Download - The Open PHACTS Ecosystem Fostering a user community Open PHACTS Community Workshop June 2014
The Open PHACTS Ecosystem
Fostering a user community
Open PHACTS Community WorkshopJune 2014
Open PHACTS Mission:
Integrate Multiple Research Biomedical Data Resources
Into A Single Open & FreeAccess Point
http://dx.doi.org/10.1016/j.websem.2014.03.003
The Open PHACTS Discovery Platform
• Cloud-Based “Production” Level System. Secure & Private
• Guided By Business Questions
• Uses Semantic Web Technology But provides a simple REST-ful API for the everyone else
http://dx.doi.org/10.1016/j.drudis.2013.05.008
Getting Started Guide: http://www.slideshare.net/pgroth/ops-developerwebinarjuly312013
Drug
Disease (1.4)
PathwayTarget
https://dev.openphacts.org/
Components Workflows
Our Response:
1.4 : Batch Mode for *info methods
1.5+ : –Further batch mode queries–Summary methods (“google maps like”)
Why Use Open PHACTS?
Adding Further Value
Directly Working With Data Owners
P12047X31045
P120
47
GB:29384RS
_2353
ChemSpider Validation & Standardization Platform http://bit.ly/NZF5VB
Quality Assurance
http://www.openphacts.org/specs/2013/WD-datadesc-20130912/
Science-Driven Dynamic Integration
http://bit.ly/1gzOhS2
“What are the physiochemical properties of warfarin salts, tautomers or stereo-isomers?”
“What are the biological responses to warfarin?”
Is Anybody Using It?
API Hits (April 2013 – March 2014)
15.8 million total hits
An “App Store”?
http://www.openphactsfoundation.org/apps.html
Explorer Explorer2 ChemBioNavigator Target Dossier Pharmatrek Helium
MOE Collector Cytophacts Utopia Garfield SciBite
KNIME Mol. Data Sheets PipelinePilot scinav.it Taverna
Road Map
Version 1.4 API (Coming Soon)– Disease –> Target relationships via DisGeNet– Batch Mode Queries– Performance Improvements
Next Step Priorities– Establish the Open PHACTS foundation
• Recruit members and partners– Further develop resources
• Open chemical patent data (SureChEMBL) • Further Gene-Disease associations
(DisGeNet)• Enhance pathway data• Develop the Open PHACTS VM• Faster data update cycle
Future Data Sources– Bio-assay Ontology queries– Better handling of biotherapeutics– Adverse Event Data– Disease Ontology queries– Integrate Reactome– Integrate IUPHAR
What would you vote for?
[email protected] @Open_PHACTS
Open PHACTS Practical Semantics
Pfizer Limited – Coordinator
Universität Wien – Managing entity
Technical University of Denmark
University of Hamburg, Center for Bioinformatics
BioSolveIT GmBH
Consorci Mar Parc de Salut de Barcelona
Leiden University Medical Centre
Royal Society of Chemistry
Vrije Universiteit Amsterdam
Novartis
Merck Serono
H. Lundbeck A/S
Eli LillyNetherlands Bioinformatics CentreSwiss Institute of BioinformaticsConnectedDiscoveryEMBL-European Bioinformatics Institute
Janssen Esteve Almirall
OpenLink Scibite
The Open PHACTS Foundation
Spanish National Cancer Research Centre
University of Manchester
Maastricht University
Aqnowledge
University of Santiago de Compostela
Rheinische Friedrich-Wilhelms-Universität Bonn
AstraZeneca
GlaxoSmithKline