Author

Thomas Carroll

Rockefeller University

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Same name, identified by ORCID

Biology Disciplines

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Developmental Biology· 1 Genomics· 1 Microbiology· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Assay:bulk RNA-seq· 2 Approach:experimental assay· 2 Approach:statistical model· 2 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1 Research Focus:chromatin & epigenetic regulation· 1 Research Focus:clustering· 1

Frequent Co-Authors

Accelerating Medicines Partnership: RA/SLE Network· 1 shared Albert Ruzo· 1 shared Ali DaneshiD· 1 shared Ali H. BrivanlouiD· 1 shared Anna YoneyiD· 1 shared Anne‐Marie MalfaitiD· 1 shared Bella Y. MehtaiD· 1 shared Caryn R. HaleiD· 1 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 16 mutual co-author links

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Curved chords = mutual co-authorship

1 shared paperGenomics

Accelerating Medicines Partnership: RA/SLE Network

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Author profile →

3 papers

Recent·Most cited

Synovial transcriptional clusters link cartilage degeneration to cell-type-specific gene expression in knee osteoarthritis

Michael R. Mazzucco, Bella Y. Mehta, Jenelys Ruiz Ortiz, Caryn R. Hale, Fuadur Omi, Purva Singh, Ruoxi Yuan, Samantha G. Lessard, Eun Kyung Song, Mengrui Zhang, Shady Younis, William H. Robinson, Daniel C. Ramirez, Edward F. DiCarlo, Wei Wang, , Dana E. Orange

The paper identifies four synovial transcriptional clusters in knee OA linked to cartilage degeneration severity through bulk and single-cell RNA-seq analyses.

bioRxiv · Apr 24, 2026 · PreprintGenomics

HIV-1 Integration Site Determines the Transcriptional Fate and Persistence of Integrated Proviruses

Virender Kumar Pal, Ali Danesh, Marie Canis, Thomas R. Dilling, Itzayana G. Miller, Tan Thinh Huynh, Dennis C. Copertino, Douglas Barrows, Thomas Carroll, Théodora Hatziioannou, R. Brad Jones, Guinevere Q. Lee, Frauke Muecksch, Paul D. Bieniasz

This study investigates how HIV-1 integration sites influence viral latency and clonal expansion in human memory CD4+ T cells engrafted into mice.

bioRxiv · Feb 7, 2026 · PreprintMicrobiology

WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids

Anna Yoney, Fred Etoc, Albert Ruzo, Jakob Johannes Metzger, Iain Martyn, Shu Li, Christoph Kirst, Thomas Carroll, Eric D. Siggia, Ali H. Brivanlou

The paper shows that WNT signaling memory enables ACTIVIN to act as a morphogen in human gastruloids by allowing graded responses to ACTIVIN without altering SMAD2 dynamics.

eLife · Oct 12, 2018Peer-reviewedDevelopmental Biology