusion.

Chiang N, Gronert K, Clish CB, O'Brien JA, Freeman MW, Serhan CN
J Clin Invest. 1999;104(3):309-16 - PMID: 10430612 - PMCID: PMC408424 - DOI: 10.1172/JCI7016

Effluxed lipids: Tangier Island's latest export.

Freeman MW
Proc Natl Acad Sci U S A. 1999;96(20):10950-2 - PMID: 10500104 - PMCID: PMC34222

Stromelysin-1 (MMP-3) expression driven by a macrophage-specific promoter results in reduced viability in transgenic mice.

Fabunmi RP, Moore KJ, Libby P, Freeman MW
Atherosclerosis. 2000;148(2):375-86 - PMID: 10657574

Lipopolysaccharide induces scavenger receptor A expression in mouse macrophages: a divergent response relative to human THP-1 monocyte/macrophages.

Fitzgerald ML, Moore KJ, Freeman MW, Reed GL
J Immunol. 2000;164(5):2692-700 - PMID: 10679110

Novel mutations in the gene encoding ATP-binding cassette 1 in four tangier disease kindreds.

Brousseau ME, Schaefer EJ, Dupuis J, Eustace B, Van Eerdewegh P, Goldkamp AL, Thurston LM, FitzGerald MG, Yasek-McKenna D, O'Neill G, Eberhart GP, Weiffenbach B, Ordovas JM, Freeman MW, Brown RH, Gu JZ
J Lipid Res. 2000;41(3):433-41 - PMID: 10706591

Cellular cholesterol efflux in heterozygotes for tangier disease is markedly reduced and correlates with high density lipoprotein cholesterol concentration and particle size.

Brousseau ME, Eberhart GP, Dupuis J, Asztalos BF, Goldkamp AL, Schaefer EJ, Freeman MW
J Lipid Res. 2000;41(7):1125-35 - PMID: 10884295

Divergent response to LPS and bacteria in CD14-deficient murine macrophages.

Moore KJ, Andersson LP, Ingalls RR, Monks BG, Li R, Arnaout MA, Golenbock DT, Freeman MW
J Immunol. 2000;165(8):4272-80 - PMID: 11035061

Episomal segregation of the adenovirus enhancer sequence by conditional genome rearrangement abrogates late viral gene expression.

Wang X, Zeng W, Murakawa M, Freeman MW, Seed B
J Virol. 2000;74(23):11296-303 - PMID: 11070029 - PMCID: PMC113234

Effects of overexpression of the amino-terminal fragment of apolipoprotein B on apolipoprotein B and lipoprotein production.

Li Z, Kako Y, Pang L, Freeman MW, Glick JM, Wang X, Goldberg IJ
J Lipid Res. 2000;41(12):1912-20 - PMID: 11108724

The role of PPAR-gamma in macrophage differentiation and cholesterol uptake.

Moore KJ, Rosen ED, Fitzgerald ML, Randow F, Andersson LP, Altshuler D, Milstone DS, Mortensen RM, Spiegelman BM, Freeman MW
Nat Med. 2001;7(1):41-7 - PMID: 11135614 - DOI: 10.1038/83328

Manipulating intestinal cholesterol absorption and hepatic cholesterol and bile acid metabolism by activation of deorphanized nuclear receptors.

Rigotti A, Freeman MW
Gastroenterology. 2001;120(4):1054-5 - PMID: 11231965

Pattern recognition receptors TLR4 and CD14 mediate response to respiratory syncytial virus.

Kurt-Jones EA, Popova L, Kwinn L, Haynes LM, Jones LP, Tripp RA, Walsh EE, Freeman MW, Golenbock DT, Anderson LJ, Finberg RW
Nat Immunol. 2000;1(5):398-401 - PMID: 11062499 - DOI: 10.1038/80833

ATP-binding cassette transporter A1 contains an NH2-terminal signal anchor sequence that translocates the protein's first hydrophilic domain to the exoplasmic space.

Fitzgerald ML, Mendez AJ, Moore KJ, Andersson LP, Panjeton HA, Freeman MW
J Biol Chem. 2001;276(18):15137-45 - PMID: 11328826

Evidence that dendritic cells infiltrate atherosclerotic lesions in apolipoprotein E-deficient mice.

Bobryshev YV, Taksir T, Lord RS, Freeman MW
Histol Histopathol. 2001;16(3):801-8 - PMID: 11510970 - DOI: 10.14670/HH-16.801

Peroxisome proliferator-activated receptors in macrophage biology: friend or foe?

Moore KJ, Fitzgerald ML, Freeman MW
Curr Opin Lipidol. 2001;12(5):519-27 - PMID: 11561171

C/EBPalpha induces adipogenesis through PPARgamma: a unified pathway.

Rosen ED, Hsu CH, Wang X, Sakai S, Freeman MW, Gonzalez FJ, Spiegelman BM
Genes Dev. 2002;16(1):22-6 - PMID: 11782441 - PMCID: PMC155311 - DOI: 10.1101/gad.948702

Nuclear hormone receptors and cholesterol trafficking: the orphans find a new home.

Fitzgerald ML, Moore KJ, Freeman MW
J Mol Med (Berl). 2002;80(5):271-81 - PMID: 12021839 - DOI: 10.1007/s00109-001-0318-y

Naturally occurring mutations in the largest extracellular loops of ABCA1 can disrupt its direct interaction with apolipoprotein A-I.

Fitzgerald ML, Morris AL, Rhee JS, Andersson LP, Mendez AJ, Freeman MW
J Biol Chem. 2002;277(36):33178-87 - PMID: 12084722 - DOI: 10.1074/jbc.M204996200

A CD36-initiated signaling cascade mediates inflammatory effects of beta-amyloid.

Moore KJ, El Khoury J, Medeiros LA, Terada K, Geula C, Luster AD, Freeman MW
J Biol Chem. 2002;277(49):47373-9 - PMID: 12239221 - DOI: 10.1074/jbc.M208788200

Cellular activation, phagocytosis, and bactericidal activity against group B streptococcus involve parallel myeloid differentiation factor 88-dependent and independent signaling pathways.

Henneke P, Takeuchi O, Malley R, Lien E, Ingalls RR, Freeman MW, Mayadas T, Nizet V, Akira S, Kasper DL, Golenbock DT
J Immunol. 2002;169(7):3970-7 - PMID: 12244198

Neutrophil influx in response to a peritoneal infection with Salmonella is delayed in lipopolysaccharide-binding protein or CD14-deficient mice.

Yang KK, Dorner BG, Merkel U, Ryffel B, Schütt C, Golenbock D, Freeman MW, Jack RS
J Immunol. 2002;169(8):4475-80 - PMID: 12370383

Scavenger receptors class A-I/II and CD36 are the principal receptors responsible for the uptake of modified low density lipoprotein leading to lipid loading in macrophages.

Kunjathoor VV, Febbraio M, Podrez EA, Moore KJ, Andersson L, Koehn S, Rhee JS, Silverstein R, Hoff HF, Freeman MW
J Biol Chem. 2002;277(51):49982-8 - PMID: 12376530 - DOI: 10.1074/jbc.M209649200

eLiXiRs for restraining inflammation.

Freeman MW, Moore KJ
Nat Med. 2003;9(2):168-9 - PMID: 12563335 - DOI: 10.1038/nm0203-168

CD36 mediates the innate host response to beta-amyloid.

El Khoury JB, Moore KJ, Means TK, Leung J, Terada K, Toft M, Freeman MW, Luster AD
J Exp Med. 2003;197(12):1657-66 - PMID: 12796468 - PMCID: PMC2193948 - DOI: 10.1084/jem.20021546

Activation of signaling pathways by putative scavenger receptor class A (SR-A) ligands requires CD14 but not SR-A.

Kim WS, Ordija CM, Freeman MW
Biochem Biophys Res Commun. 2003;310(2):542-9 - PMID: 14521944

ABCA1 and amphipathic apolipoproteins form high-affinity molecular complexes required for cholesterol efflux.

Fitzgerald ML, Morris AL, Chroni A, Mendez AJ, Zannis VI, Freeman MW
J Lipid Res. 2003;45(2):287-94 - PMID: 14617740 - DOI: 10.1194/jlr.M300355-JLR200

Cross-linking and lipid efflux properties of apoA-I mutants suggest direct association between apoA-I helices and ABCA1.

Chroni A, Liu T, Fitzgerald ML, Freeman MW, Zannis VI
Biochemistry. 2004;43(7):2126-39 - PMID: 14967052 - DOI: 10.1021/bi035813p

Reduced atherosclerosis in MyD88-null mice links elevated serum cholesterol levels to activation of innate immunity signaling pathways.

Björkbacka H, Kunjathoor VV, Moore KJ, Koehn S, Ordija CM, Lee MA, Means T, Halmen K, Luster AD, Golenbock DT, Freeman MW
Nat Med. 2004;10(4):416-21 - PMID: 15034566 - DOI: 10.1038/nm1008

ATP-binding cassette transporter A1 contains a novel C-terminal VFVNFA motif that is required for its cholesterol efflux and ApoA-I binding activities.

Fitzgerald ML, Okuhira K, Short GF, Manning JJ, Bell SA, Freeman MW
J Biol Chem. 2004;279(46):48477-85 - PMID: 15347662 - DOI: 10.1074/jbc.M409848200

The induction of macrophage gene expression by LPS predominantly utilizes Myd88-independent signaling cascades.

Björkbacka H, Fitzgerald KA, Huet F, Li X, Gregory JA, Lee MA, Ordija CM, Dowley NE, Golenbock DT, Freeman MW
Physiol Genomics. 2004;19(3):319-30 - PMID: 15367722 - DOI: 10.1152/physiolgenomics.00128.2004

Abca7 null mice retain normal macrophage phosphatidylcholine and cholesterol efflux activity despite alterations in adipose mass and serum cholesterol levels.

Kim WS, Fitzgerald ML, Kang K, Okuhira K, Bell SA, Manning JJ, Koehn SL, Lu N, Moore KJ, Freeman MW
J Biol Chem. 2004;280(5):3989-95 - PMID: 15550377 - DOI: 10.1074/jbc.M412602200

Requirement of JNK2 for scavenger receptor A-mediated foam cell formation in atherogenesis.

Ricci R, Sumara G, Sumara I, Rozenberg I, Kurrer M, Akhmedov A, Hersberger M, Eriksson U, Eberli FR, Becher B, Borén J, Chen M, Cybulsky MI, Moore KJ, Freeman MW, Wagner EF, Matter CM, Lüscher TF
Science. 2004;306(5701):1558-61 - PMID: 15567863 - DOI: 10.1126/science.1101909

Distinct roles of pattern recognition receptors CD14 and Toll-like receptor 4 in acute lung injury.

Jeyaseelan S, Chu HW, Young SK, Freeman MW, Worthen GS
Infect Immun. 2005;73(3):1754-63 - PMID: 15731076 - PMCID: PMC1064978 - DOI: 10.1128/IAI.73.3.1754-1763.2005

Efficacy and safety of the coadministration of ezetimibe with fenofibrate in patients with mixed hyperlipidaemia.

Farnier M, Freeman MW, Macdonell G, Perevozskaya I, Davies MJ, Mitchel YB, Gumbiner B,
Eur Heart J. 2005;26(9):897-905 - PMID: 15781429 - DOI: 10.1093/eurheartj/ehi231

Atherosclerosis and innate immune signaling.

Laberge MA, Moore KJ, Freeman MW
Ann Med. 2005;37(2):130-40 - PMID: 16026120

Inhibition of atherogenesis in BLT1-deficient mice reveals a role for LTB4 and BLT1 in smooth muscle cell recruitment.

Heller EA, Liu E, Tager AM, Sinha S, Roberts JD, Koehn SL, Libby P, Aikawa ER, Chen JQ, Huang P, Freeman MW, Moore KJ, Luster AD, Gerszten RE
Circulation. 2005;112(4):578-86 - PMID: 16043658 - DOI: 10.1161/CIRCULATIONAHA.105.545616

Loss of receptor-mediated lipid uptake via scavenger receptor A or CD36 pathways does not ameliorate atherosclerosis in hyperlipidemic mice.

Moore KJ, Kunjathoor VV, Koehn SL, Manning JJ, Tseng AA, Silver JM, McKee M, Freeman MW
J Clin Invest. 2005;115(8):2192-201 - PMID: 16075060 - PMCID: PMC1180534 - DOI: 10.1172/JCI24061

Nonparametric methods for microarray data based on exchangeability and borrowed power.

Lee ML, Whitmore GA, Björkbacka H, Freeman MW
J Biopharm Stat. 2005;15(5):783-97 - PMID: 16078385 - DOI: 10.1081/BIP-200067778

Purification of ATP-binding cassette transporter A1 and associated binding proteins reveals the importance of beta1-syntrophin in cholesterol efflux.

Okuhira K, Fitzgerald ML, Sarracino DA, Manning JJ, Bell SA, Goss JL, Freeman MW
J Biol Chem. 2005;280(47):39653-64 - PMID: 16192269 - DOI: 10.1074/jbc.M510187200

Previous burn injury predisposes mice to lipopolysaccharide-induced changes in glucose metabolism.

Carter EA, Paul KW, Barrow SA, Fischman AJ, Tompkins RG
J Burn Care Res. 2012;33(5):683-9 - PMID: 22961012 - PMCID: PMC3441057 - DOI: 10.1097/BCR.0b013e31825d6a86

LBP, CD14, TLR4 and the murine innate immune response to a peritoneal Salmonella infection.

Bernheiden M, Heinrich JM, Minigo G, Schütt C, Stelter F, Freeman M, Golenbock D, Jack RS
J Endotoxin Res. 2001;7(6):447-50 - PMID: 11753215

Expression of the macrophage scavenger receptor, a multifunctional lipoprotein receptor, in microglia associated with senile plaques in Alzheimer's disease.

Christie RH, Freeman M, Hyman BT
Am J Pathol. 1996;148(2):399-403 - PMID: 8579103 - PMCID: PMC1861668

Structures and high and low affinity ligand binding properties of murine type I and type II macrophage scavenger receptors.

Ashkenas J, Penman M, Vasile E, Acton S, Freeman M, Krieger M
J Lipid Res. 1993;34(6):983-1000 - PMID: 8394868

Expression cloning of a common receptor for parathyroid hormone and parathyroid hormone-related peptide from rat osteoblast-like cells: a single receptor stimulates intracellular accumulation of both cAMP and inositol trisphosphates and increases intracellular free calcium.

Abou-Samra AB, Jüppner H, Force T, Freeman MW, Kong XF, Schipani E, Urena P, Richards J, Bonventre JV, Potts JT
Proc Natl Acad Sci U S A. 1992;89(7):2732-6 - PMID: 1313566 - PMCID: PMC48736

Characterization of cloned PTH/PTHrP receptors.

Segre GV, Abou-Samra AB, Jüppner H, Schipani E, Force T, Urena P, Freeman M, Kong XF, Kolakowski LF, Hock J
J Endocrinol Invest. 1993;15(9 Suppl 6):11-7 - PMID: 1338633

A G protein-linked receptor for parathyroid hormone and parathyroid hormone-related peptide.

Jüppner H, Abou-Samra AB, Freeman M, Kong XF, Schipani E, Richards J, Kolakowski LF, Hock J, Potts JT, Kronenberg HM
Science. 1991;254(5034):1024-6 - PMID: 1658941

Expression of type I and type II bovine scavenger receptors in Chinese hamster ovary cells: lipid droplet accumulation and nonreciprocal cross competition by acetylated and oxidized low density lipoprotein.

Freeman M, Ekkel Y, Rohrer L, Penman M, Freedman NJ, Chisolm GM, Krieger M
Proc Natl Acad Sci U S A. 1991;88(11):4931-5 - PMID: 2052575 - PMCID: PMC51781

An ancient, highly conserved family of cysteine-rich protein domains revealed by cloning type I and type II murine macrophage scavenger receptors.

