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Bioinformatics (Oxford, England)|December 21, 2016
EGAD: ultra-fast functional analysis of gene networksSara Ballouz, Melanie Weber, Paul Pavlidis, et al.Biorxiv : the Preprint Server for Biology|March 10, 2025
Cell Type-Agnostic Transcriptomic Signatures Enable Uniform Comparisons of NeurodevelopmentSridevi Venkatesan, Jonathan M Werner, Yun Li, et al.Developmental Cell|August 1, 2022
Variability of cross-tissue X-chromosome inactivation characterizes timing of human embryonic lineage specification eventsJonathan M Werner, Sara Ballouz, John Hover, et al.Nucleic Acids Research|May 3, 2018
The fractured landscape of RNA-seq alignment: the default in our STARsSara Ballouz, Alexander Dobin, Thomas R Gingeras, et al.Plos Biology|April 15, 2026
Cell type-agnostic transcriptomic signatures enable uniform comparisons of neural maturationSridevi Venkatesan, Jonathan M Werner, Yun Li, et al.Proceedings of the National Academy of Sciences of the United States of America|March 9, 2019
Predictability of human differential gene expressionMegan Crow, Nathaniel Lim, Sara Ballouz, et al.Plos One|July 29, 2016
Ligand Similarity Complements Sequence, Physical Interaction, and Co-Expression for Gene Function PredictionMatthew J O'Meara, Sara Ballouz, Brian K Shoichet, et al.Nucleic Acids Research|May 12, 2020
CoCoCoNet: conserved and comparative co-expression across a diverse set of speciesJohn Lee, Manthan Shah, Sara Ballouz, et al.Elife|December 15, 2022
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promotersYi-Jun Sheu, Risa Karakida Kawaguchi, Jesse Gillis, et al.Nature Communications|March 2, 2018
Characterizing the replicability of cell types defined by single cell RNA-sequencing data using MetaNeighborMegan Crow, Anirban Paul, Sara Ballouz, et al.Pageof 16