Author

David A Knowles

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

Signature Assays, Organisms & Methods

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Organism:human· 3 Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Research Focus:benchmarking· 1 Research Focus:GWAS / association mapping· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Alexis Battle· 2 shared Douglas F Levinson· 2 shared James B Potash· 2 shared Jianxin ShiiD· 2 shared Myrna M Weissman· 2 shared Sara MostafaviiD· 2 shared Stephen B Montgomery· 2 shared Xiaowei Zhu· 2 shared

Activity by Year

2015-2017 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 44 mutual co-author links

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2 shared papersGenomics

Alexis Battle

Mutual co-authors in cluster

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3 papers

Recent·Most cited

Allele-specific expression reveals interactions between genetic variation and environment

David A Knowles, Joe R Davis, Anil Raj, Xiaowei Zhu, James B Potash, Myrna M Weissman, Jianxin Shi, Douglas F Levinson, Sara Mostafavi, Stephen B Montgomery, Alexis Battle

The paper identifies gene-environment interactions by analyzing allele-specific expression in whole blood from 922 individuals using a hierarchical Bayesian model.

Nature Methods · May 22, 2017Peer-reviewedGenomics

Batch effects and the effective design of single-cell gene expression studies

Po-Yuan Tung, John D Blischak, Chiaowen Hsiao, David A Knowles, Jonathan E Burnett, Jonathan K Pritchard, Yoav Gilad

This study identifies genotype as the major source of variation in scRNA-seq data and highlights technical replicate variation, suggesting a framework for effective study design.

Scientific Reports · Jan 3, 2017Peer-reviewedGenomics

Impact of the X chromosome and sex on regulatory variation

Kimberly R Kukurba, Princy Parsana, Kevin S Smith, Zachary Zappala, David A Knowles, Marie-Julie Favé, Xin Li, Xiaowei Zhu, James B Potash, Myrna M Weissman, Jianxin Shi, Anshul Kundaje, Douglas F Levinson, Philip Awadalla, Sara Mostafavi, , Stephen B Montgomery

This study examines how the X chromosome and sex influence gene regulation and disease by analyzing gene expression and regulatory variation in whole blood from 922 individuals.

bioRxiv · Aug 7, 2015Genomics