Transporter assays and assay ontologies

Author(s)
Barbara Zdrazil, Christine Chichester, Linda Zander Balderud, Ola Engkvist, Anna Gaulton, John P Overington
Abstract

Transport proteins represent an eminent class of drug targets and ADMET (absorption, distribution, metabolism, excretion, toxicity) associated genes. There exists a large number of distinct activity assays for transport proteins, depending on not only the measurement needed (e.g. transport activity, strength of ligand–protein interaction), but also due to heterogeneous assay setups used by different research groups. Efforts to systematically organize this (divergent) bioassay data have large potential impact in Public-Private partnership and conventional commercial drug discovery. In this short review, we highlight some of the frequently used high-throughput assays for transport proteins, and we discuss emerging assay ontologies and their application to this field. Focusing on human P-glycoprotein (Multidrug resistance protein 1; gene name: ABCB1, MDR1), we exemplify how annotation of bioassay data per target class could improve and add to existing ontologies, and we propose to include an additional layer of metadata supporting data fusion across different bioassays.

Organisation(s)
External organisation(s)
Swiss Institute of Bioinformatics, AstraZeneca, European Bioinformatics Institute
Journal
Drug Discovery Today: Technologies
Volume
12
Pages
e47-e54
DOI
https://doi.org/10.1016/j.ddtec.2014.03.005
Publication date
06-2014
Peer reviewed
Yes
Austrian Fields of Science 2012
104004 Chemical biology, 102030 Semantic technologies, 102004 Bioinformatics
ASJC Scopus subject areas
Drug Discovery, Molecular Medicine
Portal url
https://ucris.univie.ac.at/portal/en/publications/transporter-assays-and-assay-ontologies(ea07b61f-e46f-4b73-8e0d-4733656026fd).html