Freeman M, Ashkenas J, Rees DJ, Kingsley DM, Copeland NG, Jenkins NA, Krieger M
Proc Natl Acad Sci U S A. 1990;87(22):8810-4 - PMID: 1978939 - PMCID: PMC55049

Coiled-coil fibrous domains mediate ligand binding by macrophage scavenger receptor type II.

Rohrer L, Freeman M, Kodama T, Penman M, Krieger M
Nature. 1990;343(6258):570-2 - PMID: 2300208 - DOI: 10.1038/343570a0

Type I macrophage scavenger receptor contains alpha-helical and collagen-like coiled coils.

Kodama T, Freeman M, Rohrer L, Zabrecky J, Matsudaira P, Krieger M
Nature. 1990;343(6258):531-5 - PMID: 2300204 - DOI: 10.1038/343531a0

The American Burn Association/Shriners Hospitals for Children Burn Outcomes Program: A progress report at 15 years.

Tompkins RG, Liang MH, Lee AF, Kazis LE,
J Trauma Acute Care Surg. 2012;73(3 Suppl 2):S173-8 - PMID: 22929544 - DOI: 10.1097/TA.0b013e318265c53e

Impact of hand burns on health-related quality of life in children younger than 5 years.

Palmieri TL, Nelson-Mooney K, Kagan RJ, Stubbs TK, Meyer WJ, Herndon DN, Hinson MI, Lee AF, Li NC, Kazis LE, Tompkins RG,
J Trauma Acute Care Surg. 2012;73(3 Suppl 2):S197-204 - PMID: 22929547 - DOI: 10.1097/TA.0b013e318265c7ff

Measuring the cost of care for children with acute burn injury.

Carey K, Kazis LE, Lee AF, Liang MH, Li NC, Hinson MI, Lydon MK, Bauk H, Shapiro GD, Tompkins RG,
J Trauma Acute Care Surg. 2012;73(3 Suppl 2):S229-33 - PMID: 22929551 - DOI: 10.1097/TA.0b013e318265c88a

FLS2-Mediated Responses to Ax21-Derived Peptides: Response to the Mueller et al. Commentary.

Danna CH, Zhang XC, Khatri A, Bent AF, Ronald PC, Ausubel FM
Plant Cell. 2012;24(8):3174-6 - PMID: 22923675 - PMCID: PMC3462622 - DOI: 10.1105/tpc.112.099275

Complexity in Differential Peptide-Receptor Signaling: Response to Segonzac et al. and Mueller et al. Commentaries.

Lee H, Khatri A, Plotnikov JM, Zhang XC, Sheen J
Plant Cell. 2012;24(8):3177-85 - PMID: 22923676 - PMCID: PMC3462623 - DOI: 10.1105/tpc.112.099259

p40phox Expression Regulates Neutrophil Recruitment and Function during the Resolution Phase of Intestinal Inflammation.

Conway KL, Goel G, Sokol H, Manocha M, Mizoguchi E, Terhorst C, Bhan AK, Gardet A, Xavier RJ
J Immunol. 2012;189(7):3631-40 - PMID: 22914050 - PMCID: PMC3780969 - DOI: 10.4049/jimmunol.1103746

Genome-Wide Identification of Pseudomonas aeruginosa Virulence-Related Genes Using a Caenorhabditis elegans Infection Model.

Feinbaum RL, Urbach JM, Liberati NT, Djonovic S, Adonizio A, Carvunis AR, Ausubel FM
PLoS Pathog. 2012;8(7):e1002813 - PMID: 22911607 - PMCID: PMC3406104 - DOI: 10.1371/journal.ppat.1002813

Candida albicans Infection Affords Protection against Reinfection via Functional Reprogramming of Monocytes.

Quintin J, Saeed S, Martens JH, Giamarellos-Bourboulis EJ, Ifrim DC, Logie C, Jacobs L, Jansen T, Kullberg BJ, Wijmenga C, Joosten LA, Xavier RJ, van der Meer JW, Stunnenberg HG, Netea MG
Cell Host Microbe. 2012;12(2):223-32 - PMID: 22901542 - PMCID: PMC3864037 - DOI: 10.1016/j.chom.2012.06.006

Gram-Negative Bacterial Infection in Thigh Abscess Can Migrate to Distant Burn Depending on Burn Depth.

Hamrahi V, Hamblin MR, Jung W, Benjamin JB, Paul KW, Fischman AJ, Tompkins RG, Carter EA
Interdiscip Perspect Infect Dis. 2012;2012:567140 - PMID: 22899912 - PMCID: PMC3412104 - DOI: 10.1155/2012/567140

A high-resolution map of human evolutionary constraint using 29 mammals.

Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward LD, Lowe CB, Holloway AK, Clamp M, Gnerre S, Alföldi J, Beal K, Chang J, Clawson H, Cuff J, Di Palma F, Fitzgerald S, Flicek P, Guttman M, Hubisz MJ, Jaffe DB, Jungreis I, Kent WJ, Kostka D, Lara M, Martins AL, Massingham T, Moltke I, Raney BJ, Rasmussen MD, Robinson J, Stark A, Vilella AJ, Wen J, Xie X, Zody MC; Broad Institute Sequencing Platform and Whole Genome Assembly Team, ...
Nature. 2011;478(7370):476-82 - PMID: 21993624 - PMCID: PMC3207357 - DOI: 10.1038/nature10530

Evolution of genes and genomes on the Drosophila phylogeny.

Drosophila 12 Genomes Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN, Pollard DA, Sackton TB, Larracuente AM, Singh ND, Abad JP, Abt DN, Adryan B, Aguade M, Akashi H, Anderson WW, Aquadro CF, Ardell DH, Arguello R, Artieri CG, Barbash DA, Barker D, Barsanti P, Batterham P, Batzoglou S, Begun D, Bhutkar A, Blanco E, Bosak SA, Bradley RK, Brand AD, Brent MR, Brooks AN, Brown RH, Butlin RK, Caggese C, Calvi BR, Bernardo de Car ...
Nature. 2007;450(7167):203-18 - PMID: 17994087 - DOI: 10.1038/nature06341

A gene for the major cytoplasmic tRNATyr from Nicotiana rustica contains a 13 nucleotides long intron.

Stange N, Beier H
Nucleic Acids Res. 1986;14(21):8691 - PMID: 3641192 - PMCID: PMC311891

A human and a plant intron-containing tRNATyr gene are both transcribed in a HeLa cell extract but spliced along different pathways.

van Tol H, Stange N, Gross HJ, Beier H
EMBO J. 1987;6(1):35-41 - PMID: 3502708 - PMCID: PMC553353

A nuclear Nicotiana DNA sequence homologous to the 5' half of tRNATyr may have derived from reverse transcription of a pre-tRNA splicing intermediate.

Stange N, Gross HJ, Beier H
Nucleic Acids Res. 1987;15(13):5477 - PMID: 3648681 - PMCID: PMC305973

A cell-free plant extract for accurate pre-tRNA processing, splicing and modification.

Stange N, Beier H
EMBO J. 1987;6(9):2811-8 - PMID: 3678205 - PMCID: PMC553707

Wheat germ splicing endonuclease is highly specific for plant pre-tRNAs.

Stange N, Gross HJ, Beier H
EMBO J. 1988;7(12):3823-8 - PMID: 3208752 - PMCID: PMC454960

Nuclear tRNA(Tyr) genes are highly amplified at a single chromosomal site in the genome of Arabidopsis thaliana.

Beier D, Stange N, Gross HJ, Beier H
Mol Gen Genet. 1991;225(1):72-80 - PMID: 2000093

Expression of nuclear tRNA(Tyr) genes from Arabidopsis thaliana in HeLa cell and wheat germ extracts.

Stange N, Beier D, Beier H
Plant Mol Biol. 1991;16(5):865-75 - PMID: 1859869

Intron excision from tRNA precursors by plant splicing endonuclease requires unique features of the mature tRNA domain.

Stange N, Beier D, Beier H
Eur J Biochem. 1992;210(1):193-203 - PMID: 1332859

A point mutation in Euglena gracilis chloroplast tRNA(Glu) uncouples protein and chlorophyll biosynthesis.

Stange-Thomann N, Thomann HU, Lloyd AJ, Lyman H, Söll D
Proc Natl Acad Sci U S A. 1994;91(17):7947-51 - PMID: 8058739 - PMCID: PMC44521

Substrate selection by aminoacyl-tRNA synthetases.

Ibba M, Thomann HU, Hong KW, Sherman JM, Weygand-Durasevic I, Sever S, Stange-Thomann N, Praetorius M, Söll D
Nucleic Acids Symp Ser. 1996;(33):40-2 - PMID: 8643392

A nuclear genetic lesion affecting Saccharomyces cerevisiae mitochondrial translation is complemented by a homologous Bacillus gene.

Kim SI, Stange-Thomann N, Martins O, Hong KW, Söll D, Fox TD
J Bacteriol. 1997;179(17):5625-7 - PMID: 9287027 - PMCID: PMC179443

Ancient adaptation of the active site of tryptophanyl-tRNA synthetase for tryptophan binding.

Praetorius-Ibba M, Stange-Thomann N, Kitabatake M, Ali K, Söll I, Carter CW, Ibba M, Söll D
Biochemistry. 2000;39(43):13136-43 - PMID: 11052665

Initial sequencing and analysis of the human genome.

Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, Meldrim J, Mesirov JP, Miranda C, Morris W, Naylor J, Raymond C, Rosetti M, Santos R, Sheridan A, Sougnez C, Stange-Thomann N, Stojanovic N, Subramanian A, Wyman D, Rogers J, Sulston J, Ainscough R, Beck S, Bentley D, Burton J, Clee C, Carter N, Coulson A, Deadman R, Deloukas P, Dunham A, Dun ...
Nature. 2001;409(6822):860-921 - PMID: 11237011 - DOI: 10.1038/35057062

A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms.

Sachidanandam R, Weissman D, Schmidt SC, Kakol JM, Stein LD, Marth G, Sherry S, Mullikin JC, Mortimore BJ, Willey DL, Hunt SE, Cole CG, Coggill PC, Rice CM, Ning Z, Rogers J, Bentley DR, Kwok PY, Mardis ER, Yeh RT, Schultz B, Cook L, Davenport R, Dante M, Fulton L, Hillier L, Waterston RH, McPherson JD, Gilman B, Schaffner S, Van Etten WJ, Reich D, Higgins J, Daly MJ, Blumenstiel B, Baldwin J, Stange-Thomann N, Zody MC, Linton L, Lander ES, Altshuler D,
Nature. 2001;409(6822):928-33 - PMID: 11237013 - DOI: 10.1038/35057149

The genome of M. acetivorans reveals extensive metabolic and physiological diversity.

Galagan JE, Nusbaum C, Roy A, Endrizzi MG, Macdonald P, FitzHugh W, Calvo S, Engels R, Smirnov S, Atnoor D, Brown A, Allen N, Naylor J, Stange-Thomann N, DeArellano K, Johnson R, Linton L, McEwan P, McKernan K, Talamas J, Tirrell A, Ye W, Zimmer A, Barber RD, Cann I, Graham DE, Grahame DA, Guss AM, Hedderich R, Ingram-Smith C, Kuettner HC, Krzycki JA, Leigh JA, Li W, Liu J, Mukhopadhyay B, Reeve JN, Smith K, Springer TA, Umayam LA, White O, White RH, Conway de Macario E, Ferry JG, Jarrell KF ...
Genome Res. 2002;12(4):532-42 - PMID: 11932238 - PMCID: PMC187521 - DOI: 10.1101/gr.223902

Initial sequencing and comparative analysis of the mouse genome.

Mouse Genome Sequencing Consortium, Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, Ainscough R, Alexandersson M, An P, Antonarakis SE, Attwood J, Baertsch R, Bailey J, Barlow K, Beck S, Berry E, Birren B, Bloom T, Bork P, Botcherby M, Bray N, Brent MR, Brown DG, Brown SD, Bult C, Burton J, Butler J, Campbell RD, Carninci P, Cawley S, Chiaromonte F, Chinwalla AT, Church DM, Clamp M, Clee C, Collins FS, Cook LL, Copley RR, Coulson A, Couronne O, Cuff J, Curw ...
Nature. 2002;420(6915):520-62 - PMID: 12466850 - DOI: 10.1038/nature01262

Pathogen discovery from human tissue by sequence-based computational subtraction.

Xu Y, Stange-Thomann N, Weber G, Bo R, Dodge S, David RG, Foley K, Beheshti J, Harris NL, Birren B, Lander ES, Meyerson M
Genomics. 2003;81(3):329-35 - PMID: 12659816

The genome sequence of the filamentous fungus Neurospora crassa.

Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma LJ, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, Butler J, Endrizzi M, Qui D, Ianakiev P, Bell-Pedersen D, Nelson MA, Werner-Washburne M, Selitrennikoff CP, Kinsey JA, Braun EL, Zelter A, Schulte U, Kothe GO, Jedd G, Mewes W, Staben C, Marcotte E, Greenberg D, Roy A, Foley K, Naylor J, Stange-Thomann N, Barrett R, Gnerre S, Kamal M, Kamvysselis M, Mauceli E, Bielke C, Rudd S, Frishman D ...
Nature. 2003;422(6934):859-68 - PMID: 12712197 - DOI: 10.1038/nature01554

Anteroposterior patterning in hemichordates and the origins of the chordate nervous system.

Lowe CJ, Wu M, Salic A, Evans L, Lander E, Stange-Thomann N, Gruber CE, Gerhart J, Kirschner M
Cell. 2003;113(7):853-65 - PMID: 12837244

Comparative genomic analysis reveals independent expansion of a lineage-specific gene family in vertebrates: the class II cytokine receptors and their ligands in mammals and fish.

Lutfalla G, Roest Crollius H, Stange-Thomann N, Jaillon O, Mogensen K, Monneron D
BMC Genomics. 2003;4(1):29 - PMID: 12869211 - PMCID: PMC179897 - DOI: 10.1186/1471-2164-4-29

The complete genome and proteome of Mycoplasma mobile.

Jaffe JD, Stange-Thomann N, Smith C, DeCaprio D, Fisher S, Butler J, Calvo S, Elkins T, FitzGerald MG, Hafez N, Kodira CD, Major J, Wang S, Wilkinson J, Nicol R, Nusbaum C, Birren B, Berg HC, Church GM
Genome Res. 2004;14(8):1447-61 - PMID: 15289470 - PMCID: PMC509254 - DOI: 10.1101/gr.2674004

Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype.

Jaillon O, Aury JM, Brunet F, Petit JL, Stange-Thomann N, Mauceli E, Bouneau L, Fischer C, Ozouf-Costaz C, Bernot A, Nicaud S, Jaffe D, Fisher S, Lutfalla G, Dossat C, Segurens B, Dasilva C, Salanoubat M, Levy M, Boudet N, Castellano S, Anthouard V, Jubin C, Castelli V, Katinka M, Vacherie B, Biémont C, Skalli Z, Cattolico L, Poulain J, De Berardinis V, Cruaud C, Duprat S, Brottier P, Coutanceau JP, Gouzy J, Parra G, Lardier G, Chapple C, McKernan KJ, McEwan P, Bosak S, Kellis M, Volff JN, G ...
Nature. 2004;431(7011):946-57 - PMID: 15496914 - DOI: 10.1038/nature03025

Assembly of polymorphic genomes: algorithms and application to Ciona savignyi.

Vinson JP, Jaffe DB, O'Neill K, Karlsson EK, Stange-Thomann N, Anderson S, Mesirov JP, Satoh N, Satou Y, Nusbaum C, Birren B, Galagan JE, Lander ES
Genome Res. 2005;15(8):1127-35 - PMID: 16077012 - PMCID: PMC1182225 - DOI: 10.1101/gr.3722605

Genome sequence, comparative analysis and haplotype structure of the domestic dog.

Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, Kamal M, Clamp M, Chang JL, Kulbokas EJ, Zody MC, Mauceli E, Xie X, Breen M, Wayne RK, Ostrander EA, Ponting CP, Galibert F, Smith DR, DeJong PJ, Kirkness E, Alvarez P, Biagi T, Brockman W, Butler J, Chin CW, Cook A, Cuff J, Daly MJ, DeCaprio D, Gnerre S, Grabherr M, Kellis M, Kleber M, Bardeleben C, Goodstadt L, Heger A, Hitte C, Kim L, Koepfli KP, Parker HG, Pollinger JP, Searle SM, Sutter NB, Thomas R, Webber C, Baldwin J, Abeb ...
Nature. 2005;438(7069):803-19 - PMID: 16341006 - DOI: 10.1038/nature04338

A genome-wide map of diversity in Plasmodium falciparum.

Volkman SK, Sabeti PC, DeCaprio D, Neafsey DE, Schaffner SF, Milner DA, Daily JP, Sarr O, Ndiaye D, Ndir O, Mboup S, Duraisingh MT, Lukens A, Derr A, Stange-Thomann N, Waggoner S, Onofrio R, Ziaugra L, Mauceli E, Gnerre S, Jaffe DB, Zainoun J, Wiegand RC, Birren BW, Hartl DL, Galagan JE, Lander ES, Wirth DF
Nat Genet. 2006;39(1):113-9 - PMID: 17159979 - DOI: 10.1038/ng1930

Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence.

Neafsey DE, Schaffner SF, Volkman SK, Park D, Montgomery P, Milner DA, Lukens A, Rosen D, Daniels R, Houde N, Cortese JF, Tyndall E, Gates C, Stange-Thomann N, Sarr O, Ndiaye D, Ndir O, Mboup S, Ferreira MU, Moraes Sdo L, Dash AP, Chitnis CE, Wiegand RC, Hartl DL, Birren BW, Lander ES, Sabeti PC, Wirth DF
Genome Biol. 2008;9(12):R171 - PMID: 19077304 - PMCID: PMC2646275 - DOI: 10.1186/gb-2008-9-12-r171

cDNA sequences for transcription factors and signaling proteins of the hemichordate Saccoglossus kowalevskii: efficacy of the expressed sequence tag (EST) approach for evolutionary and developmental studies of a new organism.

Freeman RM, Wu M, Cordonnier-Pratt MM, Pratt LH, Gruber CE, Smith M, Lander ES, Stange-Thomann N, Lowe CJ, Gerhart J, Kirschner M
Biol Bull. 2008;214(3):284-302 - PMID: 18574105 - DOI: 10.2307/25470670

Analysis of high-throughput sequencing and annotation strategies for phage genomes.

Henn MR, Sullivan MB, Stange-Thomann N, Osburne MS, Berlin AM, Kelly L, Yandava C, Kodira C, Zeng Q, Weiand M, Sparrow T, Saif S, Giannoukos G, Young SK, Nusbaum C, Birren BW, Chisholm SW
PLoS One. 2010;5(2):e9083 - PMID: 20140207 - PMCID: PMC2816706 - DOI: 10.1371/journal.pone.0009083

Interspecies homology of nitrogenase genes.

Ruvkun GB, Ausubel FM
Proc Natl Acad Sci U S A. 1980;77(1):191-5 - PMID: 6987649 - PMCID: PMC348234

A general method for site-directed mutagenesis in prokaryotes.

Ruvkun GB, Ausubel FM
Nature. 1981;289(5793):85-8 - PMID: 6256652

Physical and genetic characterization of symbiotic and auxotrophic mutants of Rhizobium meliloti induced by transposon Tn5 mutagenesis.

Meade HM, Long SR, Ruvkun GB, Brown SE, Ausubel FM
J Bacteriol. 1982;149(1):114-22 - PMID: 6274841 - PMCID: PMC216598

ISRm1: A Rhizobium meliloti insertion sequence that transposes preferentially into nitrogen fixation genes.

Ruvkun GB, Long SR, Meade HM, van den Bos RC, Ausubel FM
J Mol Appl Genet. 1983;1(5):405-18 - PMID: 6296251

Directed transposon Tn5 mutagenesis and complementation analysis of Rhizobium meliloti symbiotic nitrogen fixation genes.

Ruvkun GB, Sundaresan V, Ausubel FM
Cell. 1982;29(2):551-9 - PMID: 6288262

Specific protection of nucleotides in the lac operator from DMS methylation and DNase I nicking by crude bacterial cell extracts.

Ruvkun GB, Sundaresan V, Ausubel FM
Gene. 1982;18(3):247-55 - PMID: 6290328

The POU domain: a large conserved region in the mammalian pit-1, oct-1, oct-2, and Caenorhabditis elegans unc-86 gene products.

Herr W, Sturm RA, Clerc RG, Corcoran LM, Baltimore D, Sharp PA, Ingraham HA, Rosenfeld MG, Finney M, Ruvkun G
Genes Dev. 1988;2(12A):1513-6 - PMID: 3215510

The C. elegans cell lineage and differentiation gene unc-86 encodes a protein with a homeodomain and extended similarity to transcription factors.

Finney M, Ruvkun G, Horvitz HR
Cell. 1988;55(5):757-69 - PMID: 2903797

Molecular genetics of the Caenorhabditis elegans heterochronic gene lin-14.

Ruvkun G, Ambros V, Coulson A, Waterston R, Sulston J, Horvitz HR
Genetics. 1989;121(3):501-16 - PMID: 2565854 - PMCID: PMC1203636

The Caenorhabditis elegans heterochronic gene lin-14 encodes a nuclear protein that forms a temporal developmental switch.

Ruvkun G, Giusto J
Nature. 1989;338(6213):313-9 - PMID: 2922060 - DOI: 10.1038/338313a0

Caenorhabditis elegans has scores of homoeobox-containing genes.

Bürglin TR, Finney M, Coulson A, Ruvkun G
Nature. 1989;341(6239):239-43 - PMID: 2571091 - DOI: 10.1038/341239a0

Detection of mutations and DNA polymorphisms using whole genome Southern Cross hybridization.

Ruvkun G, Gilbert W, Horvitz HR
Nucleic Acids Res. 1990;18(4):809-15 - PMID: 2315039 - PMCID: PMC330331

The unc-86 gene product couples cell lineage and cell identity in C. elegans.

Finney M, Ruvkun G
Cell. 1990;63(5):895-905 - PMID: 2257628

Dominant gain-of-function mutations that lead to misregulation of the C. elegans heterochronic gene lin-14, and the evolutionary implications of dominant mutations in pattern-formation genes.

Ruvkun G, Wightman B, Bürglin T, Arasu P
Dev Suppl. 1992;1:47-54 - PMID: 1742500

Regulation of transcription and cell identity by POU domain proteins.

Ruvkun G, Finney M
Cell. 1991;64(3):475-8 - PMID: 1991317

Nematode homeobox cluster.

Bürglin TR, Ruvkun G, Coulson A, Hawkins NC, McGhee JD, Schaller D, Wittmann C, Müller F, Waterston RH
Nature. 1991;351(6329):703 - PMID: 1676487 - DOI: 10.1038/351703a0

Negative regulatory sequences in the lin-14 3'-untranslated region are necessary to generate a temporal switch during Caenorhabditis elegans development.

Wightman B, Bürglin TR, Gatto J, Arasu P, Ruvkun G
Genes Dev. 1991;5(10):1813-24 - PMID: 1916264

Temporal regulation of lin-14 by the antagonistic action of two other heterochronic genes, lin-4 and lin-28.

Arasu P, Wightman B, Ruvkun G
Genes Dev. 1991;5(10):1825-33 - PMID: 1916265

C. elegans unc-4 gene encodes a homeodomain protein that determines the pattern of synaptic input to specific motor neurons.

Miller DM, Shen MM, Shamu CE, Bürglin TR, Ruvkun G, Dubois ML, Ghee M, Wilson L
Nature. 1992;355(6363):841-5 - PMID: 1347150 - DOI: 10.1038/355841a0

New motif in PBX genes.

Bürglin TR, Ruvkun G
Nat Genet. 1992;1(5):319-20 - PMID: 1363814 - DOI: 10.1038/ng0892-319

Regulation of the mec-3 gene by the C.elegans homeoproteins UNC-86 and MEC-3.

Xue D, Finney M, Ruvkun G, Chalfie M
EMBO J. 1992;11(13):4969-79 - PMID: 1361171 - PMCID: PMC556975

Cell signalling. A molecular growth industry.

Ruvkun G
Nature. 1993;360(6406):711-2 - PMID: 1334532 - DOI: 10.1038/360711a0

The Caenorhabditis elegans homeobox gene cluster.

Bürglin TR, Ruvkun G
Curr Opin Genet Dev. 1993;3(4):615-20 - PMID: 7902148

Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans.

Wightman B, Ha I, Ruvkun G
Cell. 1993;75(5):855-62 - PMID: 8252622

daf-2, daf-16 and daf-23: genetically interacting genes controlling Dauer formation in Caenorhabditis elegans.

Gottlieb S, Ruvkun G
Genetics. 1994;137(1):107-20 - PMID: 8056303 - PMCID: PMC1205929

Targeted mutations in the Caenorhabditis elegans POU homeo box gene ceh-18 cause defects in oocyte cell cycle arrest, gonad migration, and epidermal differentiation.

Greenstein D, Hird S, Plasterk RH, Andachi Y, Kohara Y, Wang B, Finney M, Ruvkun G
Genes Dev. 1994;8(16):1935-48 - PMID: 7958868

Lineage-specific regulators couple cell lineage asymmetry to the transcription of the Caenorhabditis elegans POU gene unc-86 during neurogenesis.

Baumeister R, Liu Y, Ruvkun G
Genes Dev. 1996;10(11):1395-410 - PMID: 8647436

The Caenorhabditis elegans behavioral gene unc-24 encodes a novel bipartite protein similar to both erythrocyte band 7.2 (stomatin) and nonspecific lipid transfer protein.

Barnes TM, Jin Y, Horvitz HR, Ruvkun G, Hekimi S
J Neurochem. 1996;67(1):46-57 - PMID: 8667025

A phosphatidylinositol-3-OH kinase family member regulating longevity and diapause in Caenorhabditis elegans.

Morris JZ, Tissenbaum HA, Ruvkun G
Nature. 1996;382(6591):536-9 - PMID: 8700226 - DOI: 10.1038/382536a0

A bulged lin-4/lin-14 RNA duplex is sufficient for Caenorhabditis elegans lin-14 temporal gradient formation.

Ha I, Wightman B, Ruvkun G
Genes Dev. 1996;10(23):3041-50 - PMID: 8957004

Temporal pattern formation by heterochronic genes.

Slack F, Ruvkun G
Annu Rev Genet. 1998;31:611-34 - PMID: 9442909 - DOI: 10.1146/annurev.genet.31.1.611

VP16-activation of the C. elegans neural specification transcription factor UNC-86 suppresses mutations in downstream genes and causes defects in neural migration and axon outgrowth.

Sze JY, Liu Y, Ruvkun G
Development. 1997;124(6):1159-68 - PMID: 9102303

The Caenorhabditis elegans orphan nuclear hormone receptor gene nhr-2 functions in early embryonic development.

Sluder AE, Lindblom T, Ruvkun G
Dev Biol. 1997;184(2):303-19 - PMID: 9133437 - DOI: 10.1006/dbio.1997.8544

Regulation of interneuron function in the C. elegans thermoregulatory pathway by the ttx-3 LIM homeobox gene.

Hobert O, Mori I, Yamashita Y, Honda H, Ohshima Y, Liu Y, Ruvkun G
Neuron. 1997;19(2):345-57 - PMID: 9292724

daf-2, an insulin receptor-like gene that regulates longevity and diapause in Caenorhabditis elegans.

Kimura KD, Tissenbaum HA, Liu Y, Ruvkun G
Science. 1997;277(5328):942-6 - PMID: 9252323

The DAF-3 Smad protein antagonizes TGF-beta-related receptor signaling in the Caenorhabditis elegans dauer pathway.

Patterson GI, Koweek A, Wong A, Liu Y, Ruvkun G
Genes Dev. 1997;11(20):2679-90 - PMID: 9334330 - PMCID: PMC316611

The Fork head transcription factor DAF-16 transduces insulin-like metabolic and longevity signals in C. elegans.

Ogg S, Paradis S, Gottlieb S, Patterson GI, Lee L, Tissenbaum HA, Ruvkun G
Nature. 1997;389(6654):994-9 - PMID: 9353126 - DOI: 10.1038/40194

An insulin-like signaling pathway affects both longevity and reproduction in Caenorhabditis elegans.

Tissenbaum HA, Ruvkun G
Genetics. 1998;148(2):703-17 - PMID: 9504918 - PMCID: PMC1459840

Control of neural development and function in a thermoregulatory network by the LIM homeobox gene lin-11.

Hobert O, D'Alberti T, Liu Y, Ruvkun G
J Neurosci. 1998;18(6):2084-96 - PMID: 9482795

Caenorhabditis elegans Akt/PKB transduces insulin receptor-like signals from AGE-1 PI3 kinase to the DAF-16 transcription factor.

Paradis S, Ruvkun G
Genes Dev. 1998;12(16):2488-98 - PMID: 9716402 - PMCID: PMC317081

Aging, life span, and senescence.

Guarente L, Ruvkun G, Amasino R
Proc Natl Acad Sci U S A. 1998;95(19):11034-6 - PMID: 9736682 - PMCID: PMC33892

The taxonomy of developmental control in Caenorhabditis elegans.

Ruvkun G, Hobert O
Science. 1998;282(5396):2033-41 - PMID: 9851920

A novel repeat domain that is often associated with RING finger and B-box motifs.

Slack FJ, Ruvkun G
Trends Biochem Sci. 1998;23(12):474-5 - PMID: 9868369

A conserved LIM protein that affects muscular adherens junction integrity and mechanosensory function in Caenorhabditis elegans.

Hobert O, Moerman DG, Clark KA, Beckerle MC, Ruvkun G
J Cell Biol. 1999;144(1):45-57 - PMID: 9885243 - PMCID: PMC2148118

The C. elegans PTEN homolog, DAF-18, acts in the insulin receptor-like metabolic signaling pathway.

Ogg S, Ruvkun G
Mol Cell. 1998;2(6):887-93 - PMID: 9885576

Heterochronic genes in development and evolution.

Slack F, Ruvkun G
Biol Bull. 1998;195(3):375-6 - PMID: 9924779 - DOI: 10.2307/1543152

A common theme for LIM homeobox gene function across phylogeny?

Hobert O, Ruvkun G
Biol Bull. 1998;195(3):377-80 - PMID: 9924780 - DOI: 10.2307/1543153

The Caenorhabditis elegans lim-6 LIM homeobox gene regulates neurite outgrowth and function of particular GABAergic neurons.

Hobert O, Tessmar K, Ruvkun G
Development. 1999;126(7):1547-62 - PMID: 10068647

Pax genes in Caenorhabditis elegans: a new twist.

Hobert O, Ruvkun G
Trends Genet. 1999;15(6):214-6 - PMID: 10354580

A PDK1 homolog is necessary and sufficient to transduce AGE-1 PI3 kinase signals that regulate diapause in Caenorhabditis elegans.

Paradis S, Ailion M, Toker A, Thomas JH, Ruvkun G
Genes Dev. 1999;13(11):1438-52 - PMID: 10364160 - PMCID: PMC316759

Alternative olfactory neuron fates are specified by the LIM homeobox gene lim-4.

Sagasti A, Hobert O, Troemel ER, Ruvkun G, Bargmann CI
Genes Dev. 1999;13(14):1794-806 - PMID: 10421632 - PMCID: PMC316880

Themes from a NASA workshop on gene regulatory processes in development and evolution.

Davidson EH, Ruvkun G
J Exp Zool. 1999;285(2):104-15 - PMID: 10440721

A common muscarinic pathway for diapause recovery in the distantly related nematode species Caenorhabditis elegans and Ancylostoma caninum.

