Author

Brent Ewing

University of Washington

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

Biology Disciplines

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Genomics· 3 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 4 Assay:scRNA-seq· 4 Approach:statistical model· 4 Research Focus:cell type annotation· 3 Research Focus:gene regulatory network inference· 3 Organism:zebrafish· 3 Organism:human· 1 Assay:scATAC-seq· 1

Frequent Co-Authors

Cole TrapnelliD· 4 shared David KimelmaniD· 3 shared Jay ShendureiD· 3 shared Madeleine DuraniD· 3 shared Sanjay R SrivatsaniD· 3 shared Dana L. JacksoniD· 2 shared David W. RaibleiD· 2 shared Eliza R. BarkaniD· 2 shared

Activity by Year

2022-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 43 mutual co-author links

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4 shared papersGenomics

Cole TrapnellORCID

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Author profile →

4 papers

Recent·Most cited

A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments

Madeleine Duran, Eliza R. Barkan, Amy M Tresenrider, Heidi Lee, Ryan Z. Friedman, Nicholas C Lammers, Marazzano Colón, Jennifer M. Franks, Brent Ewing, David Kimelman, Cole Trapnell

This paper introduces two tools to infer genetic requirements from single-cell sequencing data of perturbed embryos, revealing new roles for transcription factors in zebrafish development.

bioRxiv · Apr 3, 2025 · PreprintBioinformatics

Single-cell analysis of chromatin and expression reveals age- and sex-associated alterations in the human heart

David Fraser Read, Gregory T. Booth, Riza M. Daza, Dana L. Jackson, Rula Green Gladden, Sanjay R Srivatsan, Brent Ewing, Jennifer M. Franks, Cailyn H. Spurrell, Anne Roshella Gomes, Diana R. O’Day, Aishwarya A. Gogate, Beth Martin, H. Hanh Larson, Christian Pfleger, , Cole Trapnell

The paper uses single-nucleus ATAC-Seq and RNA-Seq to analyze age and sex differences in human heart cells, identifying gene expression and chromatin changes linked to these factors.

Communications Biology · Aug 26, 2024Peer-reviewedGenomics

Proteostasis governs differential temperature sensitivity across embryonic cell types

Michael W. Dorrity, Lauren M. Saunders, Madeleine Duran, Sanjay R Srivatsan, Eliza R. Barkan, Dana L. Jackson, Sydney M. Sattler, Brent Ewing, Christine Queitsch, Jay Shendure, David W. Raible, David Kimelman, Cole Trapnell

The paper uses single-cell RNA-seq to study temperature sensitivity in zebrafish embryos, finding that notochord sheath cells are particularly vulnerable due to protein misfolding.

Cell · Nov 1, 2023Peer-reviewedGenomics

Deep molecular, cellular and temporal phenotyping of developmental perturbations at whole organism scale

Lauren M. Saunders, Sanjay R Srivatsan, Madeleine Duran, Michael W. Dorrity, Brent Ewing, Tor H. Linbo, Jay Shendure, David W. Raible, Cecilia B. Moens, David Kimelman, Cole Trapnell

The paper presents single cell transcriptomic data from zebrafish embryos with genetic perturbations to analyze developmental variation and cell type composition.

bioRxiv · Aug 4, 2022 · PreprintGenomics