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MediGRI D Grid Computing for Medicine and Life Sciences
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MediGRI D Grid Com puting for Medicine and Life Sciences Anette - - PowerPoint PPT Presentation
MediGRI D Grid Com puting for Medicine and Life Sciences Anette - - PowerPoint PPT Presentation
MediGRI D Grid Com puting for Medicine and Life Sciences Anette Weisbecker, Fraunhofer IAO, Stuttgart Otto Rienhoff, Georg-August-Universitt, Gttingen International Symposium on Grid Computing Taipei, 28 th March 2007 MediGRI D
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Structure of MediGRI D
D-GRI D I ntegration Project Resource Fusion Ontology Coordination
Metadata
Data
Metadata
Data
Metadata
Data Access Control
Middleware
...
eScience, Security, I nterationalisation
Biomedical I nformatics Medical I mage Processing Clinical Research Classic Bio- informatics Different applications in application classes
Others, e.g. forestry
- r humanities
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MediGRI D - Partners
- Prof. Dr. Otto Rienhoff (Spokesman of Consortium)
Universität Göttingen, Abteilung Medizinische I nformatik Telematikplattform für Medizinische Forschungsnetze e.V., Berlin, Sebastian C. Semler Universität Göttingen, Abteilung Medizinische I nformatik, Prof. Ulrich Sax Charité, Universitätsmedizin Berlin, I nstitut für Medizinische I nformatik, Biometrie und Epidemiologie,
- Prof. Thomas Tolxdorff, Dr. Dagmar Krefting
Universitätsklinikum Schleswig-Holstein, I nstitut für Klinische Molekularbiologie , Dr. Jochen Hampe Universität Marburg, Klinik für I nnere Medizin mit Schwerpunkt Pneumologie, Prof. Thomas Penzel Universität Leipzig, I nstitut für Medizinische I nformatik, Statistik und Epidemiologie; I nstitut für I nformatik, Prof. Markus Löffler, Prof. Erhard Rahm Fraunhofer-Gesellschaft; Fraunhofer IAO, Fraunhofer FIRST, Priv.-Doz. Dr.-Ing. Anette Weisbecker Konrad-Zuse-Zentrum für I nformationstechnik, Dr. Thomas Steinke
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Seite 5 MediGRI D Grid Computing for Medicine and Life Sciences User/ Application Developer MediGrid Applications MediGrid Spezific Services
Data Management Workflow Management (GWES)
Resources & local Services
CLI Portal
Database
Data Access Dataflow Monitoring Job Management Metadata Mgmt. CPU Storage+ Archives CPU Storage + Archives
Database protected Grid Services I ntegration Layer
GLOBUS 4
- pen
UNI CORE
Security
Resource Accounting
Resource Management (D-GRDL) Bio- informatics Medical I mage Processing
MediGRI D Middleware
Biomedical Ontologies
MediGRI D Applications
Resource Monitoring
OGSA-DAI SRB
Softw are Architecture
VOMRS VOMRS
Grid-API (GAT) Unicore Client
Clinical Research
- ptional
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Grid Certificate MediGRID Portal MediGRID User MediGRID Administrator MediGRID Developer
Archive Storage Disk Storage Storage via
SRB
User and VO Management via VOMRS central MediGRID Services Metadata- Generation via GRDBD Grid Workflow Execution Service Monitoring Daemons MediGRID Applications Databases via
OGSA-DAI
Sensors and technical Devices Tomographs Fluoroscope Computers via
Globus and Unicore
(gLite) Computing Nodes Firewall Management
MediGRI D Resources and Grid Services
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Portal based Access to MediGRI D
Genome Sequence Analysis
Grid Certificate MediGRID User MediGRID Certificate
Ontologies Workflow Management File Browser Credential Management SNP Selection D-GRDL Metadata Creation D-GRDL Metadata Management
MediGRID Administrator MediGRID Developer
Resource Management Resource Monitoring Bioinform atics Statistical Analysis of Functional Brain I m ages 3D Prostate Biopsy Virtual Vascular Surgery Medical I m age Processing Ontology Access Standard Grid Portlets Developer Support Adm inistration
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Input Parameter for Applications
GW ES
MediGRI D Portal GW ES
Job-Initialisation Automatic Resource Selection Job Submission Workflow Initialisation
Grid W orkflow Execution Service Result MediGRI D Resources
Requirements:
- D-GRDL Resource Metadata Management (D-Grid)
- D-GRDL Management (D-Grid)
- GRDB Daemon (InstantGrid)
- Monitoring Data (Globus MDS + Ganglia)
Grid W orkflow s and Virtualisation
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Data Virtualisation w ith Storage Resource Broker ( SRB) Data Management and Data Virtualisation with in the Grid
Abstraction Layer in Grid Filemanager Physical Layer on Storage Resources
Storage Resource A
Storage Resource. B Storage Resource C Storage Resource D
Requirements: Global IDs for Data in the Grid, Metadata Management,… Solution: Storage Resource Broker
m ove file logical no changes of physical storing m ove file physical no changes on logical view
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Database Access via OGSA-DAI
Database Connection and Database Access with in the Grid
OGSA-DAI Service(s) WSRF Physical Layer: Database
Database Queries independent from Storage Location Solution: OGSA-DAI Service
Gene Ontology DB Location A NCI Thesaurus DB Location B Human Disease DB Location C Query for a Term Distributed Database Query
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- 1. Login at the portal and download the MPU tools via java webstart
- 2. Creation of a proxy certificate and Upload on the MyProxy Server
- 3. Creation of Credentials via the MediGRID portal
- 4. Usage of portal applictions, which need credentials
Gr Grid id Cert rtif ificat icate
User er PC PC MyProx MyProxy Server erver Portal Portal
MyProxy MyProxy Upload Upload Tool Tool
Lifet Lifetime me: 2 2 years years Lifetime Lifetime : 7 : 7 days ys Li Lifeti time : 2 : 2 hours rs D- D-Grid Grid C CA Zertif Zertifikate kate D- D-Grid Grid C CA Zertif Zertifikate kate Grid C Grid CA Cert rtif ificat icate
Gri Grid Applica Application ion Portlets Portlets Grid Resources id Resources and Applications and Applications
Pro Proxy y Cert rtif ificat icate Portal rtal Cred eden ential
1. 2. 3. 4.
MediGRID
Certificate based Usage via MediGRI D Portal
Advantage: Grid User do not need a Grid Comupter / no Middleware Installation
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MediGRI D Portal
MediGRID Portal is the central access to the applications for the user – GridSphere – GridPortlets – Certificates for secure access Integration of medical applications – Applications are callable as web services (Wrapper) – Global identifier for transparent data access – OGSA-DAI for connection of distributed databases – Petri net based workflows for application processes
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- Bioinform atics
Genom e Sequence Analysis SNPSelection: Single nucleotide polymorphisms selection RNAi: ribonucleic acid interference screening Sequorr: Sequence correlation
- Medical I m age Processing
3 D Prostate Biopsy Statistical Analysis of Functional Brain I m ages Virtual Vascular Surgery
- Clinical Research
Analysis of clinical studies in neurology
- Ontologies
Integration of different ontologies with heterogeneous formats
MediGRI D Application Classes w ith their Applications
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Further Steps
– Additional Applications and Application classes – Enhanced and very enhanced security Auditabiltiy, Trackability, Access rights and Access control, Trust and Trust Delegation, Safety Anonymized Data, pseudonymized Data, identifying Data – eHealth Services Service Engineering for identification and definition of services Accounting and Billing Business Models – International cooperations
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