Eric A. Franzosa

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 Sep. 17(9):e1008913. PMID: 34516542

A bacterial bile acid metabolite modulates Treg activity through the nuclear hormone receptor NR4A1.

Li W, Hang S, Fang Y, Bae S, Zhang Y, Zhang M, Wang G, McCurry MD, Bae M, Paik D, Franzosa EA, Rastinejad F, Huttenhower C, Yao L, Devlin AS, Huh JR.

Cell Host Microbe. 2021 09 08. 29(9):1366-1377.e9. PMID: 34416161

Statistical approaches for differential expression analysis in metatranscriptomics.

Zhang Y, Thompson KN, Huttenhower C, Franzosa EA.

Bioinformatics. 2021 07 12. 37(Suppl_1):i34-i41. PMID: 34252963

Dietary fiber intake, the gut microbiome, and chronic systemic inflammation in a cohort of adult men.

Ma W, Nguyen LH, Song M, Wang DD, Franzosa EA, Cao Y, Joshi A, Drew DA, Mehta R, Ivey KL, Strate LL, Giovannucci EL, Izard J, Garrett W, Rimm EB, Huttenhower C, Chan AT.

Genome Med. 2021 06 17. 13(1):102. PMID: 34140026

Metatranscriptomics for the Human Microbiome and Microbial Community Functional Profiling.

Zhang Y, Thompson KN, Branck T, Nguyen LH, Franzosa EA, Huttenhower C.

Annu Rev Biomed Data Sci. 2021 07 20. 4:279-311. PMID: 34465175

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3.

Beghini F, McIver LJ, Blanco-Míguez A, Dubois L, Asnicar F, Maharjan S, Mailyan A, Manghi P, Scholz M, Thomas AM, Valles-Colomer M, Weingart G, Zhang Y, Zolfo M, Huttenhower C, Franzosa EA, Segata N.

Elife. 2021 05 04. 10. PMID: 33944776

A framework for microbiome science in public health.

Wilkinson JE, Franzosa EA, Everett C, Li C, Hu FB, Wirth DF, Song M, Chan AT, Rimm E, Garrett WS, Huttenhower C.

Nat Med. 2021 05. 27(5):766-774. PMID: 33820996

Determinants of Staphylococcus aureus carriage in the developing infant nasal microbiome.

Accorsi EK, Franzosa EA, Hsu T, Joice Cordy R, Maayan-Metzger A, Jaber H, Reiss-Mandel A, Kline M, DuLong C, Lipsitch M, Regev-Yochay G, Huttenhower C.

Genome Biol. 2020 12 11. 21(1):301. PMID: 33308267

Identification of Natural CRISPR Systems and Targets in the Human Microbiome.

Münch PC, Franzosa EA, Stecher B, McHardy AC, Huttenhower C.

Cell Host Microbe. 2021 01 13. 29(1):94-106.e4. PMID: 33217332

Strain-level epidemiology of microbial communities and the human microbiome.

Yan Y, Nguyen LH, Franzosa EA, Huttenhower C.

Genome Med. 2020 08 13. 12(1):71. PMID: 32791981