Publications

High-density lipoprotein-mediated cholesterol efflux capacity is improved by treatment with antiretroviral therapy in acute human immunodeficiency virus infection.

Lo J, Rosenberg ES, Fitzgerald ML, Bazner SB, Ihenachor EJ, Hawxhurst V, Borkowska AH, Wei J, Zimmerman CO, Burdo TH, Williams KC, Freeman MW, Grinspoon SK
Open Forum Infect Dis. 2014;1(3):ofu108 - PMID: 25734176 - PMCID: PMC4324225

Complex host genetics influence the microbiome in inflammatory bowel disease.

Knights D, Silverberg MS, Weersma RK, Gevers D, Dijkstra G, Huang H, Tyler AD, van Sommeren S, Imhann F, Stempak JM, Huang H, Vangay P, Al-Ghalith GA, Russell C, Sauk J, Knight J, Daly MJ, Huttenhower C, Xavier RJ
Genome Med. 2014;6(12):107 - PMID: 25587358 - PMCID: PMC4292994

Morbidity and Survival Probability in Burn Patients in Modern Burn Care.

Jeschke MG, Pinto R, Kraft R, Nathens AB, Finnerty CC, Gamelli RL, Gibran NS, Klein MB, Arnoldo BD, Tompkins RG, Herndon DN,
Crit Care Med. 2014;43(4):808-15 - PMID: 25559438 - PMCID: PMC4359665

Toddler: an embryonic signal that promotes cell movement via Apelin receptors.

Pauli A, Norris ML, Valen E, Chew GL, Gagnon JA, Zimmerman S, Mitchell A, Ma J, Dubrulle J, Reyon D, Tsai SQ, Joung JK, Saghatelian A, Schier AF
Science. 2014;343(6172):1248636 - PMID: 24407481 - PMCID: PMC4107353

Improving CRISPR-Cas nuclease specificity using truncated guide RNAs.

Fu Y, Sander JD, Reyon D, Cascio VM, Joung JK
Nat Biotechnol. 2014;32(3):279-84 - PMID: 24463574 - PMCID: PMC3988262

Effect of exercise on burn-induced changes in tissue-specific glucose metabolism.

Carter EA, Paul K, Bonab AA, Tompkins RG, Fischman AJ
J Burn Care Res. 2014;35(6):470-3 - PMID: 24476988 - PMCID: PMC4113562

An improved predictive recognition model for Cys(2)-His(2) zinc finger proteins.

Gupta A, Christensen RG, Bell HA, Goodwin M, Patel RY, Pandey M, Enuameh MS, Rayla AL, Zhu C, Thibodeau-Beganny S, Brodsky MH, Joung JK, Wolfe SA, Stormo GD
Nucleic Acids Res. 2014;42(8):4800-12 - PMID: 24523353 - PMCID: PMC4005693

Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity.

Guilinger JP, Pattanayak V, Reyon D, Tsai SQ, Sander JD, Joung JK, Liu DR
Nat Methods. 2014;11(4):429-35 - PMID: 24531420 - PMCID: PMC4010127

CRISPR-Cas systems for editing, regulating and targeting genomes.

Sander JD, Joung JK
Nat Biotechnol. 2014;32(4):347-55 - PMID: 24584096 - PMCID: PMC4022601

Pathways disrupted in human ALS motor neurons identified through genetic correction of mutant SOD1.

Kiskinis E, Sandoe J, Williams LA, Boulting GL, Moccia R, Wainger BJ, Han S, Peng T, Thams S, Mikkilineni S, Mellin C, Merkle FT, Davis-Dusenbery BN, Ziller M, Oakley D, Ichida J, Di Costanzo S, Atwater N, Maeder ML, Goodwin MJ, Nemesh J, Handsaker RE, Paull D, Noggle S, McCarroll SA, Joung JK, Woolf CJ, Brown RH, Eggan K
Cell Stem Cell. 2014;14(6):781-95 - PMID: 24704492 - PMCID: PMC4653065

Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing.

