The Mitochondrial Protein Import Machinery of Plants (MPIMP) database. - Ryan Lister; Monika W. Murcha; James Whelan (Nucleic Acids Res., 2003)

STAR: an integrated solution to management and visualization of sequencing data. - Tao Wang; Jie Liu; Li Shen; Julian Tonti-Filippini; Yun Zhu; Haiyang Jia; Ryan Lister; John W. Whitaker; Joseph R. Ecker; A. Harvey Millar; Bing Ren; Wei Wang 051 (Bioinform., 2013)

methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data. - Kamal Kishore; Stefano de Pretis; Ryan Lister; Marco J. Morelli; Valerio Bianchi; Bruno Amati; Joseph R. Ecker; Mattia Pelizzola (BMC Bioinform., 2015)

Integrative analysis of 111 reference human epigenomes Open. - Roadmap Epigenomics Consortium; Anshul Kundaje; Wouter Meuleman; Jason Ernst; Misha Bilenky; Angela Yen; Alireza Heravi Moussavi; Pouya Kheradpour; ZhiZhuo Zhang; Jianrong Wang; Michael J. Ziller; Viren Amin; et al. (Nat., 2015)

HOME: a histogram based machine learning approach for effective identification of differentially methylated regions. - Akanksha Srivastava; Yuliya V. Karpievitch; Steven R. Eichten; Justin O. Borevitz; Ryan Lister (BMC Bioinform., 2019)

schex avoids overplotting for large single-cell RNA-sequencing datasets. - Saskia Freytag; Ryan Lister (Bioinform., 2020)