Quantitative analysis of histone exchange for transcriptionally active chromatin. - Stephanie D. Byrum; Sean D. Taverna; Alan J. Tackett (J. Clin. Bioinform., 2011)

PTMViz: a tool for analyzing and visualizing histone post translational modification data. - Kevin Chappell; Stefan Graw; Charity L. Washam; Aaron J. Storey; Chris Bolden; Eric C. Peterson; Stephanie D. Byrum (BMC Bioinform., 2021)

proteoDA: a package for quantitative proteomics. - Timothy J. Thurman; Charity L. Washam; Duah Alkam; Jordan T. Bird; Allen Gies; Kalyani Dhusia; Michael S. Robeson II; Stephanie D. Byrum (J. Open Source Softw., 2023)

Understanding proteome quantification in an interactive learning module on Google Cloud Platform. - Kyle A. O'Connell; Benjamin Kopchick; Thad B. Carlson; David Belardo; Stephanie D. Byrum (Briefings Bioinform., 2024)