Tsai SQ, Wyvekens N, Khayter C, Foden JA, Thapar V, Reyon D, Goodwin MJ, Aryee MJ, Joung JK
Nat Biotechnol. 2014;32(6):569-76 - PMID: 24770325 - PMCID: PMC4090141

Targeted mutagenesis of zebrafish antithrombin III triggers disseminated intravascular coagulation and thrombosis, revealing insight into function.

Liu Y, Kretz CA, Maeder ML, Richter CE, Tsao P, Vo AH, Huarng MC, Rode T, Hu Z, Mehra R, Olson ST, Joung JK, Shavit JA
Blood. 2014;124(1):142-50 - PMID: 24782510 - PMCID: PMC4125349

What's changed with genome editing?

Tsai SQ, Joung JK
Cell Stem Cell. 2014;15(1):3-4 - PMID: 24996161

I?B kinase ? (IKBKB) mutations in lymphomas that constitutively activate canonical nuclear factor ?B (NF?B) signaling.

Kai X, Chellappa V, Donado C, Reyon D, Sekigami Y, Ataca D, Louissaint A, Mattoo H, Joung JK, Pillai S
J Biol Chem. 2014;289(39):26960-72 - PMID: 25107905 - PMCID: PMC4175336

Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage.

Hill SJ, Rolland T, Adelmant G, Xia X, Owen MS, Dricot A, Zack TI, Sahni N, Jacob Y, Hao T, McKinney KM, Clark AP, Reyon D, Tsai SQ, Joung JK, Beroukhim R, Marto JA, Vidal M, Gaudet S, Hill DE, Livingston DM
Genes Dev. 2014;28(17):1957-75 - PMID: 25184681 - PMCID: PMC4197947

Genome editing: a tool for research and therapy: towards a functional understanding of variants for molecular diagnostics using genome editing.

Tsai SQ, Iafrate AJ, Joung JK
Nat Med. 2014;20(10):1103-4 - PMID: 25295940

Cationic lipid-mediated delivery of proteins enables efficient protein-based genome editing in vitro and in vivo.

Zuris JA, Thompson DB, Shu Y, Guilinger JP, Bessen JL, Hu JH, Maeder ML, Joung JK, Chen ZY, Liu DR
Nat Biotechnol. 2014;33(1):73-80 - PMID: 25357182 - PMCID: PMC4289409

Targeted genome editing in human cells using CRISPR/Cas nucleases and truncated guide RNAs.

Fu Y, Reyon D, Joung JK
Methods Enzymol. 2014;546:21-45 - PMID: 25398334

A Zebrafish Model of Myelodysplastic Syndrome Produced Through tet2 Genomic Editing.

Gjini E, Mansour MR, Sander JD, Moritz N, Nguyen AT, Kesarsing M, Gans E, He S, Chen S, Ko M, Kuang YY, Yang S, Zhou Y, Rodig S, Zon LI, Joung JK, Rao A, Look AT
Mol Cell Biol. 2014;35(5):789-804 - PMID: 25512612 - PMCID: PMC4323485

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.

Tsai SQ, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Thapar V, Wyvekens N, Khayter C, Iafrate AJ, Le LP, Aryee MJ, Joung JK
Nat Biotechnol. 2014;33(2):187-197 - PMID: 25513782 - PMCID: PMC4320685

Fanconi Anemia Gene Editing by the CRISPR/Cas9 System.

Osborn MJ, Gabriel R, Webber BR, DeFeo AP, McElroy AN, Jarjour J, Starker CG, Wagner JE, Joung JK, Voytas DF, von Kalle C, Schmidt M, Blazar BR, Tolar J
Hum Gene Ther. 2014;26(2):114-26 - PMID: 25545896 - PMCID: PMC4326027

Mice are not men.

Warren HS, Tompkins RG, Moldawer LL, Seok J, Xu W, Mindrinos MN, Maier RV, Xiao W, Davis RW
Proc Natl Acad Sci U S A. 2014;112(4):E345 - PMID: 25540422 - PMCID: PMC4313842

Corrigendum: MXL-3 and HLH-30 transcriptionally link lipolysis and autophagy to nutrient availability.