Tissenbaum HA, Hawdon J, Perregaux M, Hotez P, Guarente L, Ruvkun G
Proc Natl Acad Sci U S A. 2000;97(1):460-5 - PMID: 10618440 - PMCID: PMC26685

Food and metabolic signalling defects in a Caenorhabditis elegans serotonin-synthesis mutant.

Sze JY, Victor M, Loer C, Shi Y, Ruvkun G
Nature. 2000;403(6769):560-4 - PMID: 10676966 - DOI: 10.1038/35000609

The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans.

Reinhart BJ, Slack FJ, Basson M, Pasquinelli AE, Bettinger JC, Rougvie AE, Horvitz HR, Ruvkun G
Nature. 2000;403(6772):901-6 - PMID: 10706289 - DOI: 10.1038/35002607

The lin-41 RBCC gene acts in the C. elegans heterochronic pathway between the let-7 regulatory RNA and the LIN-29 transcription factor.

Slack FJ, Basson M, Liu Z, Ambros V, Horvitz HR, Ruvkun G
Mol Cell. 2000;5(4):659-69 - PMID: 10882102

DAF-16 recruits the CREB-binding protein coactivator complex to the insulin-like growth factor binding protein 1 promoter in HepG2 cells.

Nasrin N, Ogg S, Cahill CM, Biggs W, Nui S, Dore J, Calvo D, Shi Y, Ruvkun G, Alexander-Bridges MC
Proc Natl Acad Sci U S A. 2000;97(19):10412-7 - PMID: 10973497 - PMCID: PMC27038 - DOI: 10.1073/pnas.190326997

Regulation of C. elegans life-span by insulinlike signaling in the nervous system.

Wolkow CA, Kimura KD, Lee MS, Ruvkun G
Science. 2000;290(5489):147-50 - PMID: 11021802

Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA.

Pasquinelli AE, Reinhart BJ, Slack F, Martindale MQ, Kuroda MI, Maller B, Hayward DC, Ball EE, Degnan B, Müller P, Spring J, Srinivasan A, Fishman M, Finnerty J, Corbo J, Levine M, Leahy P, Davidson E, Ruvkun G
Nature. 2000;408(6808):86-9 - PMID: 11081512 - DOI: 10.1038/35040556

Phosphatidylinositol 3-kinase signaling inhibits DAF-16 DNA binding and function via 14-3-3-dependent and 14-3-3-independent pathways.

Cahill CM, Tzivion G, Nasrin N, Ogg S, Dore J, Ruvkun G, Alexander-Bridges M
J Biol Chem. 2000;276(16):13402-10 - PMID: 11124266 - DOI: 10.1074/jbc.M010042200

Isoform-specific mutations in the Caenorhabditis elegans heterochronic gene lin-14 affect stage-specific patterning.

Reinhart BJ, Ruvkun G
Genetics. 2001;157(1):199-209 - PMID: 11139502 - PMCID: PMC1461488

Regulation of ectodermal and excretory function by the C. elegans POU homeobox gene ceh-6.

Bürglin TR, Ruvkun G
Development. 2001;128(5):779-90 - PMID: 11171402

Graded expression of ceh-14 reporters in the hypodermis is induced by a gonadal signal.

Kagoshima H, Sommer R, Reinhart BJ, Cassata G, Ruvkun G, Bürglin TR
Dev Genes Evol. 2000;210(11):564-9 - PMID: 11180807 - DOI: 10.1007/s004270050347

Regulation of DAF-2 receptor signaling by human insulin and ins-1, a member of the unusually large and diverse C. elegans insulin gene family.

Pierce SB, Costa M, Wisotzkey R, Devadhar S, Homburger SA, Buchman AR, Ferguson KC, Heller J, Platt DM, Pasquinelli AA, Liu LX, Doberstein SK, Ruvkun G
Genes Dev. 2001;15(6):672-86 - PMID: 11274053 - PMCID: PMC312654 - DOI: 10.1101/gad.867301

Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing.

Grishok A, Pasquinelli AE, Conte D, Li N, Parrish S, Ha I, Baillie DL, Fire A, Ruvkun G, Mello CC
Cell. 2001;106(1):23-34 - PMID: 11461699

Molecular biology. Glimpses of a tiny RNA world.

Ruvkun G
Science. 2001;294(5543):797-9 - PMID: 11679654 - DOI: 10.1126/science.1066315

The genetics of aging.

Finch CE, Ruvkun G
Annu Rev Genomics Hum Genet. 2001;2:435-62 - PMID: 11701657 - DOI: 10.1146/annurev.genom.2.1.435

Regulation of C. elegans DAF-16 and its human ortholog FKHRL1 by the daf-2 insulin-like signaling pathway.

Lee RY, Hench J, Ruvkun G
Curr Biol. 2001;11(24):1950-7 - PMID: 11747821

Longevity: don't hold your breath.

Lee SS, Ruvkun G
Nature. 2002;418(6895):287-8 - PMID: 12124610 - DOI: 10.1038/418287a

The C. elegans POU-domain transcription factor UNC-86 regulates the tph-1 tryptophan hydroxylase gene and neurite outgrowth in specific serotonergic neurons.

Sze JY, Zhang S, Li J, Ruvkun G
Development. 2002;129(16):3901-11 - PMID: 12135927

Control of developmental timing by micrornas and their targets.

Pasquinelli AE, Ruvkun G
Annu Rev Cell Dev Biol. 2002;18:495-513 - PMID: 12142272 - DOI: 10.1146/annurev.cellbio.18.012502.105832

Insulin receptor substrate and p55 orthologous adaptor proteins function in the Caenorhabditis elegans daf-2/insulin-like signaling pathway.

Wolkow CA, Muñoz MJ, Riddle DL, Ruvkun G
J Biol Chem. 2002;277(51):49591-7 - PMID: 12393910 - DOI: 10.1074/jbc.M207866200

A systematic RNAi screen identifies a critical role for mitochondria in C. elegans longevity.

Lee SS, Lee RY, Fraser AG, Kamath RS, Ahringer J, Ruvkun G
Nat Genet. 2002;33(1):40-8 - PMID: 12447374 - DOI: 10.1038/ng1056

Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes.

Ashrafi K, Chang FY, Watts JL, Fraser AG, Kamath RS, Ahringer J, Ruvkun G
Nature. 2003;421(6920):268-72 - PMID: 12529643 - DOI: 10.1038/nature01279

A uniform system for microRNA annotation.

Ambros V, Bartel B, Bartel DP, Burge CB, Carrington JC, Chen X, Dreyfuss G, Eddy SR, Griffiths-Jones S, Marshall M, Matzke M, Ruvkun G, Tuschl T
RNA. 2003;9(3):277-9 - PMID: 12592000 - PMCID: PMC1370393

daf-28 encodes a C. elegans insulin superfamily member that is regulated by environmental cues and acts in the DAF-2 signaling pathway.

Li W, Kennedy SG, Ruvkun G
Genes Dev. 2003;17(7):844-58 - PMID: 12654727 - PMCID: PMC196030 - DOI: 10.1101/gad.1066503

DAF-16 target genes that control C. elegans life-span and metabolism.

Lee SS, Kennedy S, Tolonen AC, Ruvkun G
Science. 2003;300(5619):644-7 - PMID: 12690206 - DOI: 10.1126/science.1083614

Computational and experimental identification of C. elegans microRNAs.

Grad Y, Aach J, Hayes GD, Reinhart BJ, Church GM, Ruvkun G, Kim J
Mol Cell. 2003;11(5):1253-63 - PMID: 12769849

The Caenorhabditis elegans ems class homeobox gene ceh-2 is required for M3 pharynx motoneuron function.

Aspöck G, Ruvkun G, Bürglin TR
Development. 2003;130(15):3369-78 - PMID: 12810585

Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis.

Bashirullah A, Pasquinelli AE, Kiger AA, Perrimon N, Ruvkun G, Thummel CS
Dev Biol. 2003;259(1):1-8 - PMID: 12812783

Long-lived C. elegans daf-2 mutants are resistant to bacterial pathogens.

Garsin DA, Villanueva JM, Begun J, Kim DH, Sifri CD, Calderwood SB, Ruvkun G, Ausubel FM
Science. 2003;300(5627):1921 - PMID: 12817143 - DOI: 10.1126/science.1080147

Expression of the 22 nucleotide let-7 heterochronic RNA throughout the Metazoa: a role in life history evolution?

Pasquinelli AE, McCoy A, Jiménez E, Saló E, Ruvkun G, Martindale MQ, Baguñà J
Evol Dev. 2003;5(4):372-8 - PMID: 12823453

Activity of the Caenorhabditis elegans UNC-86 POU transcription factor modulates olfactory sensitivity.

Sze JY, Ruvkun G
Proc Natl Acad Sci U S A. 2003;100(16):9560-5 - PMID: 12883006 - PMCID: PMC170957 - DOI: 10.1073/pnas.1530752100

Functional tests of enhancer conservation between distantly related species.

Ruvinsky I, Ruvkun G
Development. 2003;130(21):5133-42 - PMID: 12944426 - DOI: 10.1242/dev.00711

Identification of many microRNAs that copurify with polyribosomes in mammalian neurons.

Kim J, Krichevsky A, Grad Y, Hayes GD, Kosik KS, Church GM, Ruvkun G
Proc Natl Acad Sci U S A. 2003;101(1):360-5 - PMID: 14691248 - PMCID: PMC314190 - DOI: 10.1073/pnas.2333854100

Unraveling the secrets of the cell.

Komaroff AL, Ruvkun G
Newsweek. 2003;142(23):96 - PMID: 14712576

A conserved siRNA-degrading RNase negatively regulates RNA interference in C. elegans.

Kennedy S, Wang D, Ruvkun G
Nature. 2004;427(6975):645-9 - PMID: 14961122 - DOI: 10.1038/nature02302

Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-beta signaling network.

Tewari M, Hu PJ, Ahn JS, Ayivi-Guedehoussou N, Vidalain PO, Li S, Milstein S, Armstrong CM, Boxem M, Butler MD, Busiguina S, Rual JF, Ibarrola N, Chaklos ST, Bertin N, Vaglio P, Edgley ML, King KV, Albert PS, Vandenhaute J, Pandey A, Riddle DL, Ruvkun G, Vidal M
Mol Cell. 2004;13(4):469-82 - PMID: 14992718

The 20 years it took to recognize the importance of tiny RNAs.

Ruvkun G, Wightman B, Ha I
Cell. 2004;116(2 Suppl):S93-6, 2 p following S96 - PMID: 15055593

Intercellular signaling of reproductive development by the C. elegans DAF-9 cytochrome P450.

Mak HY, Ruvkun G
Development. 2004;131(8):1777-86 - PMID: 15084462 - DOI: 10.1242/dev.01069

MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression.

Mansfield JH, Harfe BD, Nissen R, Obenauer J, Srineel J, Chaudhuri A, Farzan-Kashani R, Zuker M, Pasquinelli AE, Ruvkun G, Sharp PA, Tabin CJ, McManus MT
Nat Genet. 2004;36(10):1079-83 - PMID: 15361871 - DOI: 10.1038/ng1421

Functional genomic analysis of RNA interference in C. elegans.

Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G
Science. 2005;308(5725):1164-7 - PMID: 15790806 - DOI: 10.1126/science.1109267

Analysis of xbx genes in C. elegans.

Efimenko E, Bubb K, Mak HY, Holzman T, Leroux MR, Ruvkun G, Thomas JH, Swoboda P
Development. 2005;132(8):1923-34 - PMID: 15790967 - DOI: 10.1242/dev.01775

The tiny RNA world.

Ruvkun GB
Harvey Lect. 2005;99:1-21 - PMID: 15984549

A systematic RNAi screen for longevity genes in C. elegans.

Hamilton B, Dong Y, Shindo M, Liu W, Odell I, Ruvkun G, Lee SS
Genes Dev. 2005;19(13):1544-55 - PMID: 15998808 - PMCID: PMC1172061 - DOI: 10.1101/gad.1308205

Systematic analysis of genes required for synapse structure and function.

Sieburth D, Ch'ng Q, Dybbs M, Tavazoie M, Kennedy S, Wang D, Dupuy D, Rual JF, Hill DE, Vidal M, Ruvkun G, Kaplan JM
Nature. 2005;436(7050):510-7 - PMID: 16049479 - DOI: 10.1038/nature03809

Somatic misexpression of germline P granules and enhanced RNA interference in retinoblastoma pathway mutants.

Wang D, Kennedy S, Conte D, Kim JK, Gabel HW, Kamath RS, Mello CC, Ruvkun G
Nature. 2005;436(7050):593-7 - PMID: 16049496 - DOI: 10.1038/nature04010

Regulation of Caenorhabditis elegans RNA interference by the daf-2 insulin stress and longevity signaling pathway.

Wang D, Ruvkun G
Cold Spring Harb Symp Quant Biol. 2005;69:429-31 - PMID: 16117677 - DOI: 10.1101/sqb.2004.69.429

Functional genomic analysis of C. elegans molting.

Frand AR, Russel S, Ruvkun G
PLoS Biol. 2005;3(10):e312 - PMID: 16122351 - PMCID: PMC1233573 - DOI: 10.1371/journal.pbio.0030312

Enhanced Tim3 Activity Improves Survival after Influenza Infection.

Cho JL, Roche MI, Sandall B, Brass AL, Seed B, Xavier RJ, Medoff BD
J Immunol. 2012;189(6):2879-89 - PMID: 22875804 - PMCID: PMC3436990 - DOI: 10.4049/jimmunol.1102483

A synthetic biology framework for programming eukaryotic transcription functions.

Khalil AS, Lu TK, Bashor CJ, Ramirez CL, Pyenson NC, Joung JK, Collins JJ
Cell. 2012;150(3):647-58 - PMID: 22863014 - PMCID: PMC3653585 - DOI: 10.1016/j.cell.2012.05.045

New insights into siRNA amplification and RNAi.

Zhang C, Ruvkun G
RNA Biol. 2012;9(8):1045-9 - PMID: 22858672 - PMCID: PMC3551858 - DOI: 10.4161/rna.21246

An interview with Jen Sheen.

Sheen J
Trends Plant Sci. 2012;17(6):321-2 - PMID: 22860262

Multicomponent assembly of proposed DNA precursors in water.

Powner MW, Zheng SL, Szostak JW
J Am Chem Soc. 2012;134(33):13889-95 - PMID: 22839703 - PMCID: PMC3424849 - DOI: 10.1021/ja306176n

Case 23-2012.

Xavier RJ, Gala MK, Bronzo BK, Kelly PJ
N Engl J Med. 2012;367(4):363-73 - PMID: 22830467 - DOI: 10.1056/NEJMcpc1109275

Induction of cytoprotective pathways is central to the extension of lifespan conferred by multiple longevity pathways.

Shore DE, Carr CE, Ruvkun G
PLoS Genet. 2012;8(7):e1002792 - PMID: 22829775 - PMCID: PMC3400582 - DOI: 10.1371/journal.pgen.1002792

TRIF Licenses Caspase-11-Dependent NLRP3 Inflammasome Activation by Gram-Negative Bacteria.

Rathinam VA, Vanaja SK, Waggoner L, Sokolovska A, Becker C, Stuart LM, Leong JM, Fitzgerald KA
Cell. 2012;150(3):606-19 - PMID: 22819539 - PMCID: PMC3660860 - DOI: 10.1016/j.cell.2012.07.007

Genes Involved in the Evolution of Herbivory By A Leaf-Mining, Drosophilid Fly.

Whiteman NK, Gloss AD, Sackton TB, Groen SC, Humphrey PT, Lapoint RT, Sønderby IE, Halkier BA, Kocks C, Ausubel FM, Pierce NE
Genome Biol Evol. 2012;4(9):900-16 - PMID: 22813779 - PMCID: PMC3516228 - DOI: 10.1093/gbe/evs063

EGL-9 Controls C. elegans Host Defense Specificity through Prolyl Hydroxylation-Dependent and -Independent HIF-1 Pathways.

