Katrina M. Waters

18 papers A 1Journal 16Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
bmdrc: Python package for quantifying phenotypes from chemical exposures with benchmark dose modeling.
PLoS Comput. Biol.
David J. Degnan, Lisa M. Bramer, Lisa Truong, Robyn L. Tanguay, Sara M. Gosline, Katrina M. Waters
2023 J jnl
3′ RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism.
Frontiers Bioinform.
Ryan S. McClure, Yvonne Rericha, Katrina M. Waters, Robyn L. Tanguay
2023 J jnl
Missing data in multi-omics integration: Recent advances through artificial intelligence.
Frontiers Artif. Intell.
Javier E. Flores, Daniel Claborne, Zachary D. Weller, Bobbie-Jo M. Webb-Robertson, Katrina M. Waters, Lisa M. Bramer
2021 J jnl
Hypergraph models of biological networks to identify genes critical to pathogenic viral response.
BMC Bioinform.
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, Peter J. Halfmann, Danielle Westhoff-Smith, Qing Tan, Vineet D. Menachery, Timothy P. Sheahan, Adam S. Cockrell, Jacob F. Kocher, Kelly G. Stratton, Natalie C. Heller, Lisa M. Bramer, Michael S. Diamond, Ralph S. Baric, Katrina M. Waters, Yoshihiro Kawaoka, Jason E. McDermott, Emilie Purvine
2019 J jnl
Bioinformatics Resource Manager: a systems biology web tool for microRNA and omics data integration.
BMC Bioinform.
Joseph Brown, Aaron R. Phillips, David A. Lewis, Michael-Andres Mans, Yvonne Chang, Robert L. Tanguay, Elena S. Peterson, Katrina M. Waters, Susan C. Tilton
2019 J jnl
Unified feature association networks through integration of transcriptomic and proteomic data.
PLoS Comput. Biol.
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
2016 J jnl
The effect of inhibition of PP1 and TNFα signaling on pathogenesis of SARS coronavirus.
BMC Syst. Biol.
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, Ralph S. Baric, Michael G. Katze, Katrina M. Waters
2013 J jnl
Specific mutations in H5N1 mainly impact the magnitude and velocity of the host response in mice.
BMC Syst. Biol.
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, Thomas O. Metz, Richard D. Smith, Katrina M. Waters, Ralph S. Baric, Yoshihiro Kawaoka, Michael G. Katze
2012 J jnl
Bioinformatics resource manager v2.3: an integrated software environment for systems biology with microRNA and cross-species analysis tools.
BMC Bioinform.
Susan C. Tilton, Tamara L. Tal, Sheena M. Scroggins, Jill A. Franzosa, Elena S. Peterson, Robert L. Tanguay, Katrina M. Waters
2012 J jnl
Topological analysis of protein co-abundance networks identifies novel host targets important for HCV infection and pathogenesis.
BMC Syst. Biol.
Jason E. McDermott, Deborah L. Diamond, Courtney D. Corley, Angela L. Rasmussen, Michael G. Katze, Katrina M. Waters
2011 J jnl
Conserved host response to highly pathogenic avian influenza virus infection in human cell culture, mouse and macaque model systems.
BMC Syst. Biol.
Jason E. McDermott, Harish Shankaran, Amie J. Eisfeld, Sarah E. Belisle, Gabriele Neumann, Chengjun Li, Shannon K. McWeeney, Carol Sabourin, Yoshihiro Kawaoka, Michael G. Katze, Katrina M. Waters
2011 J jnl
Improved quality control processing of peptide-centric LC-MS proteomics data.
Bioinform.
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
2010 J jnl
A support vector machine model for the prediction of proteotypic peptides for accurate mass and time proteomics.
Bioinform.
Bobbie-Jo M. Webb-Robertson, William R. Cannon, Christopher S. Oehmen, Anuj R. Shah, Vidhya Gurumoorthi, Mary S. Lipton, Katrina M. Waters
2008 J jnl
A support vector machine model for the prediction of proteotypic peptides for accurate mass and time proteomics.
Bioinform.
Bobbie-Jo M. Webb-Robertson, William R. Cannon, Christopher S. Oehmen, Anuj R. Shah, Vidhya Gurumoorthi, Mary S. Lipton, Katrina M. Waters
2008 — conf
An Extensible, Scalable Architecture for Managing Bioinformatics Data and Analyses.
eScience
Anuj R. Shah, Mudita Singhal, Tara D. Gibson, Chandrika Sivaramakrishnan, Katrina M. Waters, Ian Gorton
2008 J jnl
Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models.
Bioinform.
Simon Rogers, Mark A. Girolami, Walter Kolch, Katrina M. Waters, Tao Liu, Brian Thrall, H. Steven Wiley
2007 J jnl
Enabling high-throughput data management for systems biology: The Bioinformatics Resource Manager.
Bioinform.
Anuj R. Shah, Mudita Singhal, Kyle R. Klicker, Eric G. Stephan, H. Steven Wiley, Katrina M. Waters
2006 A conf
Analytics challenge - High-throughput visual analytics biological sciences: turning data into knowledge.
SC
Christopher S. Oehmen, Lee Ann McCue, Joshua N. Adkins, Katrina M. Waters, Tim Carlson, William R. Cannon, Bobbie-Jo M. Webb-Robertson, Douglas J. Baxter, Elena S. Peterson, Mudita Singhal, Anuj R. Shah, Kyle R. Klicker