Knowledge Management Center for Illuminating the Druggable Genome
Chief, Translational Informatics Division
Department of Internal Medicine
Health Sciences Center
University of New Mexico
- Translational Informatics Division: http://datascience.unm.edu/
- TCRD (Target Central Resource Database): http://juniper.health.unm.edu/tcrd/
- REST API for TCRD (underlying data for Pharos): http://juniper.health.unm.edu/tcrd/api.html
- TINx (Target Importance and Novelty eXplorer): http://newdrugtargets.org/
- DrugCentral (utilized to annotate Tclin): http://drugcentral.org/
KMC grant at UNM is led by Dr. Tudor Oprea and includes collaborations with Dr. Lars Juhl Jensen’s lab at NNFCPR and at EMBL-EBI with Dr. Andrew Leach as their Group Lead. Work from UNM includes the development of TCRD, the main database supporting Pharos, and appropriate visualization tools, such as TINx. Work by Dr. Oprea’s group include evaluation of the data collated into TCRD and led to the categorization of target proteins based on knowledge levels, Target Development Levels (TDL): Tdark are targets with least knowledge. Next level of development are Tbio, proteins with further annotation of function or biological process, including confirmed OMIM phenotypes. With the discovery of protein interacting with a drug or compound, these proteins are classified as Tchem if these compound activities satisfy activity thresholds set based on protein biological class. Further annotation via DrugCentral regarding the mechanism of action for approved drugs elevates the target into the TDL of Tclin, i.e., protein with highest attained annotation.
NIH grant number: 1U24 CA224370-01
Nature Rev. Drug Discov. Poster
Unexplored opportunities in the druggable human genome, T. Oprea, et al., Nature Rev. Drug Discov. Poster Jan. 2017.
- Pharos: Collating protein information to shed light on the druggable genome. Nguyen DT, Mathias S, Bologa C, Brunak S, Fernandez N, Gaulton A, Hersey A, Holmes J, Jensen LJ, Karlsson A, Liu G, Ma'ayan A, Mandava G, Mani S, Mehta S, Overington J, Patel J, Rouillard AD, Schürer S, Sheils T, Simeonov A, Sklar LA, Southall N, Ursu O, Vidovic D, Waller A, Yang J, Jadhav A, Oprea TI, Guha R. Nucleic Acids Res. 2017 Jan 4;45(D1):D995-D1002. doi: 10.1093/nar/gkw1072. Epub 2016 Nov 29. PMID: 27903890, PMCID: PMC5210555
- Unexplored opportunities in the druggable human genome, T. Oprea, et al., Nature Rev. Drug Discov. Poster Jan. 2017.