iModulonDB: a knowledgebase of microbial transcriptional regulation derived from machine learning. - Kevin Rychel; Katherine Decker; Anand V. Sastry; Patrick V. Phaneuf; Saugat Poudel; Bernhard O. Palsson (Nucleic Acids Res., 2021)

proChIPdb: a chromatin immunoprecipitation database for prokaryotic organisms. - Katherine Decker; Ye Gao; Kevin Rychel; Tahani Al Bulushi; Siddharth M. Chauhan; Donghyuk Kim; Byung-Kwan Cho; Bernhard O. Palsson (Nucleic Acids Res., 2022)

iModulonMiner and PyModulon: Software for unsupervised mining of gene expression compendia. - Anand V. Sastry; Yuan Yuan; Saugat Poudel; Kevin Rychel; Reo Yoo; Cameron R. Lamoureux; Gaoyuan Li; Joshua T. Burrows; Siddharth Chauhan; Zachary B. Haiman; Tahani Al Bulushi; Yara Seif; et al. (PLoS Comput. Biol., 2024)