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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

Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease.
Genome Med. 2016;8(1):75 - PMID: 27412252 - PMCID: PMC4944441 - DOI: 10.1186/s13073-016-0331-y

Syrkina O, Hales CH, Bonab AA, Hamrahi V, Paul K, Jung WJ, Tompkins RG, Fischman AJ, Carter EA

Molecular Imaging of Smoke-Induced Changes in Nuclear Factor-Kappa B Expression in Murine Tissues Including the Lung.
J Burn Care Res. 2016;37(6):335-342 - PMID: 27437954 - DOI: 10.1097/BCR.0000000000000394

Brito IL, Yilmaz S, Huang K, Xu L, Jupiter SD, Jenkins AP, Naisilisili W, Tamminen M, Smillie CS, Wortman JR, Birren BW, Xavier RJ, Blainey PC, Singh AK, Gevers D, Alm EJ

Mobile genes in the human microbiome are structured from global to individual scales.
Nature. 2016;535(7612):435-439 - PMID: 27409808 - PMCID: PMC4983458 - DOI: 10.1038/nature18927

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

Inter-individual variability and genetic influences on cytokine responses to bacteria and fungi.
Nat Med. 2016;22(8):952-960 - PMID: 27376574 - PMCID: PMC5084084 - DOI: 10.1038/nm.4139

Newman M, Ausubel FM

Introduction to Gene Editing and Manipulation Using CRISPR/Cas9 Technology.
Curr Protoc Mol Biol. 2016;115:31.4.1-6 - PMID: 27366890 - PMCID: PMC4963815 - DOI: 10.1002/cpmb.14

Dowen RH, Breen PC, Tullius T, Conery AL, Ruvkun G

A microRNA program in the C. elegans hypodermis couples to intestinal mTORC2/PQM-1 signaling to modulate fat transport.
Genes Dev. 2016;30(13):1515-28 - PMID: 27401555 - PMCID: PMC4949325 - DOI: 10.1101/gad.283895.116

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

Functional CRISPR screening identifies the ufmylation pathway as a regulator of SQSTM1/p62.
Elife. 2016;5:ePub - PMID: 27351204 - PMCID: PMC4924995 - DOI: 10.7554/eLife.17290

Prywes N, Blain JC, Del Frate F, Szostak JW

Nonenzymatic copying of RNA templates containing all four letters is catalyzed by activated oligonucleotides.
Elife. 2016;5:ePub - PMID: 27351102 - PMCID: PMC4959843 - DOI: 10.7554/eLife.17756

Kleinstiver BP, Tsai SQ, Prew MS, Nguyen NT, Welch MM, Lopez JM, McCaw ZR, Aryee MJ, Joung JK

Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells.
Nat Biotechnol. 2016;34(8):869-874 - PMID: 27347757 - PMCID: PMC4980201 - DOI: 10.1038/nbt.3620

Jia TZ, Fahrenbach AC, Kamat NP, Adamala KP, Szostak JW

Oligoarginine peptides slow strand annealing and assist non-enzymatic RNA replication.
Nat Chem. 2016;8(10):915-21 - PMID: 27657866 - PMCID: PMC5061144 - DOI: 10.1038/nchem.2551

Xavier RJ

Microbiota as Therapeutic Targets.
Dig Dis. 2016;34(5):558-65 - PMID: 27331403 - DOI: 10.1159/000445263

Samuel BS, Rowedder H, Braendle C, Félix MA, Ruvkun G

Caenorhabditis elegans responses to bacteria from its natural habitats.
Proc Natl Acad Sci U S A. 2016;113(27):E3941-9 - PMID: 27317746 - PMCID: PMC4941482 - DOI: 10.1073/pnas.1607183113

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

Baeyer-Villiger Monooxygenases EthA and MymA Are Required for Activation of Replicating and Non-replicating Mycobacterium tuberculosis Inhibitors.
Cell Chem Biol. 2016;23(6):666-77 - PMID: 27321573 - PMCID: PMC4920728 - DOI: 10.1016/j.chembiol.2016.05.011

