Eric A. Franzosa

Microbiome epidemiology and association studies in human health.

VanEvery H, Franzosa EA, Nguyen LH, Huttenhower C.

Nat Rev Genet. 2023 Feb. 24(2):109-124. PMID: 36198908

Population structure discovery in meta-analyzed microbial communities and inflammatory bowel disease using MMUPHin.

Ma S, Shungin D, Mallick H, Schirmer M, Nguyen LH, Kolde R, Franzosa E, Vlamakis H, Xavier R, Huttenhower C.

Genome Biol. 2022 10 03. 23(1):208. PMID: 36192803

Progress and opportunities in microbial community metabolomics.

Bhosle A, Wang Y, Franzosa EA, Huttenhower C.

Curr Opin Microbiol. 2022 12. 70:102195. PMID: 36063685

A biosynthetic pathway for the selective sulfonation of steroidal metabolites by human gut bacteria.

Yao L, D'Agostino GD, Park J, Hang S, Adhikari AA, Zhang Y, Li W, Avila-Pacheco J, Bae S, Clish CB, Franzosa EA, Huttenhower C, Huh JR, Devlin AS.

Nat Microbiol. 2022 09. 7(9):1404-1418. PMID: 35982310

High-sensitivity pattern discovery in large, paired multiomic datasets.

Ghazi AR, Sucipto K, Rahnavard A, Franzosa EA, McIver LJ, Lloyd-Price J, Schwager E, Weingart G, Moon YS, Morgan XC, Waldron L, Huttenhower C.

Bioinformatics. 2022 06 24. 38(Suppl 1):i378-i385. PMID: 35758795

Discovery of bioactive microbial gene products in inflammatory bowel disease.

Zhang Y, Bhosle A, Bae S, McIver LJ, Pishchany G, Accorsi EK, Thompson KN, Arze C, Wang Y, Subramanian A, Kearney SM, Pawluk A, Plichta DR, Rahnavard A, Shafquat A, Xavier RJ, Vlamakis H, Garrett WS, Krueger A, Huttenhower C, Franzosa EA.

Nature. 2022 06. 606(7915):754-760. PMID: 35614211

Human gut bacteria produce ??17-modulating bile acid metabolites.

Paik D, Yao L, Zhang Y, Bae S, D'Agostino GD, Zhang M, Kim E, Franzosa EA, Avila-Pacheco J, Bisanz JE, Rakowski CK, Vlamakis H, Xavier RJ, Turnbaugh PJ, Longman RS, Krout MR, Clish CB, Rastinejad F, Huttenhower C, Huh JR, Devlin AS.

Nature. 2022 03. 603(7903):907-912. PMID: 35296854

Strain-level fitness in the gut microbiome is an emergent property of glycans and a single metabolite.

Park SY, Rao C, Coyte KZ, Kuziel GA, Zhang Y, Huang W, Franzosa EA, Weng JK, Huttenhower C, Rakoff-Nahoum S.

Cell. 2022 02 03. 185(3):513-529.e21. PMID: 35120663

Multivariable association discovery in population-scale meta-omics studies.

Mallick H, Rahnavard A, McIver LJ, Ma S, Zhang Y, Nguyen LH, Tickle TL, Weingart G, Ren B, Schwager EH, Chatterjee S, Thompson KN, Wilkinson JE, Subramanian A, Lu Y, Waldron L, Paulson JN, Franzosa EA, Bravo HC, Huttenhower C.

PLoS Comput Biol. 2021 11. 17(11):e1009442. PMID: 34784344

A statistical model for describing and simulating microbial community profiles.

Ma S, Ren B, Mallick H, Moon YS, Schwager E, Maharjan S, Tickle TL, Lu Y, Carmody RN, Franzosa EA, Janson L, Huttenhower C.

PLoS Comput Biol. 2021 09. 17(9):e1008913. PMID: 34516542