Drug Target Commons: A Community Effort to Build a Consensus Knowledge Base for Drug-Target Interactions

  • Cell Chem Biol. 2018 Feb 15;25(2):224-229.e2. doi: 10.1016/j.chembiol.2017.11.009.
Jing Tang  1 ,  Zia-Ur-Rehman Tanoli  2 ,  Balaguru Ravikumar  2 ,  Zaid Alam  2 ,  Anni Rebane  2 ,  Markus Vähä-Koskela  2 ,  Gopal Peddinti  2 ,  Arjan J van Adrichem  2 ,  Janica Wakkinen  2 ,  Alok Jaiswal  2 ,  Ella Karjalainen  2 ,  Prson Gautam  2 ,  Liye He  2 ,  Elina Parri  2 ,  Suleiman Khan  2 ,  Abhishekh Gupta  2 ,  Mehreen Ali  2 ,  Laxman Yetukuri  2 ,  Anna-Lena Gustavsson  3 ,  Brinton Seashore-Ludlow  3 ,  Anne Hersey  4 ,  Andrew R Leach  4 ,  John P Overington  5 ,  Gretchen Repasky  2 ,  Krister Wennerberg  6 ,  Tero Aittokallio  7
Affiliations
  • 1. Institute for Molecular Medicine Finland (FIMM), University of Helsinki, 00014 Helsinki, Finland; Department of Mathematics and Statistics, University of Turku, 20014 Turku, Finland. Electronic address: [email protected].
  • 2. Institute for Molecular Medicine Finland (FIMM), University of Helsinki, 00014 Helsinki, Finland.
  • 3. Chemical Biology Consortium Sweden, Karolinska Institutet, 17165 Stockholm, Sweden.
  • 4. European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton CB10 1SD, UK.
  • 5. European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton CB10 1SD, UK; Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire SK10 4TG, UK.
  • 6. Institute for Molecular Medicine Finland (FIMM), University of Helsinki, 00014 Helsinki, Finland. Electronic address: [email protected].
  • 7. Institute for Molecular Medicine Finland (FIMM), University of Helsinki, 00014 Helsinki, Finland; Department of Mathematics and Statistics, University of Turku, 20014 Turku, Finland. Electronic address: [email protected].
PMID: 29276046 DOI: 10.1016/j.chembiol.2017.11.009
Abstract

Knowledge of the full target space of bioactive substances, approved and investigational drugs as well as chemical probes, provides important insights into therapeutic potential and possible adverse effects. The existing compound-target bioactivity data resources are often incomparable due to non-standardized and heterogeneous assay types and variability in endpoint measurements. To extract higher value from the existing and future compound target-profiling data, we implemented an open-data web platform, named Drug Target Commons (DTC), which features tools for crowd-sourced compound-target bioactivity data annotation, standardization, curation, and intra-resource integration. We demonstrate the unique value of DTC with several examples related to both drug discovery and drug repurposing applications and invite researchers to join this community effort to increase the reuse and extension of compound bioactivity data.

Keywords
bioassay annotation; chemical biology; cheminformatics; community effort; crowd sourcing; data curation; drug discovery; drug repositioning; drug repurposing; open data.
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