Open PHACTS: semantic interoperability for drug discovery.

By Antony J. Williams, L. Harland, Paul Groth, S. Pettifer, C. Chichester, Egon Willighagen, Chris T. A. Evelo, N. Blomberg, Gerhard F. Ecker, Carole A. Goble and 1 more. Drug Discovery Today, 2012

324 citations recorded by the source corpus.

Open PHACTS is a public-private partnership between academia, publishers, small and medium sized enterprises and pharmaceutical companies. The goal of the project is to deliver and sustain an 'open pharmacological space' using and enhancing state-of-the-art semantic web standards and technologies. It is focused on practical and robust applications to solve specific questions in drug discovery research. OPS is intended to facilitate improvements in drug discovery in academia and industry and to support open innovation and in-house non-public drug discovery research. This paper lays out the challenges and how the Open PHACTS project is hoping to address these challenges technically and socially.

Subfields: Computational Theory and Mathematics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/009a966a3dc03da801c0ffdd5c54b74c4fa10f98

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Citations in the corpus

WikiPathways: capturing the full diversity of pathway knowledge (2015, unknown): “0 (15)), and drug-discovery data (Open PHACTS (16)).”
The ChEMBL database as linked open data (2013, methodology): “ChemSpider is presently providing the chemical structure, substructure and similarity searching services underpinning the Open PHACTS semantic web project [4].”
The IUPHAR/BPS Guide to PHARMACOLOGY: an expert-driven knowledgebase of drug targets and their ligands (2013, background): “This will allow our content to be exploited in new integration initiatives such as Open PHACTS (38), of which we are already an associate member.”
PubChemRDF: towards the semantic annotation of PubChem compound and substance databases (2015, background): “Other RDF-based resources exist, such as European Bioinformatics Institute (EBI) RDF [21], Bio2RDF [22, 23], Linked Open Drug Data (LODD) [24], Chem-2Bio2RDF [25], Open PHACTS [26], ChEMBL RDF [27], and others.”
The ChEMBL bioactivity database: an update (2013, background): “…target; investigation of the selectivity and off-targets effects of drugs; large-scale data mining, such as the construction of predictive models for targets and identiﬁcation of bioisostere replacements or activity cliffs (1–4); and as a key component of integrated drug discovery platforms (5–7).”
The IUPHAR/BPS Guide to PHARMACOLOGY in 2016: towards curated quantitative interactions between 1300 protein targets and 6000 ligands (2015, methodology): “Furthermore, we are exploring options for providing access to our data in Resource Description Framework (RDF) format, which can be readily integrated in semantic web projects such as Open-PHACTS (38).”
UniChem: extension of InChI-based compound mapping to salt, connectivity and stereochemistry layers (2014, background): “Other resources provide similar mapping services [3-9], and some differences, advantages and disadvantages of these over UniChem have already been discussed [1].”
The ChEMBL database in 2017 (2016, background): “ChEMBL data is incorporated into a wide range of other resources including PubChem BioAssay (52), BindingDB (11), CanSAR (53), Open PHACTS (54), Open Targets (55) and the Target Central Resource Database/PHAROS (http: //juniper.”