A
Adam C. Coffman
Researcher at Washington University in St. Louis
Publications - 28
Citations - 2412
Adam C. Coffman is an academic researcher from Washington University in St. Louis. The author has contributed to research in topics: Computer science & Biology. The author has an hindex of 9, co-authored 17 publications receiving 1636 citations.
Papers
More filters
Journal ArticleDOI
DGIdb 3.0: a redesign and expansion of the drug-gene interaction database.
Kelsy C. Cotto,Alex H. Wagner,Yang-Yang Feng,Susanna Kiwala,Adam C. Coffman,Gregory C. Spies,Alex Wollam,Nicholas C. Spies,Obi L. Griffith,Malachi Griffith +9 more
TL;DR: DGIdb v3.0 has received a major overhaul of its codebase, including an updated user interface, preset interaction search filters, consolidation of interaction information into interaction groups, greatly improved search response times and upgrading the underlying web application framework.
Journal ArticleDOI
CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer
Malachi Griffith,Nicholas C. Spies,Kilannin Krysiak,Joshua F. McMichael,Adam C. Coffman,Arpad Danos,Benjamin J. Ainscough,Cody Ramirez,Damian T. Rieke,Lynzey Kujan,Erica K. Barnell,Alex H. Wagner,Zachary L. Skidmore,Amber Z. Wollam,Connor J. Liu,Martin R. Jones,Rachel L. Bilski,Robert Lesurf,Yan Yang Feng,Nakul M. Shah,Melika Bonakdar,Lee Trani,Matthew K. Matlock,Avinash Ramu,Katie M. Campbell,Gregory C. Spies,Aaron P. Graubert,Karthik Gangavarapu,James M. Eldred,David E. Larson,Jason Walker,Benjamin M. Good,Chunlei Wu,Andrew I. Su,Rodrigo Dienstmann,Adam A. Margolin,David Tamborero,Nuria Lopez-Bigas,Steven J.M. Jones,Ron Bose,David H. Spencer,Lukas D. Wartman,Richard K. Wilson,Elaine R. Mardis,Obi L. Griffith +44 more
TL;DR: CIViC is an expert-crowdsourced knowledgebase for Clinical Interpretation of Variants in Cancer describing the therapeutic, prognostic, diagnostic and predisposing relevance of inherited and somatic variants of all types.
Journal ArticleDOI
DGIdb: mining the druggable genome
Malachi Griffith,Obi L. Griffith,Adam C. Coffman,James V. Weible,Josh F McMichael,Nicholas C. Spies,James Koval,Indraniel Das,Matthew B. Callaway,James M. Eldred,Christopher A. Miller,Janakiraman Subramanian,Ramaswamy Govindan,Runjun D. Kumar,Ron Bose,Li Ding,Jason Walker,David E. Larson,David J. Dooling,Scott M. Smith,Timothy J. Ley,Elaine R. Mardis,Richard K. Wilson +22 more
TL;DR: The Drug-Gene Interaction database (DGIdb) provides an interface for searching lists of genes against a compendium of drug-gene interactions and potentially 'druggable' genes.
Journal ArticleDOI
Integration of the Drug-Gene Interaction Database (DGIdb 4.0) with open crowdsource efforts.
Sharon Freshour,Susanna Kiwala,Kelsy C. Cotto,Adam C. Coffman,Joshua F. McMichael,Jonathan J Song,Malachi Griffith,Obi L. Griffith,Alex H. Wagner +8 more
TL;DR: A primary focus of this update was integration with crowdsourced efforts, leveraging the Drug Target Commons for community-contributed interaction data, Wikidata to facilitate term normalization, and export to NDEx for drug-gene interaction network representations.
Journal ArticleDOI
DGIdb 2.0: mining clinically relevant drug-gene interactions.
Alex H. Wagner,Adam C. Coffman,Benjamin J. Ainscough,Nicholas C. Spies,Zachary L. Skidmore,Katie M. Campbell,Kilannin Krysiak,Deng Pan,Joshua F. McMichael,James M. Eldred,Jason Walker,Rick K. Wilson,Elaine R. Mardis,Malachi Griffith,Obi L. Griffith +14 more
TL;DR: Substantial updates have been made to increase content and improve its usefulness as a resource for mining clinically actionable drug targets, and a new web view and API have been developed to allow searching for interactions by drug identifiers to complement existing gene-based search functionality.