Scholar: Paul Shannon

Paul Shannon

Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types

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Absolute Quantification of Transcription Factors Reveals Principles of Gene Regulation in Erythropoiesis

  • Mark A Gillespie, Carmen G Palii, Daniel Sanchez-Taltavull, …, Theodore J Perkins, Jeffrey A Ranish, Marjorie Brand
  • Mol Cell, 10.1016/j.molcel.2020.03.031
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Integrative network modeling reveals mechanisms underlying T cell exhaustion

  • Hamid Bolouri, Mary Young, Joshua Beilke, …, Matthew Trotter, Douglas Bassett, Alexander Ratushny
  • Sci Rep, 10.1038/s41598-020-58600-8
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Reproducible big data science: A case study in continuous FAIRness

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Single-Cell Proteomics Reveal that Quantitative Changes in Co-expressed Lineage-Specific Transcription Factors Determine Cell Fate

  • Carmen G Palii, Qian Cheng, Mark A Gillespie, …, Edward Morrissey, Douglas R Higgs, Marjorie Brand
  • Cell Stem Cell, 10.1016/j.stem.2019.02.006
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Genome-Scale Transcriptional Regulatory Network Models of Psychiatric and Neurodegenerative Disorders

  • Jocelynn R Pearl, Carlo Colantuoni, Dani E Bergey, …, Leroy Hood, Nathan D Price, Seth A Ament
  • Cell Syst, 10.1016/j.cels.2019.01.002
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Analysis and visualization of linked molecular and clinical cancer data by using Oncoscape

  • Lisa G McFerrin, Michael Zager, Jianan Zhang, …, Paul Shannon, Hamid Bolouri, Eric C Holland
  • Nat Genet, 10.1038/s41588-018-0208-7
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CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API

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Orchestrating high-throughput genomic analysis with Bioconductor

  • Wolfgang Huber, Vincent J Carey, Robert Gentleman, …, Dan Tenenbaum, Levi Waldron, Martin Morgan
  • Nat Methods, 10.1038/nmeth.3252
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