Publications for All Faculty

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Taleban S, Stewart KO, Li DK, Singh P, Pardi DS, Sturgeon HC, Yajnik V, Xavier RJ, Ananthakrishnan AN, Khalili H

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

Dig Dis Sci. 2016;61(9):2627-35 - PMID: 27142671 - PMCID: PMC4982770 - DOI: 10.1007/s10620-016-4180-8
Tsai SQ, Topkar VV, Joung JK, Aryee MJ

Open-source guideseq software for analysis of GUIDE-seq data.

Nat Biotechnol. 2016;34(5):483 - PMID: 27153277 - DOI: 10.1038/nbt.3534
Peloquin JM, Goel G, Villablanca EJ, Xavier RJ

Mechanisms of Pediatric Inflammatory Bowel Disease.

Annu Rev Immunol. 2016;34:31-64 - PMID: 27168239 - DOI: 10.1146/annurev-immunol-032414-112151
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

Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans.

Cell. 2016;165(4):842-53 - PMID: 27133167 - PMCID: PMC4950857 - DOI: 10.1016/j.cell.2016.04.007
Zhernakova A, Kurilshikov A, Bonder MJ, Tigchelaar EF, Schirmer M, Vatanen T, Mujagic Z, Vila AV, Falony G, Vieira-Silva S, Wang J, Imhann F, Brandsma E, Jankipersadsing SA, Joossens M, Cenit MC, Deelen P, Swertz MA, , Weersma RK, Feskens EJ, Netea MG, Gevers D, Jonkers D, Franke L, Aulchenko YS, Huttenhower C, Raes J, Hofker MH, Xavier RJ, Wijmenga C, Fu J

Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity.

Science. 2016;352(6285):565-9 - PMID: 27126040 - PMCID: PMC5240844 - DOI: 10.1126/science.aad3369
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(4):842-53 - PMID: 27133167 - PMCID: PMC4950857 - DOI: 10.1016/j.cell.2016.04.007
Prywes N, Michaels YS, Pal A, Oh SS, Szostak JW

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

Chem Commun (Camb). 2016;52(39):6529-32 - PMID: 27109314 - DOI: 10.1039/c6cc02692c
Netea MG, Joosten LA, Latz E, Mills KH, Natoli G, Stunnenberg HG, O'Neill LA, Xavier RJ

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

Science. 2016;352(6284):aaf1098 - PMID: 27102489 - PMCID: PMC5087274 - DOI: 10.1126/science.aaf1098
Zimmer S, Grebe A, Bakke SS, Bode N, Halvorsen B, Ulas T, Skjelland M, De Nardo D, Labzin LI, Kerksiek A, Hempel C, Heneka MT, Hawxhurst V, Fitzgerald ML, Trebicka J, Björkhem I, Gustafsson JÅ, Westerterp M, Tall AR, Wright SD, Espevik T, Schultze JL, Nickenig G, Lütjohann D, Latz E

Cyclodextrin promotes atherosclerosis regression via macrophage reprogramming.

Sci Transl Med. 2016;8(333):333ra50 - PMID: 27053774 - PMCID: PMC4878149 - DOI: 10.1126/scitranslmed.aad6100
Tsai SQ, Joung JK

Defining and improving the genome-wide specificities of CRISPR-Cas9 nucleases.

Nat Rev Genet. 2016;17(5):300-12 - PMID: 27087594 - PMCID: PMC7225572 - DOI: 10.1038/nrg.2016.28
Abrams JA, Xavier RJ, Rustgi AK

Timothy C. Wang, MD: Our next AGA President.

Gastroenterology. 2016;150(5):1231-1236 - PMID: 27018487 - DOI: 10.1053/j.gastro.2016.03.021
Adamala KP, Engelhart AE, Szostak JW

Collaboration between primitive cell membranes and soluble catalysts.

Nat Commun. 2016;7:11041 - PMID: 26996603 - PMCID: PMC4802160 - DOI: 10.1038/ncomms11041
Li L, Lelyveld VS, Prywes N, Szostak JW

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

J Am Chem Soc. 2016;138(12):3986-9 - PMID: 26974265 - PMCID: PMC7547882 - DOI: 10.1021/jacs.6b00784
Engelhart AE, Adamala KP, Szostak JW

A simple physical mechanism enables homeostasis in primitive cells.

Nat Chem. 2016;8(5):448-53 - PMID: 27102678 - PMCID: PMC4929987 - DOI: 10.1038/nchem.2475
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

?v Integrins combine with LC3 and atg5 to regulate Toll-like receptor signalling in B cells.

Nat Commun. 2016;7:10917 - PMID: 26965188 - PMCID: PMC4792966 - DOI: 10.1038/ncomms10917
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

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

JAMA Pediatr. 2016;170(6):534-42 - PMID: 26953515 - DOI: 10.1001/jamapediatrics.2015.4722
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

Impaired antibacterial autophagy links granulomatous intestinal inflammation in Niemann-Pick disease type C1 and XIAP deficiency with NOD2 variants in Crohn's disease.

Gut. 2017;66(6):1060-1073 - PMID: 26953272 - PMCID: PMC5532464 - DOI: 10.1136/gutjnl-2015-310382
Liu S, Bartnikas LM, Volko SM, Ausubel FM, Tang D

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

Front Plant Sci. 2016;7:227 - PMID: 26973671 - PMCID: PMC4774424 - DOI: 10.3389/fpls.2016.00227
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

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

J Neurosci. 2016;36(13):3848-59 - PMID: 27030769 - PMCID: PMC4812140 - DOI: 10.1523/JNEUROSCI.3757-15.2016
Bambouskova M, Polakovicova I, Halova I, Goel G, Draberova L, Bugajev V, Doan A, Utekal P, Gardet A, Xavier RJ, Draber P

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

Mol Cell Biol. 2016;36(9):1366-82 - PMID: 26929198 - PMCID: PMC4836217 - DOI: 10.1128/MCB.00064-16
Kim W, Fricke N, Conery AL, Fuchs BB, Rajamuthiah R, Jayamani E, Vlahovska PM, Ausubel FM, Mylonakis E

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

Future Med Chem. 2016;8(3):257-69 - PMID: 26910612 - PMCID: PMC4976882 - DOI: 10.4155/fmc.15.189
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

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

Genome Med. 2016;8(1):17 - PMID: 26884067 - PMCID: PMC4756455 - DOI: 10.1186/s13073-016-0271-6
Izgu EC, Oh SS, Szostak JW

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

Chem Commun (Camb). 2016;52(18):3684-6 - PMID: 26857159 - DOI: 10.1039/c5cc10317g
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

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

Astrobiology. 2016;16(2):119-25 - PMID: 26848950 - DOI: 10.1089/ast.2016.1472
Strecker J, Gupta GD, Zhang W, Bashkurov M, Landry MC, Pelletier L, Durocher D

DNA damage signalling targets the kinetochore to promote chromatin mobility.

Nat Cell Biol. 2016;18(3):281-90 - PMID: 26829389 - DOI: 10.1038/ncb3308
Total: 2459