O'Rourke EJ, Ruvkun G
Nat Cell Biol. 2014;17(1):104 - PMID: 25534088

Generation of functional RNAs from inactive oligonucleotide complexes by non-enzymatic primer extension.

Adamala K, Engelhart AE, Szostak JW
J Am Chem Soc. 2014;137(1):483-9 - PMID: 25521912 - PMCID: PMC4984999

Recovery Trajectories After Burn Injury in Young Adults: Does Burn Size Matter?

Ryan CM, Lee A, Kazis LE, Schneider JC, Shapiro GD, Sheridan RL, Meyer WJ, Palmieri T, Pidcock FS, Reilly D, Tompkins RG,
J Burn Care Res. 2014;36(1):118-29 - PMID: 25501787

Early life environment and natural history of inflammatory bowel diseases.

Guo AY, Stevens BW, Wilson RG, Russell CN, Cohen MA, Sturgeon HC, Thornton A, Giallourakis C, Khalili H, Nguyen DD, Sauk J, Yajnik V, Xavier RJ, Ananthakrishnan AN
BMC Gastroenterol. 2014;14(1):216 - PMID: 25510175 - PMCID: PMC4300207

Pathogens.

Govindan JA, Ruvkun G
Virulence. 2014;5(7):695-696 - PMID: 25513769 - PMCID: PMC4189874

Spontaneous Neutrophil Migration Patterns during Sepsis after Major Burns.

Jones CN, Moore M, Dimisko L, Alexander A, Ibrahim A, Hassell BA, Warren HS, Tompkins RG, Fagan SP, Irimia D
PLoS One. 2014;9(12):e114509 - PMID: 25489947 - PMCID: PMC4260850

Gene Pathways That Delay Caenorhabditis elegans Reproductive Senescence.

Wang MC, Oakley HD, Carr CE, Sowa JN, Ruvkun G
PLoS Genet. 2014;10(12):e1004752 - PMID: 25474471 - PMCID: PMC4256158

BCG-induced trained immunity in NK cells: Role for non-specific protection to infection.

Kleinnijenhuis J, Quintin J, Preijers F, Joosten LA, Jacobs C, Xavier RJ, van der Meer JW, van Crevel R, Netea MG
Clin Immunol. 2014;155(2):213-219 - PMID: 25451159 - PMCID: PMC5084088

Genetics of immune-mediated disorders: from genome-wide association to molecular mechanism.

Kumar V, Wijmenga C, Xavier RJ
Curr Opin Immunol. 2014;31C:51-57 - PMID: 25458995 - PMCID: PMC5080657

Controlled growth of filamentous fatty acid vesicles under flow.

Hentrich C, Szostak JW
Langmuir. 2014;30(49):14916-25 - PMID: 25402759 - PMCID: PMC4985002

Cas9-Based Genome Editing in Arabidopsis and Tobacco.

Li JF, Zhang D, Sheen J
Methods Enzymol. 2014;546C:459-472 - PMID: 25398353

Autophagy and checkpoints for intracellular pathogen defense.

Paulus GL, Xavier RJ
Curr Opin Gastroenterol. 2014;31(1):14-23 - PMID: 25394238 - PMCID: PMC4330559

Autophagy Controls BCG-Induced Trained Immunity and the Response to Intravesical BCG Therapy for Bladder Cancer.

Buffen K, Oosting M, Quintin J, Ng A, Kleinnijenhuis J, Kumar V, van de Vosse E, Wijmenga C, van Crevel R, Oosterwijk E, Grotenhuis AJ, Vermeulen SH, Kiemeney LA, van de Veerdonk FL, Chamilos G, Xavier RJ, van der Meer JW, Netea MG, Joosten LA
PLoS Pathog. 2014;10(10):e1004485 - PMID: 25356988 - PMCID: PMC4214925

Inertial focusing cytometer with integrated optics for particle characterization.