Zhou C, Elia AE, Naylor ML, Dephoure N, Ballif BA, Goel G, Xu Q, Ng A, Chou DM, Xavier RJ, Gygi SP, Elledge SJ

Profiling DNA damage-induced phosphorylation in budding yeast reveals diverse signaling networks.
Proc Natl Acad Sci U S A. 2016;113(26):E3667-75 - PMID: 27298372 - PMCID: PMC4932963 - DOI: 10.1073/pnas.1602827113

Boada-Romero E, Serramito-Gómez I, Sacristán MP, Boone DL, Xavier RJ, Pimentel-Muiños FX

The T300A Crohn's disease risk polymorphism impairs function of the WD40 domain of ATG16L1.
Nat Commun. 2016;7:11821 - PMID: 27273576 - PMCID: PMC4899871 - DOI: 10.1038/ncomms11821

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

Genetic Coding Variant in GPR65 Alters Lysosomal pH and Links Lysosomal Dysfunction with Colitis Risk.
Immunity. 2016;44(6):1392-1405 - PMID: 27287411 - PMCID: PMC4936415 - DOI: 10.1016/j.immuni.2016.05.007

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

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.
Cell. 2016;165(6):1551 - PMID: 27259157 - DOI: 10.1016/j.cell.2016.05.056

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

Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability.
Sci Transl Med. 2016;8(343):343ra81 - PMID: 27306663 - PMCID: PMC5032909 - DOI: 10.1126/scitranslmed.aad0917

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

Isocitrate dehydrogenase mutations confer dasatinib hypersensitivity and SRC-dependence in intrahepatic cholangiocarcinoma.
Cancer Discov. 2016;6(7):727-39 - PMID: 27231123 - PMCID: PMC5458737 - DOI: 10.1158/2159-8290.CD-15-1442

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

Metagenomic Characterization of Microbial Communities In Situ Within the Deeper Layers of the Ileum in Crohn's Disease.
Cell Mol Gastroenterol Hepatol. 2016;2(5):563-566.e5 - PMID: 28174737 - PMCID: PMC5042890 - DOI: 10.1016/j.jcmgh.2016.05.011

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

Development of Chemical Probes for Investigation of Salt-Inducible Kinase Function In Vivo.
ACS Chem Biol. 2016;11(8):2105-11 - PMID: 27224444 - PMCID: PMC4992440 - DOI: 10.1021/acschembio.6b00217

O'Connell DJ, Kolde R, Sooknah M, Graham DB, Sundberg TB, Latorre IJ, Mikkelsen TS, Xavier RJ

Simultaneous Pathway Activity Inference and Gene Expression Analysis Using RNA Sequencing.
Cell Syst. 2016;2(5):323-334 - PMID: 27211859 - PMCID: PMC5032147 - DOI: 10.1016/j.cels.2016.04.011

Frydman GH, Bendapudi PK, Marini RP, Vanderburg CR, Tompkins RG, Fox JG

Coagulation Biomarkers in Healthy Chinese-Origin Rhesus Macaques (Macaca mulatta).
J Am Assoc Lab Anim Sci. 2016;55(3):252-9 - PMID: 27177557 - PMCID: PMC4865685

Ueki R, Liu L, Kashiwagi S, Kaneki M, Khan M, Hirose M, Tompkins RG, Martyn JA, Yasuhara S

Role of Elevated Fibrinogen in Burn-Induced Mitochondrial Dysfunction: Protective Effects of Glycyrrhizin.
Shock. 2016;46(4):382-9 - PMID: 27172157 - PMCID: PMC5026541 - DOI: 10.1097/SHK.0000000000000602

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

CARD9 impacts colitis by altering gut microbiota metabolism of tryptophan into aryl hydrocarbon receptor ligands.
Nat Med. 2016;22(6):598-605 - PMID: 27158904 - PMCID: PMC5087285 - DOI: 10.1038/nm.4102
Total: 2485