Embed Size (px)
DESCRIPTION
Presentation given for the report covering this topic.
Citation preview
From Genotype to PhenotypeFuture Perspectives on Data and Service Integration
Pedro Lopes | [email protected] | PDEI - TAEI Bioinformatics | Jan 16, 2009
Friday, January 16, 2009
Outline
• Past• Introduction
• Present• GEN2PHEN• Problems
• Future• Solutions• Ideas
• Conclusion
Friday, January 16, 2009
The beginning Atomic Bomb over Hiroshima
Friday, January 16, 2009
The beginning Atomic Bomb over Hiroshima
Friday, January 16, 2009
Introduction
•Nuclear radiation causes mutations• Leveraged first studies on mutation impact in health
•Human Genome Project - HGP• First worlwide genomic project• Decode the human genome
•Human Variome Project - HVP• After HGP• Decode variation effects
•Genotype to Phenotype Databases: A Holistic Solution• 7th European Framework Program
Friday, January 16, 2009
GEN2PHEN
•Key goals• Analyze genotype to phenotype field and investigate needs and
practices• Develop standards for the genotype to phenotype field• Create generic database components, services and integration
infrastructures• Create data search and presentation solutions for GEN2PHEN
knowledge• Facilitate research and diagnostic GEN2PHEN databases
population• Build major GEN2PHEN Internet portal• Deploy solutions to the community
Friday, January 16, 2009
GEN2PHEN
•Key goals• Analyze genotype to phenotype field and investigate needs and
practices• Develop standards for the genotype to phenotype field• Create generic database components, services and integration
infrastructures• Create data search and presentation solutions for GEN2PHEN
knowledge• Facilitate research and diagnostic GEN2PHEN databases
population• Build major GEN2PHEN Internet portal• Deploy solutions to the community
Next generation web applications integrating heterogeneous information in a unifying
state-of-the-art user interface
Friday, January 16, 2009
Problems
•How to integrate heterogeneous data?•How to orchestrate distinct services?•How to correctly map concepts?•How to distribute processing?•How to facilitate machine-machine communication?•How to automize data exchanges?
Friday, January 16, 2009
Solutions
•Meta Applications• Workflows• Mashups• Web Semantics• Web Desktops• Visualization Interfaces
•Why Meta?• Use existing apps• Integrate data / services
•Goals• Improve
• User satisfaction• User control• Information integration
• Enhance• App design• Custom apps
Friday, January 16, 2009
Workflows
•What?• Sequence of tasks• Information flows
•How?• Input/output mapping
•Where?• Yahoo! Pipes• Taverna• geDynamicFlow
Friday, January 16, 2009
Workflows
•What?• Sequence of tasks• Information flows
•How?• Input/output mapping
•Where?• Yahoo! Pipes• Taverna• geDynamicFlow
Friday, January 16, 2009
Workflows
•What?• Sequence of tasks• Information flows
•How?• Input/output mapping
•Where?• Yahoo! Pipes• Taverna• geDynamicFlow
Friday, January 16, 2009
Mashups
•What?• Apps as gadgets• Customizable UI
•How?• Relations among
gadgets• Information sharing
•Where• iGoogle• Netvibes
Friday, January 16, 2009
Mashups
•What?• Apps as gadgets• Customizable UI
•How?• Relations among
gadgets• Information sharing
•Where• iGoogle• Netvibes
Friday, January 16, 2009
Web Semantics
•What?• Ontologies• Resource Description• Data exchange
•How?• XML descriptions• SPARQL queries
•Where?• DBPedia• Nextbio
Friday, January 16, 2009
Web Semantics
•What?• Ontologies• Resource Description• Data exchange
•How?• XML descriptions• SPARQL queries
•Where?• DBPedia• Nextbio
Friday, January 16, 2009
Web Desktops
•What?• Desktops in the browser
•How?• Desktop interface• Traditional metaphors
•Where?• eyeOS• g.ho.st
Friday, January 16, 2009
Web Desktops
•What?• Desktops in the browser
•How?• Desktop interface• Traditional metaphors
•Where?• eyeOS• g.ho.st
Friday, January 16, 2009
Visualizations
•What?• New visualizations• More appealing results
•How?• UI technologies: AJAX,
Flash, Silverlight
•Where?• Viewzi• Searchme
Friday, January 16, 2009
Visualizations
•What?• New visualizations• More appealing results
•How?• UI technologies: AJAX,
Flash, Silverlight
•Where?• Viewzi• Searchme
Friday, January 16, 2009
In Bioinformatics... Future applications
Friday, January 16, 2009
In Bioinformatics... Future applications
Friday, January 16, 2009
In Bioinformatics... Future applications
Friday, January 16, 2009
In Bioinformatics... Future applications
Friday, January 16, 2009
Conclusions
•Bioinformatics problems may be solved using generic web solutions
•There is no solution from heaven• (Fully autonomous and dynamic) Integration is “complicated”•A lot can be learned from Web2.0...
Friday, January 16, 2009
Conclusions
•Bioinformatics problems may be solved using generic web solutions
•There is no solution from heaven• (Fully autonomous and dynamic) Integration is “complicated”•A lot can be learned from Web2.0...... and Web3.0 is right around the corner!
Friday, January 16, 2009
Conclusions
•Bioinformatics problems may be solved using generic web solutions
•There is no solution from heaven• (Fully autonomous and dynamic) Integration is “complicated”•A lot can be learned from Web2.0...Now it’s up to YOU!
Friday, January 16, 2009
Questions?
Friday, January 16, 2009
Thank You
Friday, January 16, 2009