Kotz KT, Petrofsky AC, Haghgooie R, Granier R, Toner M, Tompkins RG
Technology (Singap World Sci). 2014;1(1):27-36 - PMID: 25346940 - PMCID: PMC4206911

Twists and turns: my career path and concerns about the future.

Ausubel FM
Genetics. 2014;198(2):431-4 - PMID: 25316778 - PMCID: PMC4196596

Chain-Length Heterogeneity Allows for the Assembly of Fatty Acid Vesicles in Dilute Solutions.

Budin I, Prwyes N, Zhang N, Szostak JW
Biophys J. 2014;107(7):1582-1590 - PMID: 25296310 - PMCID: PMC4190651

Pathogens.

Govindan JA, Ruvkun G
Virulence. 2014;5(7):ePub - PMID: 25290904 - PMCID: PMC4189874

Next-Gen Sequencing-Based Mapping and Identification of Ethyl Methanesulfonate-Induced Mutations in Arabidopsis thaliana.

Zhang XC, Millet Y, Ausubel FM, Borowsky M
Curr Protoc Mol Biol. 2014;108:7.18.1-7.18.16 - PMID: 25271717

An Image-Based Genetic Assay Identifies Genes in T1D Susceptibility Loci Controlling Cellular Antiviral Immunity in Mouse.

Liao J, Jijon HB, Kim IR, Goel G, Doan A, Sokol H, Bauer H, Herrmann BG, Lassen KG, Xavier RJ
PLoS One. 2014;9(9):e108777 - PMID: 25268627 - PMCID: PMC4182575

CRISPR-Cas9 Knockin Mice for Genome Editing and Cancer Modeling.

Platt RJ, Chen S, Zhou Y, Yim MJ, Swiech L, Kempton HR, Dahlman JE, Parnas O, Eisenhaure TM, Jovanovic M, Graham DB, Jhunjhunwala S, Heidenreich M, Xavier RJ, Langer R, Anderson DG, Hacohen N, Regev A, Feng G, Sharp PA, Zhang F
Cell. 2014;159(2):440-55 - PMID: 25263330 - PMCID: PMC4265475

mTOR- and HIF-1?-mediated aerobic glycolysis as metabolic basis for trained immunity.

Cheng SC, Quintin J, Cramer RA, Shepardson KM, Saeed S, Kumar V, Giamarellos-Bourboulis EJ, Martens JH, Rao NA, Aghajanirefah A, Manjeri GR, Li Y, Ifrim DC, Arts RJ, van der Meer BM, Deen PM, Logie C, O'Neill LA, Willems P, van de Veerdonk FL, van der Meer JW, Ng A, Joosten LA, Wijmenga C, Stunnenberg HG, Xavier RJ, Netea MG
Science. 2014;345(6204):1250684 - PMID: 25258083 - PMCID: PMC4226238

Epigenetic programming of monocyte-to-macrophage differentiation and trained innate immunity.

Saeed S, Quintin J, Kerstens HH, Rao NA, Aghajanirefah A, Matarese F, Cheng SC, Ratter J, Berentsen K, van der Ent MA, Sharifi N, Janssen-Megens EM, Ter Huurne M, Mandoli A, van Schaik T, Ng A, Burden F, Downes K, Frontini M, Kumar V, Giamarellos-Bourboulis EJ, Ouwehand WH, van der Meer JW, Joosten LA, Wijmenga C, Martens JH, Xavier RJ, Logie C, Netea MG, Stunnenberg HG
Science. 2014;345(6204):1251086 - PMID: 25258085 - PMCID: PMC4242194

Treatment of heterotopic ossification through remote ATP hydrolysis.

Peterson JR, De La Rosa S, Eboda O, Cilwa KE, Agarwal S, Buchman SR, Cederna PS, Xi C, Morris MD, Herndon DN, Xiao W, Tompkins RG, Krebsbach PH, Wang SC, Levi B
Sci Transl Med. 2014;6(255):255ra132 - PMID: 25253675 - PMCID: PMC4353731

Transmembrane adaptor protein PAG/CBP is involved in both positive and negative regulation of mast cell signaling.

