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Publications

Bioinformatics (Oxford, England). 2017-07-01; 33.13: 1944-1952.
FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis
Zhang Y, Topham DJ, Thakar J, Qiu X
PMID: 28334094
Microbial ecology. 2017-07-01; 74.1: 250-258.
Patterns in Gut Microbiota Similarity Associated with Degree of Sociality among Sex Classes of a Neotropical Primate
Amato KR, Van Belle S, Di Fiore A, Estrada A, Stumpf R, White B, Nelson KE, Knight R, Leigh SR
PMID: 28124727
The Journal of clinical investigation. 2017-06-30; 127.7: 2697-2704.
Nonalcoholic fatty liver disease with cirrhosis increases familial risk for advanced fibrosis
Caussy C, Soni M, Cui J, Bettencourt R, Schork N, Chen CH, Ikhwan MA, Bassirian S, Cepin S, Gonzalez MP, Mendler M, Kono Y, Vodkin I, Mekeel K, Haldorson J, Hemming A, Andrews B, Salotti J, Richards L, Brenner DA, Sirlin CB, Loomba R, Familial NAFLD Cirrhosis Research Consortium
PMID: 28628033
The Journal of clinical investigation. 2017-06-30; 127.7: 2829-2841.
Intestinal fungi contribute to development of alcoholic liver disease
Yang AM, Inamine T, Hochrath K, Chen P, Wang L, Llorente C, Bluemel S, Hartmann P, Xu J, Koyama Y, Kisseleva T, Torralba MG, Moncera K, Beeri K, Chen CS, Freese K, Hellerbrand C, Lee SM, Hoffman HM, Mehal WZ, Garcia-Tsao G, Mutlu EA, Keshavarzian A, Brown GD, Ho SB, Bataller R, Stärkel P, Fouts DE, Schnabl B
PMID: 28530644
Nucleic acids research. 2017-06-20; 45.11: 6971-6980.
Large-scale recoding of a bacterial genome by iterative recombineering of synthetic DNA
Lau YH, Stirling F, Kuo J, Karrenbelt MAP, Chan YA, Riesselman A, Horton CA, Schäfer E, Lips D, Weinstock MT, Gibson DG, Way JC, Silver PA
PMID: 28499033
BMC genomics. 2017-06-12; 18.1: 458.
Pan-cancer analysis reveals technical artifacts in TCGA germline variant calls
Buckley AR, Standish KA, Bhutani K, Ideker T, Lasken RS, Carter H, Harismendy O, Schork NJ
PMID: 28606096
Nature chemical biology. 2017-06-01; 13.6: 668-674.
The pimeloyl-CoA synthetase BioW defines a new fold for adenylate-forming enzymes
Estrada P, Manandhar M, Dong SH, Deveryshetty J, Agarwal V, Cronan JE, Nair SK
PMID: 28414711
Annals of translational medicine. 2017-06-01; 5.12: 249.
Insights into study design and statistical analyses in translational microbiome studies
Shankar J
PMID: 28706917
Biochimie open. 2017-06-01; 4.88-98.
Novel proteins from proteomic analysis of the trunk disease fungus <i>Lasiodiplodia theobromae</i> (Botryosphaeriaceae)
Uranga CC, Ghassemian M, Hernández-Martínez R
PMID: 29450146
Nature reviews. Microbiology. 2017-06-01; 15.6: 338-350.
Metal homeostasis and resistance in bacteria
Chandrangsu P, Rensing C, Helmann JD
PMID: 28344348