Scientific Publications

Connecting Small Molecules with Similar Assay Performance Profiles Leads to New Biological Hypotheses.

Publication TypeJournal Article
AuthorsDancík, V., Carrel H., Bodycombe NE, Seiler KP, Fomina-Yadlin D., Kubicek ST, Hartwell K., Shamji AF, Wagner BK, and Clemons PA
AbstractHigh-throughput screening allows rapid identification of new candidate compounds for biological probe or drug development. Here, we describe a principled method to generate "assay performance profiles" for individual compounds that can serve as a basis for similarity searches and cluster analyses. Our method overcomes three challenges associated with generating robust assay performance profiles: (1) we transform data, allowing us to build profiles from assays having diverse dynamic ranges and variability; (2) we apply appropriate mathematical principles to handle missing data; and (3) we mitigate the fact that loss-of-signal assay measurements may not distinguish between multiple mechanisms that can lead to certain phenotypes (e.g., cell death). Our method connected compounds with similar mechanisms of action, enabling prediction of new targets and mechanisms both for known bioactives and for compounds emerging from new screens. Furthermore, we used Bayesian modeling of promiscuous compounds to distinguish between broadly bioactive and narrowly bioactive compound communities. Several examples illustrate the utility of our method to support mechanism-of-action studies in probe development and target identification projects.
Year of Publication2014
JournalJournal of biomolecular screening
Date Published (YYYY/MM/DD)2014/01/24
ISSN Number1087-0571
DOI10.1177/1087057113520226
PubMedhttp://www.ncbi.nlm.nih.gov/pubmed/24464433?dopt=Abstract