Author

Amy F. Chen

Stanford UniversityORCID 0000-0001-9250-1424Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Organism:human· 3 Assay:ATAC-seq· 2 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Assay:scRNA-seq· 2 Assay:CITE-seq· 1

Frequent Co-Authors

William James GreenleafiD· 3 shared Arwa S. Kathiria· 2 shared Alexander MarsoniD· 1 shared Benjamin E. ParksiD· 1 shared Benjamin Ober‐Reynolds· 1 shared Christian M. Garrido· 1 shared Eric T. KooliD· 1 shared Fabian MülleriD· 1 shared

Activity by Year

2022-2022 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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3 shared papersGenomics

William James GreenleafORCID

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3 papers

Recent·Most cited

GenomicsNature GeneticsPeer-reviewedJul 11, 2022

Systematic discovery and perturbation of regulatory genes in human T cells reveals the architecture of immune networks

Jacob W. Freimer, Oren Shaked, Sahin Naqvi…·Alexander Marson

The paper identifies upstream regulators of immune genes in human T cells and maps their regulatory network, revealing its enrichment for immune disease variants.

98 citationstop 2%

humanscRNA-seq

𝕏 PostBluesky

GenomicsNature MethodsPeer-reviewedMay 1, 2022

NEAT-seq: Simultaneous profiling of intra-nuclear proteins, chromatin accessibility, and gene expression in single cells

Amy F. Chen, Benjamin E. Parks, Arwa S. Kathiria…·William James Greenleaf

NEAT-seq profiles nuclear proteins, chromatin accessibility, and transcriptomes in single cells, revealing TF regulatory mechanisms and linking GWAS SNPs to chromatin accessibility and target genes.

139 citationstop 1%

humanscRNA-seq

𝕏 PostBluesky

GenomicsCell Reports MethodsPeer-reviewedMar 1, 2022

Integrating transcription factor abundance with chromatin accessibility in human erythroid lineage commitment

Reema Baskar, Amy F. Chen, Patricia M.B. Favaro…·Sean C. Bendall

The paper introduces InTAC-seq to quantify chromatin accessibility and transcription factor abundance in fixed cells, showing GATA1's role in erythroid lineage commitment.

15 citations

humanATAC-seq

𝕏 PostBluesky