Author

Chao Dai

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· 3 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 3 Research Focus:gene regulatory network inference· 3 Organism:human· 3 Assay:bulk RNA-seq· 2 Research Focus:database / resource· 2 Approach:experimental assay· 2 Assay:Hi-C· 2 Approach:statistical model· 2

Frequent Co-Authors

Adam J. RubiniD· 2 shared Howard Y. ChangiD· 2 shared Paul A. KhavariiD· 2 shared Ryan A. FlynniD· 2 shared William James GreenleafiD· 2 shared Alexander MarsoniD· 1 shared Anshul Bharat KundajeiD· 1 shared Ansuman T. SatpathyiD· 1 shared

Activity by Year

2016-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersGenomics

Adam J. RubinORCID

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Author profile →

4 papers

Recent·Most cited

Genetic and functional analysis of unproductive splicing using LeafCutter2

Carlos F. Buen Abad Najar, Ru Feng, Chao Dai, Benjamin Jung Fair, Quinn Hauck, Jinghui Li, Xuewei Cao, Kushal K. Dey, Philip L. De Jager, David A. A Bennett, Xuanyao Liu, Gao T. Wang, Yang Li

LeafCutter2 identifies and quantifies unproductive splicing events from RNA-seq data, revealing their role in gene regulation and disease, including Alzheimer's.

bioRxiv · Apr 6, 2025 · PreprintGenomics

MSdb: an integrated expression atlas of human musculoskeletal system

Junxin Lin, Ruonan Tian, Ziwei Xue, Dengfeng Ruan, Pengwei Chen, Yiwen Xu, Chao Dai, Weiliang Shen, Hongwei Ouyang, Wanlu Liu

MSdb provides an integrated expression atlas of human musculoskeletal system data with visualization, analysis tools, and curated phenotype information.

bioRxiv · Nov 23, 2022 · PreprintBioinformatics

Enhancer connectome in primary human cells reveals target genes of disease-associated DNA elements

Maxwell R. Mumbach, Ansuman T. Satpathy, Evan A. Boyle, Chao Dai, Benjamin G. Gowen, Seung Woo Cho, Michelle Ly Thai Nguyen, Adam J. Rubin, Jeffrey M. Granja, Katelynn R. Kazane, Yuning Wei, Trieu Nguyen, Peyton Greenside, M. Ryan Corces, Josh Tycko, , Howard Y. Chang

This paper uses HiChIP to map enhancer-promoter interactions in primary human cells, linking disease-associated DNA variants to their target genes.

Nature Genetics · Sep 25, 2017Peer-reviewedGenomics

HiChIP: Efficient and sensitive analysis of protein-directed genome architecture

Maxwell R Mumbach, Adam J. Rubin, Ryan A. Flynn, Chao Dai, Paul A. Khavari, William J. Greenleaf, Howard Y. Chang

HiChIP improves the yield and reduces input requirements of chromatin conformation analysis, revealing multi-scale genome architecture with better signal-to-background.

bioRxiv · Sep 8, 2016Genomics