Draberova L, Bugajev V, Potuckova L, Halova I, Bambouskova M, Polakovicova I, Xavier RJ, Seed B, Draber P
Mol Cell Biol. 2014;34(23):4285-300 - PMID: 25246632 - PMCID: PMC4248753

Small-molecule control of cytokine function: new opportunities for treating immune disorders.

Sundberg TB, Xavier RJ, Schreiber SL, Shamji AF
Curr Opin Chem Biol. 2014;23C:23-30 - PMID: 25222143 - PMCID: PMC5087273

Immunochip SNP array identifies novel genetic variants conferring susceptibility to candidaemia.

Kumar V, Cheng SC, Johnson MD, Smeekens SP, Wojtowicz A, Giamarellos-Bourboulis E, Karjalainen J, Franke L, Withoff S, Plantinga TS, van de Veerdonk FL, van der Meer JW, Joosten LA, Sokol H, Bauer H, Herrmann BG, Bochud PY, Marchetti O, Perfect JR, Xavier RJ, Kullberg BJ, Wijmenga C, Netea MG
Nat Commun. 2014;5:4675 - PMID: 25197941 - PMCID: PMC5142444

Crystal Structure Studies of RNA Duplexes Containing s2U:A and s2U:U Base Pairs.

Sheng J, Larsen A, Heuberger BD, Blain JC, Szostak JW
J Am Chem Soc. 2014;136(39):13916-24 - PMID: 25188906 - PMCID: PMC4183603

Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation.

Doench JG, Hartenian E, Graham DB, Tothova Z, Hegde M, Smith I, Sullender M, Ebert BL, Xavier RJ, Root DE
Nat Biotechnol. 2014;32(12):1262-1267 - PMID: 25184501 - PMCID: PMC4262738

HIV-1 Protein Nef Inhibits Activity of ATP Binding Cassette Transporter A1 by Targeting Endoplasmic Reticulum Chaperone Calnexin.

Jennelle L, Hunegnaw R, Dubrovsky L, Pushkarsky T, Fitzgerald ML, Sviridov D, Popratiloff A, Brichacek B, Bukrinsky M
J Biol Chem. 2014;289(42):28870-84 - PMID: 25170080 - PMCID: PMC4200247

Multivariate inference of pathway activity in host immunity and response to therapeutics.

Goel G, Conway KL, Jaeger M, Netea MG, Xavier RJ
Nucleic Acids Res. 2014;42(16):10288-306 - PMID: 25147207 - PMCID: PMC4176341

An alteration in ATG16L1 stability in Crohn disease.

Lassen KG, Xavier RJ
Autophagy. 2014;10(10):1858-1860 - PMID: 25136803 - PMCID: PMC4198368

Small-molecule screening identifies inhibition of salt-inducible kinases as a therapeutic strategy to enhance immunoregulatory functions of dendritic cells.

Sundberg TB, Choi HG, Song JH, Russell CN, Hussain MM, Graham DB, Khor B, Gagnon J, O'Connell DJ, Narayan K, Dan?ík V, Perez JR, Reinecker HC, Gray NS, Schreiber SL, Xavier RJ, Shamji AF
Proc Natl Acad Sci U S A. 2014;111(34):12468-12473 - PMID: 25114223 - PMCID: PMC4151730

Single Hind Limb Burn Injury to Mice Alters Nuclear Factor-?B Expression and [18F] 2-Fluoro-2-Deoxy-D-Glucose Uptake.

Carter EA, Hamrahi V, Paul K, Bonab AA, Jung W, Tompkins RG, Fischman AJ
J Burn Care Res. 2014;35(6):e373-e378 - PMID: 25100541 - PMCID: PMC4229441

Apoplastic peroxidases are required for salicylic acid-mediated defense against Pseudomonas syringae.

