INFSO-RI-508833 Enabling Grids for E-sciencE www.eu-egee.org Status of the Biomedical Applications in EELA Project (E-Infrastructures Shared Between Europe.

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Presentation transcript:

INFSO-RI Enabling Grids for E-sciencE Status of the Biomedical Applications in EELA Project (E-Infrastructures Shared Between Europe an Latin America) Vicente Hernández Universidad Politécnica de Valencia (UPV) Leader of Biomedical Applications (Task 3.1) in EELA

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 2 Contents The EELA Project in Brief. EELA Infrastructure. EELA Biomed Applications. Future Plans. Discussion.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 3 E-infrastructure Between Europe and Latin America (EELA) –European  Spain: CIEMAT, CSIC, UPV, RED.ES, UC  Italy: INFN  Portugal: LIP –International  CLARA  CERN –Latin American  Venezuela: ULA  Cuba: CUBAENERGIA  Chile: UTFSM, REUNA, UDEC  Peru: SENAMHI  Mexico: UNAM  Argentina: UNLP  Brazil: UFRJ, CEDERJ, RNP, UFF Focused on Building a Bridge Between Consolidated e- Infrastructure Initiatives in Europe and Emerging Ones in Latin America. Partners

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 4 EELA Infrastructure

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 5 Identification of Applications in EELA The choices has been performed according to: –Interest on the Latin American Partners. –Consolidated User Communities. –Availability of Resources. –Particularities of the LA Community. Applications Selected –Mature Applications  GATE.  Wide in-Silico Docking on Malaria (WISDOM). –New Applications  BLAST in Grids.  Phylogeny.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 6 Mature Applications: GATE Geant4 Application to Tomographic Emission (GATE) User Communities –The Interest of the LA Community is Leaded by CUBAENERGÍA  It is Focused Towards Two Main Oncological Problems: Thyroid Cancer. Treatment of Metastasis with P 32.  9 centers in Cuba are Interested (5 Hospitals and 4 Oncological Centers and Institutions) Resources Available –UPV (ramses.dsic.upv.es; GATE ) –CIEMAT (ce-eela.ciemat.es; GATE ) –INFN CATANIA (grid012.ct.infn.it; GATE ) –UFF (ce-eela.ic.uff.br; GATE ) –UFRJ (ce-eela.uf.ufrj.br; GATE ) –Cuban Centres have Problems with Bandwidth  A Local Deployment is Being Developed.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 7 Mature Applications: WISDOM WISDOM (Wide In-Silico Docking Of Malaria) The Interest is Being Driven by the University of Los Andes (Venezuela). New Targets have been Proposed for the Next Data Challenge on Malaria –Interest of the LA Focus on Plasmodium Vivax, Rather than Plasmodium Falciparum. EELA Partners will Provide Resources and Labour to Watch the Jobs.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 8 New Applications: BiG BiG: BLAST in Grid is a Grid-enabled BLAST Interface. User Community –Users of the Bioinformatics Portal of Latin America. –Users Access the Service Through a Web Portal. Web Server Application has Been Installed on ULA Computers. Tests Have Been Performed Successfully on a Dataset of Around 3000 Sequences of the Plasmodium Vivax.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 9 New Applications: Phylogeny A Phylogeny is a Reconstruction of the Evolutionary History of a Group of Organisms. The Inference of Phylogenies with Computational Methods is Widely Used in Medical and Biological Research and has Many Important Applications, Such as Gene Function Prediction, Drug Discovery and Conservation Biology. Most Approaches Depend Upon a Mathematical Model Describing the Evolution of Characters Observed in the Species Included, and are Usually Used for Molecular Phylogeny Where the Characters are Aligned Nucleotide or Amino Acid Sequences. Interest of the LA Community –ULA is Leading the Interest in the LA. –A Grid Service Will be Developed to Run a Parallel Version of MrBayes from the Bioinformatics Portal. Analisys of the Application has Started.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 10 Discussions Potential Collaboration –Enlarge User Communities  EELA is Fostering the Usage of Grids and Training Users.  EELA can be the Bridge for these Users.  Grid Certificates are Compatible. –Share Applications  New Applications Deployed in EELA and Applications Developed are Compatible with EGEE Ones (Share the same Middleware).  Applications of EGEE are Fairly Interesting for the LA Community. –Define New Interests  New Problems are Defining new Applications and New Targets.

Enabling Grids for E-sciencE INFSO-RI EGEE'06 CONFERENCE September 2006, Geneva, Switzerland 11 Contact Vicente Hernández Universidad Politécnica de Valencia Camino de Vera s/n Valencia, Spain Tel: Fax