Luhachack LG, Visvikis O, Wollenberg AC, Lacy-Hulbert A, Stuart LM, Irazoqui JE
PLoS Pathog. 2012;8(7):e1002798 - PMID: 22792069 - PMCID: PMC3390412 - DOI: 10.1371/journal.ppat.1002798

Eradication of bacterial persisters with antibiotic-generated hydroxyl radicals.

Schmidt Grant S, Kaufmann BB, Chand NS, Haseley N, Hung DT
Proc Natl Acad Sci U S A. 2012;109(30):12147-52 - PMID: 22778419 - PMCID: PMC3409745 - DOI: 10.1073/pnas.1203735109

Non-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel disease.

Papa E, Docktor M, Smillie C, Weber S, Preheim SP, Gevers D, Giannoukos G, Ciulla D, Tabbaa D, Ingram J, Schauer DB, Ward DV, Korzenik JR, Xavier RJ, Bousvaros A, Alm EJ
PLoS One. 2012;7(6):e39242 - PMID: 22768065 - PMCID: PMC3387146 - DOI: 10.1371/journal.pone.0039242

Helminth Infection Impairs Autophagy-Mediated Killing of Bacterial Enteropathogens by Macrophages.

Su CW, Cao Y, Zhang M, Kaplan J, Su L, Fu Y, Walker WA, Xavier R, Cherayil BJ, Shi HN
J Immunol. 2012;189(3):1459-66 - PMID: 22732589 - PMCID: PMC3423331 - DOI: 10.4049/jimmunol.1200484

Perception of volatiles produced by UVC-irradiated plants alters the response to viral infection in naïve neighboring plants.

Yao Y, Danna CH, Ausubel FM, Kovalchuk I
Plant Signal Behav. 2012;7(7):741-5 - PMID: 22751319 - PMCID: PMC3583953 - DOI: 10.4161/psb.20406

Stimulation of Host Immune Defenses by a Small Molecule Protects C. elegans from Bacterial Infection.

Pukkila-Worley R, Feinbaum R, Kirienko NV, Larkins-Ford J, Conery AL, Ausubel FM
PLoS Genet. 2012;8(6):e1002733 - PMID: 22719261 - PMCID: PMC3375230 - DOI: 10.1371/journal.pgen.1002733

MUT-16 promotes formation of perinuclear Mutator foci required for RNA silencing in the C. elegans germline.

Phillips CM, Montgomery TA, Breen PC, Ruvkun G
Genes Dev. 2012;26(13):1433-44 - PMID: 22713602 - PMCID: PMC3403012 - DOI: 10.1101/gad.193904.112

Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs.

Cade L, Reyon D, Hwang WY, Tsai SQ, Patel S, Khayter C, Joung JK, Sander JD, Peterson RT, Yeh JR
Nucleic Acids Res. 2012;40(16):8001-10 - PMID: 22684503 - PMCID: PMC3439908 - DOI: 10.1093/nar/gks518

Photochemically driven redox chemistry induces protocell membrane pearling and division.

Zhu TF, Adamala K, Zhang N, Szostak JW
Proc Natl Acad Sci U S A. 2012;109(25):9828-32 - PMID: 22665773 - PMCID: PMC3382484 - DOI: 10.1073/pnas.1203212109

Recombinant plasmid that carries part of the nitrogen fixation (nif) gene cluster of Klebsiella pneumoniae.

Cannon FC, Riedel GE, Ausubel FM
Proc Natl Acad Sci U S A. 1977;74(7):2963-7 - PMID: 331321 - PMCID: PMC431364

Physical map of chromosomal nitrogen fixation (nif) genes of Klebsiella pneumoniae.

Riedel GE, Ausubel FM, Cannon FC
Proc Natl Acad Sci U S A. 1979;76(6):2866-70 - PMID: 379866 - PMCID: PMC383710

Interspecies homology of nitrogenase genes.

Ruvkun GB, Ausubel FM
Proc Natl Acad Sci U S A. 1980;77(1):191-5 - PMID: 6987649 - PMCID: PMC348234

A general method for site-directed mutagenesis in prokaryotes.

Ruvkun GB, Ausubel FM
Nature. 1981;289(5793):85-8 - PMID: 6256652

Directed transposon Tn5 mutagenesis and complementation analysis of Rhizobium meliloti symbiotic nitrogen fixation genes.

Ruvkun GB, Sundaresan V, Ausubel FM
Cell. 1982;29(2):551-9 - PMID: 6288262

Regulation of nitrogen metabolism genes by nifA gene product in Klebsiella pneumoniae.

Ow DW, Ausubel FM
Nature. 1983;301(5898):307-13 - PMID: 6337346

Klebsiella pneumoniae nifA product activates the Rhizobium meliloti nitrogenase promoter.

Sundaresan V, Jones JD, Ow DW, Ausubel FM
Nature. 1983;301(5902):728-32 - PMID: 6338395

Promoters regulated by the glnG (ntrC) and nifA gene products share a heptameric consensus sequence in the -15 region.

Ow DW, Sundaresan V, Rothstein DM, Brown SE, Ausubel FM
Proc Natl Acad Sci U S A. 1983;80(9):2524-8 - PMID: 6133280 - PMCID: PMC393858

Activation of Klebsiella pneumoniae and Rhizobium meliloti nitrogenase promoters by gln (ntr) regulatory proteins.

Sundaresan V, Ow DW, Ausubel FM
Proc Natl Acad Sci U S A. 1983;80(13):4030-4 - PMID: 6306658 - PMCID: PMC394194

A Rhizobium meliloti symbiotic regulatory gene.

Szeto WW, Zimmerman JL, Sundaresan V, Ausubel FM
Cell. 1984;36(4):1035-43 - PMID: 6423287

Two-component regulatory systems responsive to environmental stimuli share strongly conserved domains with the nitrogen assimilation regulatory genes ntrB and ntrC.

Nixon BT, Ronson CW, Ausubel FM
Proc Natl Acad Sci U S A. 1986;83(20):7850-4 - PMID: 3020561 - PMCID: PMC386820

Isolation of a higher eukaryotic telomere from Arabidopsis thaliana.

Richards EJ, Ausubel FM
Cell. 1988;53(1):127-36 - PMID: 3349525

A copia-like transposable element family in Arabidopsis thaliana.

Voytas DF, Ausubel FM
Nature. 1988;336(6196):242-4 - PMID: 2904123 - DOI: 10.1038/336242a0

Arabidopsis thaliana mutant that develops as a light-grown plant in the absence of light.

Chory J, Peto C, Feinbaum R, Pratt L, Ausubel F
Cell. 1989;58(5):991-9 - PMID: 2776216

Genomic subtraction for cloning DNA corresponding to deletion mutations.

Straus D, Ausubel FM
Proc Natl Acad Sci U S A. 1990;87(5):1889-93 - PMID: 2408039 - PMCID: PMC53589

The structure, distribution and evolution of the Ta1 retrotransposable element family of Arabidopsis thaliana.

Voytas DF, Konieczny A, Cummings MP, Ausubel FM
Genetics. 1990;126(3):713-21 - PMID: 2174394 - PMCID: PMC1204225

Induction of Arabidopsis defense genes by virulent and avirulent Pseudomonas syringae strains and by a cloned avirulence gene.

Dong X, Mindrinos M, Davis KR, Ausubel FM
Plant Cell. 1991;3(1):61-72 - PMID: 1824335 - PMCID: PMC159979 - DOI: 10.1105/tpc.3.1.61

Cloning the Arabidopsis GA1 Locus by Genomic Subtraction.

Sun T, Goodman HM, Ausubel FM
Plant Cell. 1992;4(2):119-128 - PMID: 12297643 - PMCID: PMC160113 - DOI: 10.1105/tpc.4.2.119

copia-like retrotransposons are ubiquitous among plants.

Voytas DF, Cummings MP, Koniczny A, Ausubel FM, Rodermel SR
Proc Natl Acad Sci U S A. 1992;89(15):7124-8 - PMID: 1379734 - PMCID: PMC49658

A procedure for mapping Arabidopsis mutations using co-dominant ecotype-specific PCR-based markers.

Konieczny A, Ausubel FM
Plant J. 1993;4(2):403-10 - PMID: 8106085

Arabidopsis mutations at the RPS2 locus result in loss of resistance to Pseudomonas syringae strains expressing the avirulence gene avrRpt2.

Yu GL, Katagiri F, Ausubel FM
Mol Plant Microbe Interact. 1993;6(4):434-43 - PMID: 8400373

Programmed cell death in plants: a pathogen-triggered response activated coordinately with multiple defense functions.

Greenberg JT, Guo A, Klessig DF, Ausubel FM
Cell. 1994;77(4):551-63 - PMID: 8187175

Isolation of phytoalexin-deficient mutants of Arabidopsis thaliana and characterization of their interactions with bacterial pathogens.

Glazebrook J, Ausubel FM
Proc Natl Acad Sci U S A. 1994;91(19):8955-9 - PMID: 8090752 - PMCID: PMC44725

The A. thaliana disease resistance gene RPS2 encodes a protein containing a nucleotide-binding site and leucine-rich repeats.

Mindrinos M, Katagiri F, Yu GL, Ausubel FM
Cell. 1994;78(6):1089-99 - PMID: 7923358

Common virulence factors for bacterial pathogenicity in plants and animals.

Rahme LG, Stevens EJ, Wolfort SF, Shao J, Tompkins RG, Ausubel FM
Science. 1995;268(5219):1899-902 - PMID: 7604262

Isolation of Arabidopsis mutants with enhanced disease susceptibility by direct screening.

Glazebrook J, Rogers EE, Ausubel FM
Genetics. 1996;143(2):973-82 - PMID: 8725243 - PMCID: PMC1207353

Arabidopsis enhanced disease susceptibility mutants exhibit enhanced susceptibility to several bacterial pathogens and alterations in PR-1 gene expression.

Rogers EE, Ausubel FM
Plant Cell. 1997;9(3):305-16 - PMID: 9090877 - PMCID: PMC156920 - DOI: 10.1105/tpc.9.3.305

Phytoalexin-deficient mutants of Arabidopsis reveal that PAD4 encodes a regulatory factor and that four PAD genes contribute to downy mildew resistance.

Glazebrook J, Zook M, Mert F, Kagan I, Rogers EE, Crute IR, Holub EB, Hammerschmidt R, Ausubel FM
Genetics. 1997;146(1):381-92 - PMID: 9136026 - PMCID: PMC1207952

Use of model plant hosts to identify Pseudomonas aeruginosa virulence factors.

Rahme LG, Tan MW, Le L, Wong SM, Tompkins RG, Calderwood SB, Ausubel FM
Proc Natl Acad Sci U S A. 1997;94(24):13245-50 - PMID: 9371831 - PMCID: PMC24294

Correlation of defense gene induction defects with powdery mildew susceptibility in Arabidopsis enhanced disease susceptibility mutants.

Reuber TL, Plotnikova JM, Dewdney J, Rogers EE, Wood W, Ausubel FM
Plant J. 1998;16(4):473-85 - PMID: 9881167

Molecular mechanisms of bacterial virulence elucidated using a Pseudomonas aeruginosa-Caenorhabditis elegans pathogenesis model.

Mahajan-Miklos S, Tan MW, Rahme LG, Ausubel FM
Cell. 1999;96(1):47-56 - PMID: 9989496

Killing of Caenorhabditis elegans by Pseudomonas aeruginosa used to model mammalian bacterial pathogenesis.

Tan MW, Mahajan-Miklos S, Ausubel FM
Proc Natl Acad Sci U S A. 1999;96(2):715-20 - PMID: 9892699 - PMCID: PMC15202

Programmed cell death mediated by ced-3 and ced-4 protects Caenorhabditis elegans from Salmonella typhimurium-mediated killing.

Aballay A, Ausubel FM
Proc Natl Acad Sci U S A. 2001;98(5):2735-9 - PMID: 11226309 - PMCID: PMC30208 - DOI: 10.1073/pnas.041613098

A simple model host for identifying Gram-positive virulence factors.

Garsin DA, Sifri CD, Mylonakis E, Qin X, Singh KV, Murray BE, Calderwood SB, Ausubel FM
Proc Natl Acad Sci U S A. 2001;98(19):10892-7 - PMID: 11535834 - PMCID: PMC58570 - DOI: 10.1073/pnas.191378698

Isochorismate synthase is required to synthesize salicylic acid for plant defence.

Wildermuth MC, Dewdney J, Wu G, Ausubel FM
Nature. 2001;414(6863):562-5 - PMID: 11734859 - DOI: 10.1038/35107108

Pseudomonas biofilm formation and antibiotic resistance are linked to phenotypic variation.

Drenkard E, Ausubel FM
Nature. 2002;416(6882):740-3 - PMID: 11961556 - DOI: 10.1038/416740a

A conserved p38 MAP kinase pathway in Caenorhabditis elegans innate immunity.

Kim DH, Feinbaum R, Alloing G, Emerson FE, Garsin DA, Inoue H, Tanaka-Hino M, Hisamoto N, Matsumoto K, Tan MW, Ausubel FM
Science. 2002;297(5581):623-6 - PMID: 12142542 - DOI: 10.1126/science.1073759

Caenorhabditis elegans innate immune response triggered by Salmonella enterica requires intact LPS and is mediated by a MAPK signaling pathway.

Aballay A, Drenkard E, Hilbun LR, Ausubel FM
Curr Biol. 2003;13(1):47-52 - PMID: 12526744

Long-lived C. elegans daf-2 mutants are resistant to bacterial pathogens.

Garsin DA, Villanueva JM, Begun J, Kim DH, Sifri CD, Calderwood SB, Ruvkun G, Ausubel FM
Science. 2003;300(5627):1921 - PMID: 12817143 - DOI: 10.1126/science.1080147

Arabidopsis local resistance to Botrytis cinerea involves salicylic acid and camalexin and requires EDS4 and PAD2, but not SID2, EDS5 or PAD4.

Ferrari S, Plotnikova JM, De Lorenzo G, Ausubel FM
Plant J. 2003;35(2):193-205 - PMID: 12848825

Requirement for a conserved Toll/interleukin-1 resistance domain protein in the Caenorhabditis elegans immune response.

Liberati NT, Fitzgerald KA, Kim DH, Feinbaum R, Golenbock DT, Ausubel FM
Proc Natl Acad Sci U S A. 2004;101(17):6593-8 - PMID: 15123841 - PMCID: PMC404090 - DOI: 10.1073/pnas.0308625101

Improved Somatic Mutagenesis in Zebrafish Using Transcription Activator-Like Effector Nucleases (TALENs).

Moore FE, Reyon D, Sander JD, Martinez SA, Blackburn JS, Khayter C, Ramirez CL, Joung JK, Langenau DM
PLoS One. 2012;7(5):e37877 - PMID: 22655075 - PMCID: PMC3360007 - DOI: 10.1371/journal.pone.0037877

Cytokinin signaling networks

Hwang I., Sheen J., Mueller B.
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Penetration Resistance: PKR's Other Talent.

Lacy-Hulbert A, Stuart LM
Immunity. 2012;36(5):695-6 - PMID: 22633454 - DOI: 10.1016/j.immuni.2012.05.010

Autophagy suppresses interleukin-1? (IL-1?) signaling by activation of p62 degradation via lysosomal and proteasomal pathways.

Lee J, Kim HR, Quinley C, Kim J, Gonzalez-Navajas J, Xavier R, Raz E
J Biol Chem. 2011;287(6):4033-40 - PMID: 22167182 - PMCID: PMC3281713 - DOI: 10.1074/jbc.M111.280065

Role of tumor necrosis factor receptor 2 (TNFR2) in colonic epithelial hyperplasia and chronic intestinal inflammation in mice.

Mizoguchi E, Mizoguchi A, Takedatsu H, Cario E, de Jong YP, Ooi CJ, Xavier RJ, Terhorst C, Podolsky DK, Bhan AK
Gastroenterology. 2002;122(1):134-44 - PMID: 11781288

Identification of a novel Ras-regulated proapoptotic pathway.