Mammarella ND, Cheng Z, Fu ZQ, Daudi A, Bolwell GP, Dong X, Ausubel FM
Phytochemistry. 2014;112:110-121 - PMID: 25096754 - PMCID: PMC4314520

On the Horizon: Research Priorities in Burns for the Next Decade.

Wolf SE, Tompkins RG, Herndon DN
Surg Clin North Am. 2014;94(4):917-930 - PMID: 25085097

Mechanisms of ?-lactam killing and resistance in the context of Mycobacterium tuberculosis.

Wivagg CN, Bhattacharyya RP, Hung DT
J Antibiot (Tokyo). 2014;67(9):645-654 - PMID: 25052484

Identification of genes in toxicity pathways of trinucleotide-repeat RNA in C. elegans.

Garcia SM, Tabach Y, Lourenço GF, Armakola M, Ruvkun G
Nat Struct Mol Biol. 2014;21(8):712-720 - PMID: 25038802 - PMCID: PMC4125460

Application of Gaussia luciferase in bicistronic and non-conventional secretion reporter constructs.

Luft C, Freeman J, Elliott D, Al-Tamimi N, Kriston-Vizi J, Heintze J, Lindenschmidt I, Seed B, Ketteler R
BMC Biochem. 2014;15(1):14 - PMID: 25007711 - PMCID: PMC4099409

Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature.

Haberman Y, Tickle TL, Dexheimer PJ, Kim MO, Tang D, Karns R, Baldassano RN, Noe JD, Rosh J, Markowitz J, Heyman MB, Griffiths AM, Crandall WV, Mack DR, Baker SS, Huttenhower C, Keljo DJ, Hyams JS, Kugathasan S, Walters TD, Aronow B, Xavier RJ, Gevers D, Denson LA
J Clin Invest. 2014;124(8):3617-33 - PMID: 25003194 - PMCID: PMC4109533

AGROBEST: an efficient Agrobacterium-mediated transient expression method for versatile gene function analyses in Arabidopsis seedlings.

Wu HY, Liu KH, Wang YC, Wu JF, Chiu WL, Chen CY, Wu SH, Sheen J, Lai EM
Plant Methods. 2014;10:19 - PMID: 24987449 - PMCID: PMC4076510

Inflammatory Bowel Disease as a Model for Translating the Microbiome.

Huttenhower C, Kostic AD, Xavier RJ
Immunity. 2014;40(6):843-854 - PMID: 24950204 - PMCID: PMC4135443

Prediction of Multiple Infections After Severe Burn Trauma: A Prospective Cohort Study.

Yan S, Tsurumi A, Que YA, Ryan CM, Bandyopadhaya A, Morgan AA, Flaherty PJ, Tompkins RG, Rahme LG
Ann Surg. 2014;261(4):781-792 - PMID: 24950278 - PMCID: PMC4284150

Simvastatin Reduces Burn Injury-Induced Splenic Apoptosis via Downregulation of the TNF-?/NF-?B Pathway.

Zhao G, Yu YM, Kaneki M, Bonab AA, Tompkins RG, Fischman AJ
Ann Surg. 2014;261(5):1006-12 - PMID: 24950285 - PMCID: PMC4272342

SLCO3A1, a Novel Crohn's Disease-Associated Gene, Regulates NF-?B Activity and Associates with Intestinal Perforation.

Wei SC, Tan YY, Weng MT, Lai LC, Hsiao JH, Chuang EY, Shun CT, Wu DC, Kao AW, Chuang CS, Ni YH, Shieh MJ, Tung CC, Chen Y, Wang CY, Xavier RJ, Podolsky DK, Wong JM
PLoS One. 2014;9(6):e100515 - PMID: 24945726 - PMCID: PMC4063938

Detecting differential protein expression in large-scale population proteomics.

Ryu SY, Qian WJ, Camp DG, Smith RD, Tompkins RG, Davis RW, Xiao W
Bioinformatics. 2014;30(19):2741-6 - PMID: 24928210 - PMCID: PMC4173009

The Evolutionarily Conserved Mediator Subunit MDT-15/MED15 Links Protective Innate Immune Responses and Xenobiotic Detoxification.

