Shawn M. Gomez - researchr alias

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Viewing Publication 1 - 15 from 15

2024

SALSA: Semantically-Aware Latent Space AutoencoderKathryn E. Kirchoff, Travis Maxfield, Alexander Tropsha, Shawn M. Gomez. AAAI 2024: 13211-13219 [doi]

Utilizing Low-Dimensional Molecular Embeddings for Rapid Chemical Similarity SearchKathryn E. Kirchoff, James Wellnitz, Joshua E. Hochuli, Travis Maxfield, Konstantin I. Popov, Shawn M. Gomez, Alexander Tropsha. ecir 2024: 34-49 [doi]

2023

Kinome inhibition states and multiomics data enable prediction of cell viability in diverse cancer typesMatthew E. Berginski, Chinmaya U. Joisa, Brian T. Golitz, Shawn M. Gomez. ploscb, 19(2), February 2023. [doi]

2022

EMBER: multi-label prediction of kinase-substrate phosphorylation events through deep learningKathryn E. Kirchoff, Shawn M. Gomez. bioinformatics, 38(8):2119-2126, 2022. [doi]

2021

The Dark Kinase Knowledgebase: an online compendium of knowledge and experimental results of understudied kinasesMatthew E. Berginski, Nienke Moret, Changchang Liu, Dennis Goldfarb, Peter K. Sorger, Shawn M. Gomez. nar, 49(Database-Issue), 2021. [doi]

2013

The Focal Adhesion Analysis Server: a web tool for analyzing focal adhesion dynamicsMatthew E. Berginski, Shawn M. Gomez. f1000research, 2:68, 2013. [doi]

2011

A Whole-Body Model for Glycogen Regulation Reveals a Critical Role for Substrate Cycling in Maintaining Blood Glucose HomeostasisKe Xu, Kevin T. Morgan, Abby Todd Gehris, Timothy C. Elston, Shawn M. Gomez. ploscb, 7(12), 2011. [doi]

2010

Enhancing metabolomic data analysis with Progressive Consensus Alignment of NMR Spectra (PCANS)Jennifer M. Staab, Thomas M. O Connell, Shawn M. Gomez. bmcbi, 11:123, 2010. [doi]

2009

Comparison of phylogenetic trees through alignment of embedded evolutionary distancesKwangbom Choi, Shawn M. Gomez. bmcbi, 10:423, 2009. [doi]

2003

Learning to predict protein-protein interactions from protein sequencesShawn M. Gomez, William Stafford Noble, Andrey Rzhetsky. bioinformatics, 19(15):1875-1881, 2003.

2002

Towards the Prediction of Complete Protein-Protein Interaction NetworksShawn M. Gomez, Andrey Rzhetsky. psb 2002: 413-424 [doi]

Of truth and pathways: chasing bits of information through myriads of articlesMichael Krauthammer, Pauline Kra, Ivan Iossifov, Shawn M. Gomez, George Hripcsak, Vasileios Hatzivassiloglou, Carol Friedman, Andrey Rzhetsky. ismb 2002: 249-257

2001

Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genomeAndrey Rzhetsky, Shawn M. Gomez. bioinformatics, 17(10):988-996, 2001.

GeneWays: A System for Mining Text and for Integrating Data on Molecular PathwaysAndrey Rzhetsky, Michael Krauthammer, Tomohiro Koike, Pauline Kra, Shawn M. Gomez, Hong Yu, Pablo Ariel Duboué, Wubin Weng, Steven B. Johnson, Vasileios Hatzivassiloglou, Carol Friedman. gcb 2001: 2-5

2000

A knowledge model for analysis and simulation of regulatory networksAndrey Rzhetsky, Tomohiro Koike, Sergey Kalachikov, Shawn M. Gomez, Michael Krauthammer, Sabina H. Kaplan, Pauline Kra, James J. Russo, Carol Friedman. bioinformatics, 16(12):1120-1128, 2000.

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