Khokhlatchev A, Rabizadeh S, Xavier R, Nedwidek M, Chen T, Zhang XF, Seed B, Avruch J
Curr Biol. 2002;12(4):253-65 - PMID: 11864565

Decreased bone density in splenectomized Gaucher patients receiving enzyme replacement therapy.

Schiffmann R, Mankin H, Dambrosia JM, Xavier RJ, Kreps C, Hill SC, Barton NW, Rosenthal DI
Blood Cells Mol Dis. 2002;28(2):288-96 - PMID: 12064924

Transforming growth factor-beta mediates intestinal healing and susceptibility to injury in vitro and in vivo through epithelial cells.

Beck PL, Rosenberg IM, Xavier RJ, Koh T, Wong JF, Podolsky DK
Am J Pathol. 2003;162(2):597-608 - PMID: 12547717 - PMCID: PMC1851153

Essential role for Vav1 in activation, but not development, of gammadelta T cells.

Swat W, Xavier R, Mizoguchi A, Mizoguchi E, Fredericks J, Fujikawa K, Bhan AK, Alt FW
Int Immunol. 2003;15(2):215-21 - PMID: 12578851

Colonic epithelial functional phenotype varies with type and phase of experimental colitis.

Mizoguchi E, Xavier RJ, Reinecker HC, Uchino H, Bhan AK, Podolsky DK, Mizoguchi A
Gastroenterology. 2003;125(1):148-61 - PMID: 12851880

Homer-3 regulates activation of serum response element in T cells via its EVH1 domain.

Ishiguro K, Xavier R
Blood. 2003;103(6):2248-56 - PMID: 14645007 - DOI: 10.1182/blood-2003-08-2671

Paradoxical roles of different nitric oxide synthase isoforms in colonic injury.

Beck PL, Xavier R, Wong J, Ezedi I, Mashimo H, Mizoguchi A, Mizoguchi E, Bhan AK, Podolsky DK
Am J Physiol Gastrointest Liver Physiol. 2004;286(1):G137-47 - PMID: 14665440 - DOI: 10.1152/ajpgi.00309.2003

Chemotherapy- and radiotherapy-induced intestinal damage is regulated by intestinal trefoil factor.

Beck PL, Wong JF, Li Y, Swaminathan S, Xavier RJ, Devaney KL, Podolsky DK
Gastroenterology. 2004;126(3):796-808 - PMID: 14988834

The scaffold protein CNK1 interacts with the tumor suppressor RASSF1A and augments RASSF1A-induced cell death.

Rabizadeh S, Xavier RJ, Ishiguro K, Bernabeortiz J, Lopez-Ilasaca M, Khokhlatchev A, Mollahan P, Pfeifer GP, Avruch J, Seed B
J Biol Chem. 2004;279(28):29247-54 - PMID: 15075335 - DOI: 10.1074/jbc.M401699200

Discs large (Dlg1) complexes in lymphocyte activation.

Xavier R, Rabizadeh S, Ishiguro K, Andre N, Ortiz JB, Wachtel H, Morris DG, Lopez-Ilasaca M, Shaw AC, Swat W, Seed B
J Cell Biol. 2004;166(2):173-8 - PMID: 15263016 - PMCID: PMC2172307 - DOI: 10.1083/jcb.200309044

Wave2 activates serum response element via its VCA region and functions downstream of Rac.

Ishiguro K, Cao Z, Ilasca ML, Ando T, Xavier R
Exp Cell Res. 2004;301(2):331-7 - PMID: 15530867 - DOI: 10.1016/j.yexcr.2004.09.003

Large-scale screens for cDNAs with in vivo activity.

Ting A, Lichtenthaler S, Xavier R, Na SY, Rabizadeh S, Holmes T, Seed B
Novartis Found Symp. 2005;267:219-29; discussion 229-30 - PMID: 15999809

Commensal flora: wolf in sheep's clothing.

Xavier R, Podolsky DK
Gastroenterology. 2005;128(4):1122-6 - PMID: 15825094

PDZ domains and the politics of polarity in lymphocytes.

Xavier R, Seed B
Immunity. 2005;22(6):655-6 - PMID: 15963778 - DOI: 10.1016/j.immuni.2005.06.003

Bioluminescence resonance energy transfer identify scaffold protein CNK1 interactions in intact cells.

Lopez-Ilasaca MA, Bernabe-Ortiz JC, Na SY, Dzau VJ, Xavier RJ
FEBS Lett. 2005;579(3):648-54 - PMID: 15670823 - DOI: 10.1016/j.febslet.2004.12.039

GRIM-19 interacts with nucleotide oligomerization domain 2 and serves as downstream effector of anti-bacterial function in intestinal epithelial cells.

Barnich N, Hisamatsu T, Aguirre JE, Xavier R, Reinecker HC, Podolsky DK
J Biol Chem. 2005;280(19):19021-6 - PMID: 15753091 - DOI: 10.1074/jbc.M413776200

Membrane recruitment of NOD2 in intestinal epithelial cells is essential for nuclear factor-{kappa}B activation in muramyl dipeptide recognition.

Barnich N, Aguirre JE, Reinecker HC, Xavier R, Podolsky DK
J Cell Biol. 2005;170(1):21-6 - PMID: 15998797 - PMCID: PMC2171381 - DOI: 10.1083/jcb.200502153

Isolation and analysis of lipid rafts in cell-cell interactions.

Landry A, Xavier R
Methods Mol Biol. 2006;341:251-82 - PMID: 16799204 - DOI: 10.1385/1-59745-113-4:251

Nore1B regulates TCR signaling via Ras and Carma1.

Ishiguro K, Avruch J, Landry A, Qin S, Ando T, Goto H, Xavier R
Cell Signal. 2006;18(10):1647-54 - PMID: 16520020 - PMCID: PMC3204664 - DOI: 10.1016/j.cellsig.2006.01.015

A molecular-properties-based approach to understanding PDZ domain proteins and PDZ ligands.

Giallourakis C, Cao Z, Green T, Wachtel H, Xie X, Lopez-Illasaca M, Daly M, Rioux J, Xavier R
Genome Res. 2006;16(8):1056-72 - PMID: 16825666 - PMCID: PMC1524865 - DOI: 10.1101/gr.5285206

Immune cell transcriptome datasets reveal novel leukocyte subset-specific genes and genes associated with allergic processes.

Liu SM, Xavier R, Good KL, Chtanova T, Newton R, Sisavanh M, Zimmer S, Deng C, Silva DG, Frost MJ, Tangye SG, Rolph MS, Mackay CR
J Allergy Clin Immunol. 2006;118(2):496-503 - PMID: 16890777 - DOI: 10.1016/j.jaci.2006.04.040

Paeonol attenuates TNBS-induced colitis by inhibiting NF-kappaB and STAT1 transactivation.

Ishiguro K, Ando T, Maeda O, Hasegawa M, Kadomatsu K, Ohmiya N, Niwa Y, Xavier R, Goto H
Toxicol Appl Pharmacol. 2006;217(1):35-42 - PMID: 16928387 - DOI: 10.1016/j.taap.2006.07.002

Centaurin beta1 down-regulates nucleotide-binding oligomerization domains 1- and 2-dependent NF-kappaB activation.

Yamamoto-Furusho JK, Barnich N, Xavier R, Hisamatsu T, Podolsky DK
J Biol Chem. 2006;281(47):36060-70 - PMID: 17005562 - DOI: 10.1074/jbc.M602383200

Bcl10 is phosphorylated on Ser138 by Ca2+/calmodulin-dependent protein kinase II.

Ishiguro K, Ando T, Goto H, Xavier R
Mol Immunol. 2006;44(8):2095-100 - PMID: 17052756 - DOI: 10.1016/j.molimm.2006.09.012

Vav proteins control MyD88-dependent oxidative burst.

Miletic AV, Graham DB, Montgrain V, Fujikawa K, Kloeppel T, Brim K, Weaver B, Schreiber R, Xavier R, Swat W
Blood. 2006;109(8):3360-8 - PMID: 17158234 - PMCID: PMC1852252 - DOI: 10.1182/blood-2006-07-033662

Vav proteins control MyD88-dependent oxidative burst.

Miletic AV, Graham DB, Montgrain V, Fujikawa K, Kloeppel T, Brim K, Weaver B, Schreiber R, Xavier R, Swat W
Blood. 2006;109(8):3360-8 - PMID: 17158234 - PMCID: PMC1852252 - DOI: 10.1182/blood-2006-07-033662

DLGH1 is a negative regulator of T-lymphocyte proliferation.

Stephenson LM, Sammut B, Graham DB, Chan-Wang J, Brim KL, Huett AS, Miletic AV, Kloeppel T, Landry A, Xavier R, Swat W
Mol Cell Biol. 2007;27(21):7574-81 - PMID: 17724087 - PMCID: PMC2169038 - DOI: 10.1128/MCB.00439-07

Wiskott Aldrich syndrome protein (WASP) and N-WASP are critical for T cell development.

Cotta-de-Almeida V, Westerberg L, Maillard MH, Onaldi D, Wachtel H, Meelu P, Chung UI, Xavier R, Alt FW, Snapper SB
Proc Natl Acad Sci U S A. 2007;104(39):15424-9 - PMID: 17878299 - PMCID: PMC2000553 - DOI: 10.1073/pnas.0706881104

SNPping away at the pathogenesis of Crohn's disease.

Huett A, Xavier R
Inflamm Bowel Dis. 2008;14(1):136-7 - PMID: 17941076 - DOI: 10.1002/ibd.20306

The tumour suppressor CYLD is a negative regulator of RIG-I-mediated antiviral response.

Friedman CS, O'Donnell MA, Legarda-Addison D, Ng A, Cárdenas WB, Yount JS, Moran TM, Basler CF, Komuro A, Horvath CM, Xavier R, Ting AT
EMBO Rep. 2008;9(9):930-6 - PMID: 18636086 - PMCID: PMC2529351 - DOI: 10.1038/embor.2008.136

The Nore1B/Mst1 complex restrains antigen receptor-induced proliferation of naïve T cells.

Zhou D, Medoff BD, Chen L, Li L, Zhang XF, Praskova M, Liu M, Landry A, Blumberg RS, Boussiotis VA, Xavier R, Avruch J
Proc Natl Acad Sci U S A. 2008;105(51):20321-6 - PMID: 19073936 - PMCID: PMC2600581 - DOI: 10.1073/pnas.0810773105

Rassf family of tumor suppressor polypeptides.

Avruch J, Xavier R, Bardeesy N, Zhang XF, Praskova M, Zhou D, Xia F
J Biol Chem. 2008;284(17):11001-5 - PMID: 19091744 - PMCID: PMC2670104 - DOI: 10.1074/jbc.R800073200

Identification of Atg5-dependent transcriptional changes and increases in mitochondrial mass in Atg5-deficient T lymphocytes.

Stephenson LM, Miller BC, Ng A, Eisenberg J, Zhao Z, Cadwell K, Graham DB, Mizushima NN, Xavier R, Virgin HW, Swat W
Autophagy. 2009;5(5):625-35 - PMID: 19276668 - PMCID: PMC3737142

Building complex biological networks based upon model organisms: mapping the human autophagy interactome via a hybrid yeast-human protein interaction network.

Huett A, Xavier R
Autophagy. 2009;5(6):884-6 - PMID: 19535904

Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions.

Raychaudhuri S, Plenge RM, Rossin EJ, Ng AC, , Purcell SM, Sklar P, Scolnick EM, Xavier RJ, Altshuler D, Daly MJ
PLoS Genet. 2009;5(6):e1000534 - PMID: 19557189 - PMCID: PMC2694358 - DOI: 10.1371/journal.pgen.1000534

Differential expression of microRNA (miRNA) in chordoma reveals a role for miRNA-1 in Met expression.

Duan Z, Choy E, Nielsen GP, Rosenberg A, Iafrate J, Yang C, Schwab J, Mankin H, Xavier R, Hornicek FJ
J Orthop Res. 2010;28(6):746-52 - PMID: 20041488 - DOI: 10.1002/jor.21055

Virus-plus-susceptibility gene interaction determines Crohn's disease gene Atg16L1 phenotypes in intestine.

Cadwell K, Patel KK, Maloney NS, Liu TC, Ng AC, Storer CE, Head RD, Xavier R, Stappenbeck TS, Virgin HW
Cell. 2010;141(7):1135-45 - PMID: 20602997 - PMCID: PMC2908380 - DOI: 10.1016/j.cell.2010.05.009

Caspase 8 inhibits programmed necrosis by processing CYLD.

O'Donnell MA, Perez-Jimenez E, Oberst A, Ng A, Massoumi R, Xavier R, Green DR, Ting AT
Nat Cell Biol. 2011;13(12):1437-42 - PMID: 22037414 - PMCID: PMC3229661 - DOI: 10.1038/ncb2362

Control of NOD2 and Rip2-dependent innate immune activation by GEF-H1.

Zhao Y, Alonso C, Ballester I, Song JH, Chang SY, Guleng B, Arihiro S, Murray PJ, Xavier R, Kobayashi KS, Reinecker HC
Inflamm Bowel Dis. 2011;18(4):603-12 - PMID: 21887730 - PMCID: PMC3594873 - DOI: 10.1002/ibd.21851

Tribbles 2 (Trib2) is a novel regulator of toll-like receptor 5 signaling.

Wei SC, Rosenberg IM, Cao Z, Huett AS, Xavier RJ, Podolsky DK
Inflamm Bowel Dis. 2012;18(5):877-88 - PMID: 22271508 - PMCID: PMC3881418 - DOI: 10.1002/ibd.22883

Nondegradative Role of Atg5-Atg12/ Atg16L1 Autophagy Protein Complex in Antiviral Activity of Interferon Gamma.

Hwang S, Maloney NS, Bruinsma MW, Goel G, Duan E, Zhang L, Shrestha B, Diamond MS, Dani A, Sosnovtsev SV, Green KY, Lopez-Otin C, Xavier RJ, Thackray LB, Virgin HW
Cell Host Microbe. 2012;11(4):397-409 - PMID: 22520467 - PMCID: PMC3348177 - DOI: 10.1016/j.chom.2012.03.002

Identification of novel inhibitors of M. tuberculosis growth using whole cell based high-throughput screening.

Stanley SA, Schmidt Grant S, Kawate T, Iwase N, Shimizu M, Wivagg C, Silvis M, Kazyanskaya E, Aquadro J, Golas A, Fitzgerald M, Dai H, Zhang L, Hung DT
ACS Chem Biol. 2012;7(8):1377-84 - PMID: 22577943 - PMCID: PMC3560293 - DOI: 10.1021/cb300151m

Transient expression assays for quantifying signaling output.

Niu Y, Sheen J
Methods Mol Biol. 2012;876:195-206 - PMID: 22576097 - DOI: 10.1007/978-1-61779-809-2_16

Unequal crossing-over associated with asymmetrical synapsis between nomadic elements in the Drosophila melanogaster genome.

Goldberg ML, Sheen JY, Gehring WJ, Green MM
Proc Natl Acad Sci U S A. 1983;80(16):5017-21 - PMID: 16593354 - PMCID: PMC384179

Differential expression of the ribulose bisphosphate carboxylase large subunit gene in bundle sheath and mesophyll cells of developing maize leaves is influenced by light.

Sheen JY, Bogorad L
Plant Physiol. 1985;79(4):1072-6 - PMID: 16664532 - PMCID: PMC1075029

Expression of the ribulose-1,5-bisphosphate carboxylase large subunit gene and three small subunit genes in two cell types of maize leaves.

Sheen JY, Bogorad L
EMBO J. 1986;5(13):3417-22 - PMID: 16453739 - PMCID: PMC1167374

Differential Expression in Bundle Sheath and Mesophyll Cells of Maize of Genes for Photosystem II Components Encoded by the Plastid Genome.

