Author

Beijing Wu

Stanford Medicine

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· 4 Bioengineering· 1 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Research Focus:gene regulatory network inference· 4 Organism:human· 4 Assay:scATAC-seq· 3 Approach:statistical model· 3 Assay:ATAC-seq· 2 Research Focus:cell type annotation· 2 Research Focus:clustering· 2

Frequent Co-Authors

William James GreenleafiD· 5 shared Howard Y. ChangiD· 3 shared Adam J. RubiniD· 2 shared Alicia N. SchepiD· 2 shared Ansuman T. SatpathyiD· 2 shared Arwa S. Kathiria· 2 shared Jason Daniel BuenrostroiD· 2 shared M. Ryan CorcesiD· 2 shared

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2017-2025 · peak 3/yr

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10 top collaborators · 35 mutual co-author links

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5 shared papersGenomics

William James GreenleafORCID

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6 papers

Recent·Most cited

Cells as Single-Molecule Protein Proximity Networks

Filip Karlsson, Michele Simonetti, Christina Galonska, Max Karlsson, Hanna van Ooijen, Divya Thiagarajan, Tomasz Kallas, Maud Schweitzer, Ludvig Larsson, Vincent van Hoef, Pouria Tajvar, Johan Dahlberg, Florian De Temmerman, Louise Leijonancker, Vanessa Trombin, , Simon Fredriksson

The paper introduces PNA, a DNA-based method to map protein organization and interactions in single cells, revealing abundance, clustering, and colocalization relationships.

bioRxiv · Jun 19, 2025 · PreprintBioengineering

Landscape of stimulation-responsive chromatin across diverse human immune cells

Diego Calderon, Michelle Ly Thai Nguyen, Anja Mezger, Arwa S. Kathiria, Fabian Müller, Vinh Q. Nguyen, Ninnia Lescano, Beijing Wu, John J. Trombetta, Jessica V. Ribado, David A. Knowles, Ziyue Gao, Franziska Blaeschke, Audrey V. Parent, Trevor D. Burt, , Jonathan K. Pritchard

The paper maps stimulation-responsive chromatin changes in immune cells and identifies variants linked to autoimmunity.

Nature Genetics · Sep 30, 2019Peer-reviewedGenomics

Coupled single-cell CRISPR screening and epigenomic profiling reveals causal gene regulatory networks

Adam J. Rubin, Kevin R. Parker, Ansuman T. Satpathy, Yanyan Qi, Beijing Wu, Alvin J. Ong, Maxwell R. Mumbach, Andrew L. Ji, Daniel Sunwook Kim, Seung Woo Cho, Brian J. Zarnegar, William James Greenleaf, Howard Y. Chang, Paul A. Khavari

Perturb-ATAC combines CRISPR perturbations with single-cell ATAC-seq to identify gene regulatory networks in human cells.

Cell · Dec 20, 2018Peer-reviewedGenomics

An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues

M. Ryan Corces, Alexandro E. Trevino, Emily G. Hamilton, Peyton Greenside, Nasa Sinnott-Armstrong, Sam S. Vesuna, Ansuman T. Satpathy, Adam J. Rubin, Kathleen S. Montine, Beijing Wu, Arwa S. Kathiria, Seung Woo Cho, Maxwell R. Mumbach, Ava C. Carter, Maya M. Kasowski, , Howard Y. Chang

Omni-ATAC improves ATAC-seq by reducing background noise and enabling analysis of frozen tissues, revealing disease-associated DNA element activities in human brain structures.

Nature Methods · Aug 28, 2017Peer-reviewedGenomics

chromVAR: Inferring transcription factor variation from single-cell epigenomic data

Alicia N. Schep, Beijing Wu, Jason Daniel Buenrostro, William James Greenleaf

chromVAR analyzes sparse scATAC-seq data to estimate motif-associated accessibility changes and cluster profiles while controlling technical biases.

Nature Methods · Aug 21, 2017Peer-reviewedBioinformatics

Single-cell epigenomics maps the continuous regulatory landscape of human hematopoietic differentiation

Jason Daniel Buenrostro, M. Ryan Corces, Beijing Wu, Alicia N. Schep, Caleb A. Lareau, Ravindra Majeti, Howard Y. Chang, William James Greenleaf

The paper uses single-cell chromatin accessibility to map the continuous regulatory variation in human hematopoietic differentiation and identifies epigenomic heterogeneity within cell populations.

bioRxiv · Feb 21, 2017 · PreprintGenomics