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Uniken Venema WT, Voskuil MD, Vich Vila A, van der Vries G, Jansen BH, Jabri B, Faber KN, Dijkstra G, Xavier RJ, Wijmenga C, Graham DB, Weersma RK, Festen EA

Single-cell RNA Sequencing of Blood and Ileal T cells From Patients With Crohn's Disease Reveals Tissue-specific Characteristics and Drug Targets.
Gastroenterology. 2019;156(3):812-815.e22 - PMID: 30391472 - PMCID: PMC6759855 - DOI: 10.1053/j.gastro.2018.10.046

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

T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation.
Cell. 2018;175(5):1307-1320.e22 - PMID: 30392957 - PMCID: PMC6239889 - DOI: 10.1016/j.cell.2018.10.008

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

T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation.
Cell. 2018;175(5):1307-1320.e22 - PMID: 30392957 - PMCID: PMC6239889 - DOI: 10.1016/j.cell.2018.10.008

Stewart CJ, Ajami NJ, O'Brien JL, Hutchinson DS, Smith DP, Wong MC, Ross MC, Lloyd RE, Doddapaneni H, Metcalf GA, Muzny D, Gibbs RA, Vatanen T, Huttenhower C, Xavier RJ, Rewers M, Hagopian W, Toppari J, Ziegler AG, She JX, Akolkar B, Lernmark A, Hyoty H, Vehik K, Krischer JP, Petrosino JF

Temporal development of the gut microbiome in early childhood from the TEDDY study.
Nature. 2018;562(7728):583-588 - PMID: 30356187 - PMCID: PMC6415775 - DOI: 10.1038/s41586-018-0617-x

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

The human gut microbiome in early-onset type 1 diabetes from the TEDDY study.
Nature. 2018;562(7728):589-594 - PMID: 30356183 - PMCID: PMC6296767 - DOI: 10.1038/s41586-018-0620-2

Lin XX, Sen I, Janssens GE, Zhou X, Fonslow BR, Edgar D, Stroustrup N, Swoboda P, Yates JR, Ruvkun G, Riedel CG

DAF-16/FOXO and HLH-30/TFEB function as combinatorial transcription factors to promote stress resistance and longevity.
Nat Commun. 2018;9(1):4400 - PMID: 30353013 - PMCID: PMC6199276 - DOI: 10.1038/s41467-018-06624-0

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

Antigen discovery and specification of immunodominance hierarchies for MHCII-restricted epitopes.
Nat Med. 2018;24(11):1762-1772 - PMID: 30349087 - PMCID: PMC6312190 - DOI: 10.1038/s41591-018-0203-7

Wang C, Bauckman KA, Ross ASB, Symington JW, Ligon MM, Scholtes G, Kumar A, Chang HW, Twentyman J, Fashemi BE, Xavier RJ, Mysorekar IU

A non-canonical autophagy-dependent role of the ATG16L1T300A variant in urothelial vesicular trafficking and uropathogenic Escherichia coli persistence.
Autophagy. 2019;15(3):527-542 - PMID: 30335568 - PMCID: PMC6351132 - DOI: 10.1080/15548627.2018.1535290

Jin L, Engelhart AE, Zhang W, Adamala KP, Szostak JW

Catalysis of Template-directed Nonenzymatic RNA Copying by Iron (II).
J Am Chem Soc. 2018;140(44):15016-15021 - PMID: 30335371 - PMCID: PMC7547886 - DOI: 10.1021/jacs.8b09617

Dong D, Zhou H, Na SY, Niedra R, Peng Y, Wang H, Seed B, Zhou GL

GPR108, an NF-κB activator suppressed by TIRAP, negatively regulates TLR-triggered immune responses.
PLoS One. 2018;13(10):e0205303 - PMID: 30332431 - PMCID: PMC6192633 - DOI: 10.1371/journal.pone.0205303

Tillman EJ, Richardson CE, Cattie DJ, Reddy KC, Lehrbach NJ, Droste R, Ruvkun G, Kim DH

Endoplasmic Reticulum Homeostasis Is Modulated by the Forkhead Transcription Factor FKH-9 During Infection of Caenorhabditis elegans.
Genetics. 2018;210(4):1329-1337 - PMID: 30287474 - PMCID: PMC6283152 - DOI: 10.1534/genetics.118.301450