Sheen JY, Bogorad L
Plant Physiol. 1988;86(4):1020-6 - PMID: 16666025 - PMCID: PMC1054621

Analysis of Arabidopsis glucose insensitive mutants, gin5 and gin6, reveals a central role of the plant hormone ABA in the regulation of plant vegetative development by sugar.

Arenas-Huertero F, Arroyo A, Zhou L, Sheen J, León P
Genes Dev. 2000;14(16):2085-96 - PMID: 10950871 - PMCID: PMC316855

Fumonisin B1-induced cell death in arabidopsis protoplasts requires jasmonate-, ethylene-, and salicylate-dependent signaling pathways.

Asai T, Stone JM, Heard JE, Kovtun Y, Yorgey P, Sheen J, Ausubel FM
Plant Cell. 2000;12(10):1823-36 - PMID: 11041879 - PMCID: PMC149122

The role of hexokinase in plant sugar signal transduction and growth and development.

Xiao W, Sheen J, Jang JC
Plant Mol Biol. 2000;44(4):451-61 - PMID: 11197321

Mesophyll-specific, light and metabolic regulation of the C4 PPCZm1 promoter in transgenic maize.

Kausch AP, Owen TP, Zachwieja SJ, Flynn AR, Sheen J
Plant Mol Biol. 2001;45(1):1-15 - PMID: 11247600

Isotopic assays for reporter gene activity.

Kingston RE, Sheen J, Moore D
Curr Protoc Pharmacol. 2001;Chapter 6:Unit 6.4 - PMID: 21965075 - DOI: 10.1002/0471141755.ph0604s05

Molecular identification of phenylalanine ammonia-lyase as a substrate of a specific constitutively active Arabidopsis CDPK expressed in maize protoplasts.

Cheng SH, Sheen J, Gerrish C, Bolwell GP
FEBS Lett. 2001;503(2-3):185-8 - PMID: 11513879

Two-component circuitry in Arabidopsis cytokinin signal transduction.

Hwang I, Sheen J
Nature. 2001;413(6854):383-9 - PMID: 11574878 - DOI: 10.1038/35096500

Dissection of abscisic acid signal transduction pathways in barley aleurone layers.

Shen Q, Gomez-Cadenas A, Zhang P, Walker-Simmons MK, Sheen J, Ho TH
Plant Mol Biol. 2001;47(3):437-48 - PMID: 11587514

Plant mitogen-activated protein kinase signaling cascades.

Tena G, Asai T, Chiu WL, Sheen J
Curr Opin Plant Biol. 2001;4(5):392-400 - PMID: 11597496

Signal transduction in maize and Arabidopsis mesophyll protoplasts.

Sheen J
Plant Physiol. 2001;127(4):1466-75 - PMID: 11743090 - PMCID: PMC1540179

MAP kinase signalling cascade in Arabidopsis innate immunity.

Asai T, Tena G, Plotnikova J, Willmann MR, Chiu WL, Gomez-Gomez L, Boller T, Ausubel FM, Sheen J
Nature. 2002;415(6875):977-83 - PMID: 11875555 - DOI: 10.1038/415977a

Phosphorelay and transcription control in cytokinin signal transduction.

Sheen J
Science. 2002;296(5573):1650-2 - PMID: 12040183 - DOI: 10.1126/science.1071883

Sugar sensing and signaling in plants.

Rolland F, Moore B, Sheen J
Plant Cell. 2002;14 Suppl:S185-205 - PMID: 12045277 - PMCID: PMC151255

Calcium signaling through protein kinases. The Arabidopsis calcium-dependent protein kinase gene family.

Cheng SH, Willmann MR, Chen HC, Sheen J
Plant Physiol. 2002;129(2):469-85 - PMID: 12068094 - PMCID: PMC1540234 - DOI: 10.1104/pp.005645

Two-component signal transduction pathways in Arabidopsis.

Hwang I, Chen HC, Sheen J
Plant Physiol. 2002;129(2):500-15 - PMID: 12068096 - PMCID: PMC161668 - DOI: 10.1104/pp.005504

A unique short-chain dehydrogenase/reductase in Arabidopsis glucose signaling and abscisic acid biosynthesis and functions.

Cheng WH, Endo A, Zhou L, Penney J, Chen HC, Arroyo A, Leon P, Nambara E, Asami T, Seo M, Koshiba T, Sheen J
Plant Cell. 2002;14(11):2723-43 - PMID: 12417697 - PMCID: PMC152723

Sugar and hormone connections.

León P, Sheen J
Trends Plant Sci. 2003;8(3):110-6 - PMID: 12663220 - DOI: 10.1016/S1360-1385(03)00011-6

Role of the Arabidopsis glucose sensor HXK1 in nutrient, light, and hormonal signaling.

Moore B, Zhou L, Rolland F, Hall Q, Cheng WH, Liu YX, Hwang I, Jones T, Sheen J
Science. 2003;300(5617):332-6 - PMID: 12690200 - DOI: 10.1126/science.1080585

Differential regulation of EIN3 stability by glucose and ethylene signalling in plants.

Yanagisawa S, Yoo SD, Sheen J
Nature. 2003;425(6957):521-5 - PMID: 14523448 - DOI: 10.1038/nature01984

Expression of an active tobacco mitogen-activated protein kinase kinase kinase enhances freezing tolerance in transgenic maize.

Shou H, Bordallo P, Fan JB, Yeakley JM, Bibikova M, Sheen J, Wang K
Proc Natl Acad Sci U S A. 2004;101(9):3298-303 - PMID: 14960727 - PMCID: PMC365784 - DOI: 10.1073/pnas.0308095100

C4 GENE EXPRESSION.

Sheen J
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Sugar sensing and signalling networks in plants.

Rolland F, Sheen J
Biochem Soc Trans. 2005;33(Pt 1):269-71 - PMID: 15667323 - DOI: 10.1042/BST0330269

Ancient signals: comparative genomics of plant MAPK and MAPKK gene families.

Hamel LP, Nicole MC, Sritubtim S, Morency MJ, Ellis M, Ehlting J, Beaudoin N, Barbazuk B, Klessig D, Lee J, Martin G, Mundy J, Ohashi Y, Scheel D, Sheen J, Xing T, Zhang S, Seguin A, Ellis BE
Trends Plant Sci. 2006;11(4):192-8 - PMID: 16537113 - DOI: 10.1016/j.tplants.2006.02.007

Sugar sensing and signaling in plants: conserved and novel mechanisms.

Rolland F, Baena-Gonzalez E, Sheen J
Annu Rev Plant Biol. 2006;57:675-709 - PMID: 16669778 - DOI: 10.1146/annurev.arplant.57.032905.105441

Specific bacterial suppressors of MAMP signaling upstream of MAPKKK in Arabidopsis innate immunity.

He P, Shan L, Lin NC, Martin GB, Kemmerling B, Nürnberger T, Sheen J
Cell. 2006;125(3):563-75 - PMID: 16678099 - DOI: 10.1016/j.cell.2006.02.047

Regulatory functions of nuclear hexokinase1 complex in glucose signaling.

Cho YH, Yoo SD, Sheen J
Cell. 2006;127(3):579-89 - PMID: 17081979 - DOI: 10.1016/j.cell.2006.09.028

The use of protoplasts to study innate immune responses.

He P, Shan L, Sheen J
Methods Mol Biol. 2006;354:1-9 - PMID: 17172739 - DOI: 10.1385/1-59259-966-4:1

Glucose signaling through nuclear hexokinase1 complex in Arabidopsis.

Cho YH, Yoo SD, Sheen J
Plant Signal Behav. 2007;2(2):123-4 - PMID: 19704756 - PMCID: PMC2633915

Nuclear actions in innate immune signaling.

Sheen J, He P
Cell. 2007;128(5):821-3 - PMID: 17350565 - DOI: 10.1016/j.cell.2007.02.019

Elicitation and suppression of microbe-associated molecular pattern-triggered immunity in plant-microbe interactions.

He P, Shan L, Sheen J
Cell Microbiol. 2007;9(6):1385-96 - PMID: 17451411 - DOI: 10.1111/j.1462-5822.2007.00944.x

Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis.

Yoo SD, Cho YH, Sheen J
Nat Protoc. 2007;2(7):1565-72 - PMID: 17585298 - DOI: 10.1038/nprot.2007.199

A central integrator of transcription networks in plant stress and energy signalling.

Baena-González E, Rolland F, Thevelein JM, Sheen J
Nature. 2007;448(7156):938-42 - PMID: 17671505 - DOI: 10.1038/nature06069

The N-terminal region of Pseudomonas type III effector AvrPtoB elicits Pto-dependent immunity and has two distinct virulence determinants.

Xiao F, He P, Abramovitch RB, Dawson JE, Nicholson LK, Sheen J, Martin GB
Plant J. 2007;52(4):595-614 - PMID: 17764515 - PMCID: PMC2265002 - DOI: 10.1111/j.1365-313X.2007.03259.x

Advances in cytokinin signaling.

Müller B, Sheen J
Science. 2007;318(5847):68-9 - PMID: 17916725 - DOI: 10.1126/science.1145461

Cytokinin signaling pathway.

Müller B, Sheen J
Sci STKE. 2007;2007(407):cm4 - PMID: 17925575 - DOI: 10.1126/stke.4072007cm4

Arabidopsis cytokinin signaling pathway.

Müller B, Sheen J
Sci STKE. 2007;2007(407):cm5 - PMID: 17925576 - DOI: 10.1126/stke.4072007cm5

Intercepting host MAPK signaling cascades by bacterial type III effectors.

Shan L, He P, Sheen J
Cell Host Microbe. 2007;1(3):167-74 - PMID: 18005696 - DOI: 10.1016/j.chom.2007.04.008

Pseudomonas syringae type III effector AvrRpt2 alters Arabidopsis thaliana auxin physiology.

Chen Z, Agnew JL, Cohen JD, He P, Shan L, Sheen J, Kunkel BN
Proc Natl Acad Sci U S A. 2007;104(50):20131-6 - PMID: 18056646 - PMCID: PMC2148434 - DOI: 10.1073/pnas.0704901104

Sugar sensing and signaling.

Ramon M, Rolland F, Sheen J
Arabidopsis Book. 2008;6:e0117 - PMID: 22303242 - PMCID: PMC3243355 - DOI: 10.1199/tab.0117

Introduction of plasmid DNA into cells.

Seidman CE, Struhl K, Sheen J, Jessen T
Curr Protoc Mol Biol. 2001;Chapter 1:Unit1.8 - PMID: 18265047 - DOI: 10.1002/0471142727.mb0108s37

Isotopic assays for reporter gene activity.

Kingston RE, Sheen J, Moore D
Curr Protoc Mol Biol. 2001;Chapter 9:Unit9.7A - PMID: 18265285 - DOI: 10.1002/0471142727.mb0907as29

Dual control of nuclear EIN3 by bifurcate MAPK cascades in C2H4 signalling.

Yoo SD, Cho YH, Tena G, Xiong Y, Sheen J
Nature. 2008;451(7180):789-95 - PMID: 18273012 - PMCID: PMC3488589 - DOI: 10.1038/nature06543

Cytokinin and auxin interaction in root stem-cell specification during early embryogenesis.

Müller B, Sheen J
Nature. 2008;453(7198):1094-7 - PMID: 18463635 - PMCID: PMC2601652 - DOI: 10.1038/nature06943

Expression and evolutionary features of the hexokinase gene family in Arabidopsis.

Karve A, Rauh BL, Xia X, Kandasamy M, Meagher RB, Sheen J, Moore BD
Planta. 2008;228(3):411-25 - PMID: 18481082 - PMCID: PMC2953952 - DOI: 10.1007/s00425-008-0746-9

Bacterial effectors target the common signaling partner BAK1 to disrupt multiple MAMP receptor-signaling complexes and impede plant immunity.

Shan L, He P, Li J, Heese A, Peck SC, Nürnberger T, Martin GB, Sheen J
Cell Host Microbe. 2008;4(1):17-27 - PMID: 18621007 - PMCID: PMC2830012 - DOI: 10.1016/j.chom.2008.05.017

Convergent energy and stress signaling.

Baena-González E, Sheen J
Trends Plant Sci. 2008;13(9):474-82 - PMID: 18701338 - PMCID: PMC3075853 - DOI: 10.1016/j.tplants.2008.06.006

Emerging connections in the ethylene signaling network.

Yoo SD, Cho Y, Sheen J
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Prospects for plant-derived antibacterials.

Lewis K, Ausubel FM
Nat Biotechnol. 2006;24(12):1504-7 - PMID: 17160050 - DOI: 10.1038/nbt1206-1504

Conjugating berberine to a multidrug efflux pump inhibitor creates an effective antimicrobial.

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Discs-large homolog 1 regulates smooth muscle orientation in the mouse ureter.

Mahoney ZX, Sammut B, Xavier RJ, Cunningham J, Go G, Brim KL, Stappenbeck TS, Miner JH, Swat W
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The bacterial two-hybrid system as a reporter system for analyzing protein-protein interactions.

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Risk factors for coronary artery disease in patients with elevated high-density lipoprotein cholesterol.

DeFaria Yeh D, Freeman MW, Meigs JB, Grant RW
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A microfluidic device for practical label-free CD4(+) T cell counting of HIV-infected subjects.

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Antifungal chemical compounds identified using a C. elegans pathogenicity assay.

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Virstatin inhibits dimerization of the transcriptional activator ToxT.

Shakhnovich EA, Hung DT, Pierson E, Lee K, Mekalanos JJ
Proc Natl Acad Sci U S A. 2007;104(7):2372-7 - PMID: 17283330 - PMCID: PMC1892951 - DOI: 10.1073/pnas.0611643104

Retinol-binding protein 4 is associated with insulin resistance and body fat distribution in nonobese subjects without type 2 diabetes.

Gavi S, Stuart LM, Kelly P, Melendez MM, Mynarcik DC, Gelato MC, McNurlan MA
J Clin Endocrinol Metab. 2007;92(5):1886-90 - PMID: 17299074 - DOI: 10.1210/jc.2006-1815

Genetic etiology of isolated low HDL syndrome: incidence and heterogeneity of efflux defects.

Kiss RS, Kavaslar N, Okuhira K, Freeman MW, Walter S, Milne RW, McPherson R, Marcel YL
Arterioscler Thromb Vasc Biol. 2007;27(5):1139-45 - PMID: 17303779 - DOI: 10.1161/ATVBAHA.106.137646

2',3'-Dideoxy-3'-thionucleoside triphosphates: syntheses and polymerase substrate activities.

Meena , Sam M, Pierce K, Szostak JW, McLaughlin LW
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Standard operating procedures for the clinical management of patients enrolled in a prospective study of Inflammation and the Host Response to Thermal Injury.

Silver GM, Klein MB, Herndon DN, Gamelli RL, Gibran NS, Altstein L, McDonald-Smith GP, Tompkins RG, Hunt JL,
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Misexpression of the Caenorhabditis elegans miRNA let-7 is sufficient to drive developmental programs.

Hayes GD, Ruvkun G
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Resistance to Botrytis cinerea induced in Arabidopsis by elicitors is independent of salicylic acid, ethylene, or jasmonate signaling but requires PHYTOALEXIN DEFICIENT3.

Ferrari S, Galletti R, Denoux C, De Lorenzo G, Ausubel FM, Dewdney J
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Standardized reagents and protocols for engineering zinc finger nucleases by modular assembly.

Wright DA, Thibodeau-Beganny S, Sander JD, Winfrey RJ, Hirsh AS, Eichtinger M, Fu F, Porteus MH, Dobbs D, Voytas DF, Joung JK
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PLoS Genet. 2007;3(4):e56 - PMID: 17411345 - PMCID: PMC1847696 - DOI: 10.1371/journal.pgen.0030056

The practice of venous thromboembolism prophylaxis in the major trauma patient.

Nathens AB, McMurray MK, Cuschieri J, Durr EA, Moore EE, Bankey PE, Freeman B, Harbrecht BG, Johnson JL, Minei JP, McKinley BA, Moore FA, Shapiro MB, West MA, Tompkins RG, Maier RV
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The association between fluid administration and outcome following major burn: a multicenter study.

