Machine learning in computational biology to accelerate high-throughput protein expression. - Anand Sastry 002; Jonathan Monk; Hanna Tegel; Mathias Uhlen; Bernhard O. Palsson; Johan Rockberg; Elizabeth Brunk (Bioinform., 2017)

ssbio: a Python framework for structural systems biology. - Nathan Mih; Elizabeth Brunk; Ke Chen; Edward Catoiu; Anand Sastry 002; Erol S. Kavvas; Jonathan M. Monk; Zhen Zhang; Bernhard O. Palsson (Bioinform., 2018)

Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa. - Xin Fang; Jonathan M. Monk; Nathan Mih; Bin Du; Anand Sastry 002; Erol S. Kavvas; Yara Seif; Larry Smarr; Bernhard O. Palsson (BMC Syst. Biol., 2018)

BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data. - Jean-Christophe Lachance; Colton J. Lloyd; Jonathan M. Monk; Laurence Yang 001; Anand Sastry 002; Yara Seif; Bernhard O. Palsson; Sébastien Rodrigue; Adam M. Feist; Zachary A. King; Pierre-Étienne Jacques (PLoS Comput. Biol., 2019)

Optimal dimensionality selection for independent component analysis of transcriptomic data. - John Luke McConn; Cameron R. Lamoureux; Saugat Poudel; Bernhard O. Palsson; Anand V. Sastry (BMC Bioinform., 2021)

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)

Independent component analysis recovers consistent regulatory signals from disparate datasets. - Anand V. Sastry; Alyssa Hu; David Heckmann; Saugat Poudel; Erol S. Kavvas; Bernhard O. Palsson (PLoS Comput. Biol., 2021)

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)