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

Compositional and Temporal Changes in the Gut Microbiome of Pediatric Ulcerative Colitis Patients Are Linked to Disease Course.
Cell Host Microbe. 2018;24(4):600-610.e4 - PMID: 30308161 - PMCID: PMC6277984 - DOI: 10.1016/j.chom.2018.09.009

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

Discovery of heterocyclic replacements for the coumarin core of anti-tubercular FadD32 inhibitors.
Bioorg Med Chem Lett. 2018;28(22):3529-3533 - PMID: 30316633 - PMCID: PMC6233306 - DOI: 10.1016/j.bmcl.2018.09.037

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

In vivo CRISPR editing with no detectable genome-wide off-target mutations.
Nature. 2018;561(7723):416-419 - PMID: 30209390 - PMCID: PMC6194229 - DOI: 10.1038/s41586-018-0500-9

Ausubel FM

Tracing My Roots: How I Became a Plant Biologist.
Annu Rev Genet. 2018;52:1-20 - PMID: 30192637 - DOI: 10.1146/annurev-genet-120417-031722

Joyce GF, Szostak JW

Protocells and RNA Self-Replication.
Cold Spring Harb Perspect Biol. 2018;10(9):ePub - PMID: 30181195 - PMCID: PMC6120706 - DOI: 10.1101/cshperspect.a034801

Wein MN, Foretz M, Fisher DE, Xavier RJ, Kronenberg HM

Salt-Inducible Kinases: Physiology, Regulation by cAMP, and Therapeutic Potential.
Trends Endocrinol Metab. 2018;29(10):723-735 - PMID: 30150136 - PMCID: PMC6151151 - DOI: 10.1016/j.tem.2018.08.004

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

Discovery and Optimization of nTZDpa as an Antibiotic Effective Against Bacterial Persisters.
ACS Infect Dis. 2018;4(11):1540-1545 - PMID: 30132650 - PMCID: PMC6468991 - DOI: 10.1021/acsinfecdis.8b00161

Ma P, Laibinis HH, Ernst CM, Hung DT

Carbapenem resistance caused by high-level expression of OXA-663 β-lactamase in an OmpK36-deficient Klebsiella pneumoniae clinical isolate.
Antimicrob Agents Chemother. 2018;62(11):ePub - PMID: 30126962 - PMCID: PMC6201135 - DOI: 10.1128/AAC.01281-18

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

TMEM41B is a novel regulator of autophagy and lipid mobilization.
EMBO Rep. 2018;19(9):ePub - PMID: 30126924 - PMCID: PMC6123663 - DOI: 10.15252/embr.201845889

Bhattacharyya RP, Thakku SG, Hung DT

Harnessing CRISPR Effectors for Infectious Disease Diagnostics.
ACS Infect Dis. 2018;4(9):1278-1282 - PMID: 30113801 - DOI: 10.1021/acsinfecdis.8b00170

Carr CE, Bryan NC, Saboda KN, Bhattaru SA, Ruvkun G, Zuber MT

Acceleration profiles and processing methods for parabolic flight.
NPJ Microgravity. 2018;4:14 - PMID: 30109261 - PMCID: PMC6081456 - DOI: 10.1038/s41526-018-0050-3

Gehrke JM, Cervantes O, Clement MK, Wu Y, Zeng J, Bauer DE, Pinello L, Joung JK

An APOBEC3A-Cas9 base editor with minimized bystander and off-target activities.
Nat Biotechnol. 2018;36(10):977-982 - PMID: 30059493 - PMCID: PMC6181770 - DOI: 10.1038/nbt.4199

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

Impaired Aryl Hydrocarbon Receptor Ligand Production by the Gut Microbiota Is a Key Factor in Metabolic Syndrome.
Cell Metab. 2018;28(5):737-749.e4 - PMID: 30057068 - DOI: 10.1016/j.cmet.2018.07.001

Shi L, Wu Y, Sheen J

TOR signaling in plants: conservation and innovation.
Development. 2018;145(13):ePub - PMID: 29986898 - PMCID: PMC6053665 - DOI: 10.1242/dev.160887
Total: 2498