Klein MB, Hayden D, Elson C, Nathens AB, Gamelli RL, Gibran NS, Herndon DN, Arnoldo B, Silver G, Schoenfeld D, Tompkins RG
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A microchip approach for practical label-free CD4+ T-cell counting of HIV-infected subjects in resource-poor settings.

Cheng X, Irimia D, Dixon M, Ziperstein JC, Demirci U, Zamir L, Tompkins RG, Toner M, Rodriguez WR
J Acquir Immune Defic Syndr. 2007;45(3):257-61 - PMID: 17414933 - DOI: 10.1097/QAI.0b013e3180500303

Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis.

Rioux JD, Xavier RJ, Taylor KD, Silverberg MS, Goyette P, Huett A, Green T, Kuballa P, Barmada MM, Datta LW, Shugart YY, Griffiths AM, Targan SR, Ippoliti AF, Bernard EJ, Mei L, Nicolae DL, Regueiro M, Schumm LP, Steinhart AH, Rotter JI, Duerr RH, Cho JH, Daly MJ, Brant SR
Nat Genet. 2007;39(5):596-604 - PMID: 17435756 - PMCID: PMC2757939 - DOI: 10.1038/ng2032

Staphylococcal biofilm exopolysaccharide protects against Caenorhabditis elegans immune defenses.

Begun J, Gaiani JM, Rohde H, Mack D, Calderwood SB, Ausubel FM, Sifri CD
PLoS Pathog. 2007;3(4):e57 - PMID: 17447841 - PMCID: PMC1853117 - DOI: 10.1371/journal.ppat.0030057

Molecular pathogenesis of inflammatory bowel disease: genotypes, phenotypes and personalized medicine.

Goyette P, Labbé C, Trinh TT, Xavier RJ, Rioux JD
Ann Med. 2007;39(3):177-99 - PMID: 17457716 - DOI: 10.1080/07853890701197615

Functional information and the emergence of biocomplexity.

Hazen RM, Griffin PL, Carothers JM, Szostak JW
Proc Natl Acad Sci U S A. 2007;104 Suppl 1:8574-81 - PMID: 17494745 - PMCID: PMC1876432 - DOI: 10.1073/pnas.0701744104

Structural insights into the evolution of a non-biological protein: importance of surface residues in protein fold optimization.

Smith MD, Rosenow MA, Wang M, Allen JP, Szostak JW, Chaput JC
PLoS One. 2007;2(5):e467 - PMID: 17520026 - PMCID: PMC1867856 - DOI: 10.1371/journal.pone.0000467

Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool.

Sander JD, Zaback P, Joung JK, Voytas DF, Dobbs D
Nucleic Acids Res. 2007;35(Web Server issue):W599-605 - PMID: 17526515 - PMCID: PMC1933188 - DOI: 10.1093/nar/gkm349

Characterization of the integrated filamentous phage Pf5 and its involvement in small-colony formation.

Mooij MJ, Drenkard E, Llamas MA, Vandenbroucke-Grauls CM, Savelkoul PH, Ausubel FM, Bitter W
Microbiology. 2007;153(Pt 6):1790-8 - PMID: 17526836 - PMCID: PMC3820363 - DOI: 10.1099/mic.0.2006/003533-0

Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method.

Meng X, Thibodeau-Beganny S, Jiang T, Joung JK, Wolfe SA
Nucleic Acids Res. 2007;35(11):e81 - PMID: 17537811 - PMCID: PMC1920264 - DOI: 10.1093/nar/gkm385

General strategy for decoration of enveloped viruses with functionally active lipid-modified cytokines.

Kueng HJ, Leb VM, Haiderer D, Raposo G, Thery C, Derdak SV, Schmetterer KG, Neunkirchner A, Sillaber C, Seed B, Pickl WF
J Virol. 2007;81(16):8666-76 - PMID: 17537846 - PMCID: PMC1951353 - DOI: 10.1128/JVI.00682-07

L-arginine attenuates acute lung injury after smoke inhalation and burn injury in sheep.

Murakami K, Enkhbaatar P, Yu YM, Traber LD, Cox RA, Hawkins HK, Tompkins RG, Herndon D, Traber DL
Shock. 2007;28(4):477-83 - PMID: 17558346 - DOI: 10.1097/shk.0b013e31804a59bd

Structure and evolutionary analysis of a non-biological ATP-binding protein.

Mansy SS, Zhang J, Kümmerle R, Nilsson M, Chou JJ, Szostak JW, Chaput JC
J Mol Biol. 2007;371(2):501-13 - PMID: 17583732 - DOI: 10.1016/j.jmb.2007.05.062

BifA, a cyclic-Di-GMP phosphodiesterase, inversely regulates biofilm formation and swarming motility by Pseudomonas aeruginosa PA14.

Kuchma SL, Brothers KM, Merritt JH, Liberati NT, Ausubel FM, O'Toole GA
J Bacteriol. 2007;189(22):8165-78 - PMID: 17586641 - PMCID: PMC2168662 - DOI: 10.1128/JB.00586-07

CD36 signals to the actin cytoskeleton and regulates microglial migration via a p130Cas complex.

Stuart LM, Bell SA, Stewart CR, Silver JM, Richard J, Goss JL, Tseng AA, Zhang A, El Khoury JB, Moore KJ
J Biol Chem. 2007;282(37):27392-401 - PMID: 17623670 - DOI: 10.1074/jbc.M702887200

Unravelling the pathogenesis of inflammatory bowel disease.

Xavier RJ, Podolsky DK
Nature. 2007;448(7152):427-34 - PMID: 17653185 - DOI: 10.1038/nature06005

Exploiting amoeboid and non-vertebrate animal model systems to study the virulence of human pathogenic fungi.

Mylonakis E, Casadevall A, Ausubel FM
PLoS Pathog. 2007;3(7):e101 - PMID: 17676994 - PMCID: PMC1933451 - DOI: 10.1371/journal.ppat.0030101

Selection and evolution of enzymes from a partially randomized non-catalytic scaffold.

Seelig B, Szostak JW
Nature. 2007;448(7155):828-31 - PMID: 17700701 - PMCID: PMC4476047 - DOI: 10.1038/nature06032

Targeting virulence: a new paradigm for antimicrobial therapy.

Clatworthy AE, Pierson E, Hung DT
Nat Chem Biol. 2007;3(9):541-8 - PMID: 17710100 - DOI: 10.1038/nchembio.2007.24

Gravity force transduced by the MEC-4/MEC-10 DEG/ENaC channel modulates DAF-16/FoxO activity in Caenorhabditis elegans.

Kim N, Dempsey CM, Kuan CJ, Zoval JV, O'Rourke E, Ruvkun G, Madou MJ, Sze JY
Genetics. 2007;177(2):835-45 - PMID: 17720915 - PMCID: PMC2034647 - DOI: 10.1534/genetics.107.076901

Enzymatic synthesis of DNA on glycerol nucleic acid templates without stable duplex formation between product and template.

Tsai CH, Chen J, Szostak JW
Proc Natl Acad Sci U S A. 2007;104(37):14598-603 - PMID: 17785419 - PMCID: PMC1976233 - DOI: 10.1073/pnas.0704211104

AKAP13, a RhoA GTPase-specific guanine exchange factor, is a novel regulator of TLR2 signaling.

Shibolet O, Giallourakis C, Rosenberg I, Mueller T, Xavier RJ, Podolsky DK
J Biol Chem. 2007;282(48):35308-17 - PMID: 17878165 - DOI: 10.1074/jbc.M704426200

An expanded set of amino acid analogs for the ribosomal translation of unnatural peptides.

Hartman MC, Josephson K, Lin CW, Szostak JW
PLoS One. 2007;2(10):e972 - PMID: 17912351 - PMCID: PMC1989143 - DOI: 10.1371/journal.pone.0000972

American Burn Association consensus conference to define sepsis and infection in burns.

Greenhalgh DG, Saffle JR, Holmes JH, Gamelli RL, Palmieri TL, Horton JW, Tompkins RG, Traber DL, Mozingo DW, Deitch EA, Goodwin CW, Herndon DN, Gallagher JJ, Sanford AP, Jeng JC, Ahrenholz DH, Neely AN, O'Mara MS, Wolf SE, Purdue GF, Garner WL, Yowler CJ, Latenser BA,
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Inhibitors of pathogen intercellular signals as selective anti-infective compounds.

Lesic B, Lépine F, Déziel E, Zhang J, Zhang Q, Padfield K, Castonguay MH, Milot S, Stachel S, Tzika AA, Tompkins RG, Rahme LG
PLoS Pathog. 2007;3(9):1229-39 - PMID: 17941706 - PMCID: PMC2323289 - DOI: 10.1371/journal.ppat.0030126

DLG1 is an anchor for the E3 ligase MARCH2 at sites of cell-cell contact.

Cao Z, Huett A, Kuballa P, Giallourakis C, Xavier RJ
Cell Signal. 2007;20(1):73-82 - PMID: 17980554 - PMCID: PMC2257480 - DOI: 10.1016/j.cellsig.2007.08.019

Gene activities that mediate increased life span of C. elegans insulin-like signaling mutants.

Samuelson AV, Carr CE, Ruvkun G
Genes Dev. 2007;21(22):2976-94 - PMID: 18006689 - PMCID: PMC2049198 - DOI: 10.1101/gad.1588907

A whole-genome RNAi Screen for C. elegans miRNA pathway genes.

Parry DH, Xu J, Ruvkun G
Curr Biol. 2007;17(23):2013-22 - PMID: 18023351 - PMCID: PMC2211719 - DOI: 10.1016/j.cub.2007.10.058

Continuous inertial focusing, ordering, and separation of particles in microchannels.

Di Carlo D, Irimia D, Tompkins RG, Toner M
Proc Natl Acad Sci U S A. 2007;104(48):18892-7 - PMID: 18025477 - PMCID: PMC2141878 - DOI: 10.1073/pnas.0704958104

DNA-binding specificity is a major determinant of the activity and toxicity of zinc-finger nucleases.

Cornu TI, Thibodeau-Beganny S, Guhl E, Alwin S, Eichtinger M, Joung JK, Joung JK, Cathomen T
Mol Ther. 2007;16(2):352-8 - PMID: 18026168 - DOI: 10.1038/sj.mt.6300357

Molecular and functional analysis of the antigen receptor of Art v 1-specific helper T lymphocytes.

Leb VM, Jahn-Schmid B, Schmetterer KG, Kueng HJ, Haiderer D, Neunkirchner A, Fischer GF, Nissler K, Hartl A, Thalhamer J, Bohle B, Seed B, Pickl WF
J Allergy Clin Immunol. 2007;121(1):64-71 - PMID: 18037161 - DOI: 10.1016/j.jaci.2007.10.006

Miniprimer PCR, a new lens for viewing the microbial world.

Isenbarger TA, Finney M, Ríos-Velázquez C, Handelsman J, Ruvkun G
Appl Environ Microbiol. 2007;74(3):840-9 - PMID: 18083877 - PMCID: PMC2227730 - DOI: 10.1128/AEM.01933-07

Isolation of rare circulating tumour cells in cancer patients by microchip technology.

Nagrath S, Sequist LV, Maheswaran S, Bell DW, Irimia D, Ulkus L, Smith MR, Kwak EL, Digumarthy S, Muzikansky A, Ryan P, Balis UJ, Tompkins RG, Haber DA, Toner M
Nature. 2007;450(7173):1235-9 - PMID: 18097410 - PMCID: PMC3090667 - DOI: 10.1038/nature06385

Involvement of skeletal muscle gene regulatory network in susceptibility to wound infection following trauma.

Apidianakis Y, Mindrinos MN, Xiao W, Tegos GP, Papisov MI, Hamblin MR, Davis RW, Tompkins RG, Rahme LG
PLoS One. 2007;2(12):e1356 - PMID: 18159239 - PMCID: PMC2131783 - DOI: 10.1371/journal.pone.0001356

Targeting Innate Immunity for CV Benefit.

Moore KJ, Freeman MW
Drug Discov Today Ther Strateg. 2011;5(1):15-23 - PMID: 19430537 - PMCID: PMC2678718 - DOI: 10.1016/j.ddstr.2008.05.007

IL-22 ameliorates intestinal inflammation in a mouse model of ulcerative colitis.

Sugimoto K, Ogawa A, Mizoguchi E, Shimomura Y, Andoh A, Bhan AK, Blumberg RS, Xavier RJ, Mizoguchi A
J Clin Invest. 2008;118(2):534-44 - PMID: 18172556 - PMCID: PMC2157567 - DOI: 10.1172/JCI33194

Mannose-binding lectin enhances Toll-like receptors 2 and 6 signaling from the phagosome.

Ip WK, Takahashi K, Moore KJ, Stuart LM, Ezekowitz RA
J Exp Med. 2008;205(1):169-81 - PMID: 18180310 - PMCID: PMC2234382 - DOI: 10.1084/jem.20071164

MicroRNA-183 family conservation and ciliated neurosensory organ expression.

Pierce ML, Weston MD, Fritzsch B, Gabel HW, Ruvkun G, Soukup GA
Evol Dev. 2008;10(1):106-13 - PMID: 18184361 - PMCID: PMC2637451 - DOI: 10.1111/j.1525-142X.2007.00217.x

Identification of host proteins required for HIV infection through a functional genomic screen.

Brass AL, Dykxhoorn DM, Benita Y, Yan N, Engelman A, Xavier RJ, Lieberman J, Elledge SJ
Science. 2008;319(5865):921-6 - PMID: 18187620 - DOI: 10.1126/science.1152725

Defective signal transduction in B lymphocytes lacking presenilin proteins.

Yagi T, Giallourakis C, Mohanty S, Scheidig C, Shen J, Zheng H, Xavier RJ, Shaw AC
Proc Natl Acad Sci U S A. 2008;105(3):979-84 - PMID: 18195359 - PMCID: PMC2242696 - DOI: 10.1073/pnas.0707755105

Reduced rate of adenosine triphosphate synthesis by in vivo 31P nuclear magnetic resonance spectroscopy and downregulation of PGC-1beta in distal skeletal muscle following burn.

Tzika AA, Mintzopoulos D, Padfield K, Wilhelmy J, Mindrinos MN, Yu H, Cao H, Zhang Q, Astrakas LG, Zhang J, Yu YM, Rahme LG, Tompkins RG
Int J Mol Med. 2008;21(2):201-8 - PMID: 18204786

Phagocytosis and comparative innate immunity: learning on the fly.

Stuart LM, Ezekowitz RA
Nat Rev Immunol. 2008;8(2):131-41 - PMID: 18219310 - DOI: 10.1038/nri2240

Silanizing glassware.

Seed B
Curr Protoc Cell Biol. 2001;Appendix 3:Appendix 3E - PMID: 18228287 - DOI: 10.1002/0471143030.cba03es08

Influence of age on the association of retinol-binding protein 4 with metabolic syndrome.

Gavi S, Qurashi S, Stuart LM, Lau R, Melendez MM, Mynarcik DC, McNurlan MA, Gelato MC
Obesity (Silver Spring). 2008;16(4):893-5 - PMID: 18239568 - DOI: 10.1038/oby.2007.138

Invention, innovation, entrepreneurship in academic medical centers.

Toner M, Tompkins RG
Surgery. 2008;143(2):168-71 - PMID: 18242329 - PMCID: PMC2408552 - DOI: 10.1016/j.surg.2007.11.004

DAF-16-dependent suppression of immunity during reproduction in Caenorhabditis elegans.

Miyata S, Begun J, Troemel ER, Ausubel FM
Genetics. 2008;178(2):903-18 - PMID: 18245330 - PMCID: PMC2248360 - DOI: 10.1534/genetics.107.083923

Silanizing glassware.

Seed B
Curr Protoc Mol Biol. 2001;Appendix 3:Appendix 3B - PMID: 18265032 - DOI: 10.1002/0471142727.mba03bs28 </