Beijing Wu
Stanford University
22 Papers
12 Citations
Beijing Wu is an academic researcher from Stanford University. The author has contributed to research in topics: Chromatin & ATAC-seq. The author has an hindex of 15, co-authored 22 publications. Previous affiliations of Beijing Wu include University of California, San Diego.
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Papers
ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide
TL;DR: This method probes DNA accessibility with hyperactive Tn5 transposase, which inserts sequencing adapters into accessible regions of chromatin, which can be used to infer regions of increased accessibility, as well as to map regions of transcription‐factor binding and nucleosome position.
Single-cell chromatin accessibility reveals principles of regulatory variation
Jason D. Buenrostro,Beijing Wu,Ulrike M. Litzenburger,David Ruff,Michael L. Gonzales,Michael Snyder,Howard Y. Chang,William J. Greenleaf +7 more
TL;DR: A robust method for mapping the accessible genome of individual cells by assay for transposase-accessible chromatin using sequencing (ATAC-seq) integrated into a programmable microfluidics platform is developed and single-cell analysis of DNA accessibility provides new insight into cellular variation of the ‘regulome’.
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An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
M. Ryan Corces,Alexandro E. Trevino,Emily G. Hamilton,Peyton Greenside,Nicholas A Sinnott-Armstrong,Sam Vesuna,Ansuman T. Satpathy,Adam J. Rubin,Kathleen S. Montine,Beijing Wu,Arwa Kathiria,Seung Woo Cho,Maxwell R. Mumbach,Ava C. Carter,Maya Kasowski,Lisa A. Orloff,Viviana I. Risca,Anshul Kundaje,Paul A. Khavari,Thomas J. Montine,William J. Greenleaf,Howard Y. Chang +21 more
TL;DR: The Omni-ATAC protocol generates chromatin accessibility profiles from archival frozen tissue samples and 50-μm sections, revealing the activities of disease-associated DNA elements in distinct human brain structures.
chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
TL;DR: chromVAR as mentioned in this paper is an R package for analyzing sparse chromatin-accessibility data by estimating gain or loss of accessibility within peaks sharing the same motif or annotation while controlling for technical biases.
1.4K
Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution
M. Ryan Corces,Jason D. Buenrostro,Jason D. Buenrostro,Beijing Wu,Peyton Greenside,Steven M. Chan,Julie L. Koenig,Michael Snyder,Jonathan K. Pritchard,Jonathan K. Pritchard,Anshul Kundaje,William J. Greenleaf,Ravindra Majeti,Howard Y. Chang +13 more
TL;DR: The chromatin accessibility and transcriptional landscapes in 13 human primary blood cell types that span the hematopoietic hierarchy are defined and 'enhancer cytometry' is enabled for enumeration of pure cell types from complex populations.