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Biorxiv : the Preprint Server for Biology|March 18, 2026
Improving confidence of differential transcription calls in enhancersHope A Townsend, Jacob T Stanley, Mary A Allen, et al.
Bioinformatics Advances|July 1, 2026
Improving calls of differentially transcribed enhancers and their upstream regulatorsHope A Townsend, Jacob T Stanley, Mary A Allen, et al.
BMC Genomics|March 8, 2022
Protocol variations in run-on transcription dataset preparation produce detectable signatures in sequencing librariesSamuel Hunter, Rutendo F Sigauke, Jacob T Stanley, et al.
Frontiers in Neuroscience|June 26, 2023
Determination of steady-state transcriptome modifications associated with repeated homotypic stress in the rat rostral posterior hypothalamic regionSerge Campeau, Connor McNulty, Jacob T Stanley, et al.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing|December 5, 2019
Two-stage ML Classifier for Identifying Host Protein Targets of the Dengue ProteaseJacob T Stanley, Alison R Gilchrist, Alex C Stabell, et al.
Nucleic Acids Research|April 14, 2025
LIET model: capturing the kinetics of RNA polymerase from loading to terminationJacob T Stanley, Georgia E F Barone, Hope A Townsend, et al.
Biorxiv : the Preprint Server for Biology|January 23, 2026
Base Composition Influences the Position and Precision of RNA Polymerase II Disassociation in Basal and Perturbed ConditionsGeorgia E F Barone, Jacob T Stanley, Daniel Ramirez, et al.
BMC Genomics|April 25, 2025
Atlas of nascent RNA transcripts reveals tissue-specific enhancer to gene linkagesRutendo F Sigauke, Lynn Sanford, Zachary L Maas, et al.
Biorxiv : the Preprint Server for Biology|December 18, 2023
Atlas of nascent RNA transcripts reveals enhancer to gene linkagesRutendo F Sigauke, Lynn Sanford, Zachary L Maas, et al.
Communications Biology|June 3, 2021
Transcription factor enrichment analysis (TFEA) quantifies the activity of multiple transcription factors from a single experimentJonathan D Rubin, Jacob T Stanley, Rutendo F Sigauke, et al.
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