Author

Seth Rakoff-Nahoum

Broad InstituteORCID 0000-0002-3233-0675Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Microbiology· 2 Genomics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Approach:experimental assay· 3 Organism:human· 3 Organism:mouse· 2 Assay:bulk RNA-seq· 1 Assay:CRISPR screen· 1 Approach:deep learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Marco JostiD· 2 shared Aleksandra ProcheraiD· 1 shared Amy ShepherdiD· 1 shared Anoohya N. MuppiralaiD· 1 shared Baylee J. RusselliD· 1 shared Biju IssaciD· 1 shared Daniel J. PomerantziD· 1 shared Emily P. BalskusiD· 1 shared

Activity by Year

2025-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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Curved chords = mutual co-authorship

2 shared papersMicrobiology

Marco JostORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Metabolism of bilirubin to urobilinogen by human gut bacteria occurs by a branched, multi-enzyme pathway

Baylee J. Russell, Erik Hasenoehrl, Victoria M. Marando, Joy Lu, Jessica Ming Hui Chen, Michael J. James, Mudita Goyal, Suzanne Walker, Seth Rakoff-Nahoum, Marco Jost

This study identifies BilR and BilV as enzymes involved in the branched microbial metabolism of bilirubin to urobilinogen in the human gut.

bioRxiv · Jun 10, 2026 · PreprintMicrobiology

Systematic identification and characterization of regulators of aryl hydrocarbon receptor signaling

Manasvi Verma, Kushaal Desai, Yufang Ding, Xingren Wang, Minwoo Bae, Seth Rakoff-Nahoum, Emily P. Balskus, Michael Andrew Fischbach, Marco Jost

This study identifies regulators of AHR signaling in hepatocytes using CRISPR screening, revealing novel mechanisms and cell-type-specific components for therapeutic targeting.

bioRxiv · Sep 15, 2025 · PreprintGenomics

Enteric glia regulate Paneth cell secretion and intestinal microbial ecology

Aleksandra Prochera, Anoohya N. Muppirala, Gavin A. Kuziel, Salima Soualhi, Amy Shepherd, Liang Sun, Biju Issac, Harry J. Rosenberg, Farah Karim, Kristina Perez, Kyle H. Smith, Tonora H. Archibald, Seth Rakoff-Nahoum, Susan J. Hagen, Meenakshi Rao

This study shows that enteric glia regulate Paneth cell secretion and microbial ecology but have minimal effects on overall intestinal epithelial transcription.

eLife · Apr 14, 2025Peer-reviewedNeuroscience

A glycan atlas of the mammalian intestine through ontogeny and inflammation

Steven J. Siegel, Daniel J. Pomerantz, Jamie Heimburg‐Molinaro, Shaikh Danish Mahmood, Joshua R. Korzenik, Richard D. Cummings, Seth Rakoff-Nahoum

This paper maps intestinal glycans across development, diet, and inflammation in mice and humans, identifying dynamic changes and microbiome influences.

bioRxiv · Mar 6, 2025 · PreprintMicrobiology