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?

pmu@openphactsfoundation.org @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