Exploiting open data

Author(s)
Daria Goldmann, Floriane Montanari, Lars Richter, Barbara Zdrazil, Gerhard F Ecker
Abstract

Within the last decade open data concepts has been gaining increasing interest in the area of drug discovery. With the launch of ChEMBL and PubChem, an enormous amount of bioactivity data was made easily accessible to the public domain. In addition, platforms that semantically integrate those data, such as the Open PHACTS Discovery Platform, permit querying across different domains of open life science data beyond the concept of ligand-target-pharmacology. However, most public databases are compiled from literature sources and are thus heterogeneous in their coverage. In addition, assay descriptions are not uniform and most often lack relevant information in the primary literature and, consequently, in databases. This raises the question how useful large public data sources are for deriving computational models. In this perspective, we highlight selected open-source initiatives and outline the possibilities and also the limitations when exploiting this huge amount of bioactivity data.

Organisation(s)
Journal
Future Medicinal Chemistry
Volume
6
Pages
503-514
No. of pages
12
ISSN
1756-8919
DOI
https://doi.org/10.4155/fmc.14.13
Publication date
04-2014
Peer reviewed
Yes
Austrian Fields of Science 2012
301207 Pharmaceutical chemistry
ASJC Scopus subject areas
Drug Discovery, Molecular Medicine, Pharmacology
Portal url
https://ucris.univie.ac.at/portal/en/publications/exploiting-open-data(ff5b5d03-e8a6-49e4-812c-d6fcccf30722).html