Improved quality control processing of peptide-centric LC-MS proteomics data. - Melissa M. Matzke; Katrina M. Waters; Thomas O. Metz; Jon M. Jacobs; Amy C. Sims; Ralph S. Baric; Joel G. Pounds; Bobbie-Jo M. Webb-Robertson (Bioinform., 2011)

A Simulation Framework to Investigate in vitro Viral Infection Dynamics. - Armand Bankhead III; Emiliano Mancini; Amy C. Sims; Ralph S. Baric; Shannon K. McWeeney; Peter M. A. Sloot (ICCS, 2011)

Specific mutations in H5N1 mainly impact the magnitude and velocity of the host response in mice. - Nicolas Tchitchek; Amie J. Eisfeld; Jennifer Tisoncik-Go; Laurence Josset; Lisa E. Gralinski; Christophe Bécavin; Susan C. Tilton; Bobbie-Jo M. Webb-Robertson; Martin T. Ferris; Allison L. Totura; Chengjun Li; Gabriele Neumann; et al. (BMC Syst. Biol., 2013)

Protein co-expression network analysis (ProCoNA). - David L. Gibbs; Arie Baratt; Ralph S. Baric; Yoshihiro Kawaoka; Richard D. Smith; Eric S. Orwoll; Michael G. Katze; Shannon K. McWeeney (J. Clin. Bioinform., 2013)

The effect of inhibition of PP1 and TNFα signaling on pathogenesis of SARS coronavirus. - Jason E. McDermott; Hugh D. Mitchell; Lisa E. Gralinski; Amie J. Eisfeld; Laurence Josset; Armand Bankhead III; Gabriele Neumann; Susan C. Tilton; Alexandra Schäfer; Chengjun Li; Shufang Fan; Shannon K. McWeeney; et al. (BMC Syst. Biol., 2016)

Unified feature association networks through integration of transcriptomic and proteomic data. - Ryan S. McClure; Jason P. Wendler; Joshua N. Adkins; Jesica Swanstrom; Ralph S. Baric; Brooke L. Deatherage Kaiser; Kristie L. Oxford; Katrina M. Waters; Jason E. McDermott (PLoS Comput. Biol., 2019)

Hypergraph models of biological networks to identify genes critical to pathogenic viral response. - Song Feng; Emily Heath; Brett A. Jefferson; Cliff A. Joslyn; Henry Kvinge; Hugh D. Mitchell; Brenda Praggastis; Amie J. Eisfeld; Amy C. Sims; Larissa B. Thackray; Shufang Fan; Kevin B. Walters; et al. (BMC Bioinform., 2021)

Coronavirus Immunotherapeutic Consortium Database. - Jarjapu Mahita; Brendan Ha; Anais Gambiez; Sharon L. Schendel; Haoyang Li; Kathryn M. Hastie; S. Moses Dennison; Kan Li; Natalia Kuzmina; Sivakumar Periasamy; Alexander Bukreyev; Jennifer E. Munt; et al. (Database J. Biol. Databases Curation, 2023)