Pukkila-Worley R, Feinbaum RL, McEwan DL, Conery AL, Ausubel FM
PLoS Pathog. 2014;10(5):e1004143 - PMID: 24875643 - PMCID: PMC4038581

Deficits in receptor-mediated endocytosis and recycling in cells from mice bearing a disruption of the Gpr107 locus.

Zhou GL, Na SY, Niedra R, Seed B
J Cell Sci. 2014;127(Pt 18):3916-27 - PMID: 24849652

Dectin-1 dependent LC3 recruitment to phagosomes enhances fungicidal activity in macrophages.

Tam JM, Mansour MK, Khan NS, Seward M, Puranam S, Tanne A, Sokolovska A, Becker CE, Acharya M, Baird MA, Choi AM, Davidson MW, Segal BH, Lacy-Hulbert A, Stuart LM, Xavier RJ, Vyas JM
J Infect Dis. 2014;210(11):1844-54 - PMID: 24842831 - PMCID: PMC4271056

Pseudomonas aeruginosa PA14 Pathogenesis in Caenorhabditis elegans.

Kirienko NV, Cezairliyan BO, Ausubel FM, Powell JR
Methods Mol Biol. 2014;1149:653-69 - PMID: 24818940

Epinecidin-1 has immunomodulatory effects, facilitating its therapeutic use in a mouse model of Pseudomonas aeruginosa sepsis.

Pan CY, Chen JC, Sheen JF, Lin TL, Chen JY
Antimicrob Agents Chemother. 2014;58(8):4264-4274 - PMID: 24820078 - PMCID: PMC4135991

Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense.

Lassen KG, Kuballa P, Conway KL, Patel KK, Becker CE, Peloquin JM, Villablanca EJ, Norman JM, Liu TC, Heath RJ, Becker ML, Fagbami L, Horn H, Mercer J, Yilmaz OH, Jaffe JD, Shamji AF, Bhan AK, Carr SA, Daly MJ, Virgin HW, Schreiber SL, Stappenbeck TS, Xavier RJ
Proc Natl Acad Sci U S A. 2014;111(21):7741-7746 - PMID: 24821797 - PMCID: PMC4040621

In vivo high-resolution magic angle spinning proton NMR spectroscopy of Drosophila melanogaster flies as a model system to investigate mitochondrial dysfunction in Drosophila GST2 mutants.

Righi V, Apidianakis Y, Psychogios N, Rahme LG, Tompkins RG, Tzika AA
Int J Mol Med. 2014;34(1):327-33 - PMID: 24789699

Benchmarking outcomes in the critically injured burn patient.

Klein MB, Goverman J, Hayden DL, Fagan SP, McDonald-Smith GP, Alexander AK, Gamelli RL, Gibran NS, Finnerty CC, Jeschke MG, Arnoldo B, Wispelwey B, Mindrinos MN, Xiao W, Honari SE, Mason PH, Schoenfeld DA, Herndon DN, Tompkins RG,
Ann Surg. 2014;259(5):833-41 - PMID: 24722222 - PMCID: PMC4283803

Caenorhabditis elegans pathways that surveil and defend mitochondria.

Liu Y, Samuel BS, Breen PC, Ruvkun G
Nature. 2014;508(7496):406-10 - PMID: 24695221 - PMCID: PMC4102179

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

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

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

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

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

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

Progress Toward Synthetic Cells.

Blain JC, Szostak JW
Annu Rev Biochem. 2014;83:615-640 - PMID: 24606140

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

Enterococcus infection biology: Lessons from invertebrate host models.

Yuen GJ, Ausubel FM
J Microbiol. 2014;52(3):200-10 - PMID: 24585051 - PMCID: PMC4556283

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

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

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

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

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

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

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

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

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

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

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

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

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

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

TOR Signaling Networks in Plant Growth and Metabolism.

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

Master Regulators in Plant Glucose Signaling Networks.

Sheen J
2014;57(2):67-79 - PMID: 25530701 - PMCID: PMC4270195