MediGRI D – Grid Com puting for Medicine and Life Sciences Anette Weisbecker, Fraunhofer IAO, Stuttgart Otto Rienhoff, Georg-August-Universität, Göttingen International Symposium on Grid Computing – Taipei, 28 th March 2007 MediGRI D Grid Computing for Medicine and Life Sciences
Overview � MediGRID Structure and Partners � Architecture and Middleware � Data Access � Portal � Application Classes and Applications � Further Steps MediGRI D Grid Computing for Medicine and Life Sciences Seite 2
Structure of MediGRI D Data Data Data ... Metadata Metadata Metadata Access Control eScience, Security, I nterationalisation Ontology Resource Fusion Different applications in application classes Coordination Classic Biomedical Medical Others, Clinical Bio- I nformatics I mage e.g. forestry Research informatics Processing or humanities Middleware D-GRI D I ntegration Project MediGRI D Grid Computing for Medicine and Life Sciences Seite 3
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 MediGRI D Grid Computing for Medicine and Life Sciences Seite 4
Softw are Architecture User/ Portal Unicore Grid-API CLI Application VOMRS Client (GAT) VOMRS Developer Bio- Medical I mage Biomedical Clinical MediGrid Applications informatics Processing Ontologies Research Workflow Resource Data Management Security MediGrid Management Management Spezific Services (GWES) (D-GRDL) SRB OGSA-DAI Resource Monitoring Grid Services GLOBUS 4 UNI CORE I ntegration Layer Resource Accounting Job Management Data Access Metadata Mgmt. Dataflow Monitoring open protected Resources & CPU CPU local Services Database Database Storage + Archives Storage+ Archives MediGRI D Middleware MediGRI D Applications optional MediGRI D Grid Computing for Medicine and Life Sciences Seite 5
MediGRI D Resources and Grid Services MediGRID User MediGRID Developer MediGRID Administrator Databases MediGRID via Applications Grid Certificate Disk Storage OGSA-DAI Storage MediGRID Portal via SRB User and VO Management Archive via Storage VOMRS Firewall Management central MediGRID Grid Workflow Services Execution Service Sensors and technical Devices Computing Nodes Computers via Metadata- Globus and Unicore Generation ( gLite ) Monitoring Daemons via GRDBD Fluoroscope Tomographs MediGRI D Grid Computing for Medicine and Life Sciences Seite 6
Portal based Access to MediGRI D MediGRID User MediGRID Developer Genome Sequence MediGRID Administrator Statistical Analysis of Analysis Functional Brain I m ages Grid Certificate Medical Bioinform atics MediGRID Certificate SNP Selection I m age 3D Prostate Biopsy Processing Ontology Access Virtual Vascular Surgery Ontologies Standard Grid Portlets Adm inistration Developer Support Resource Monitoring Credential Management D-GRDL Metadata Workflow Management Resource D-GRDL Metadata File Browser Creation Management Management MediGRI D Grid Computing for Medicine and Life Sciences Seite 7
Grid W orkflow s and Virtualisation Requirements: • D-GRDL Resource Metadata Management (D-Grid) Result • D-GRDL Management (D-Grid) • GRDB Daemon (InstantGrid) • Monitoring Data (Globus MDS + Ganglia) Input Parameter Job-Initialisation for Applications MediGRI D Resources MediGRI D Portal GW ES Automatic Resource Selection Workflow Initialisation Job Submission GW ES Grid W orkflow Execution Service MediGRI D Grid Computing for Medicine and Life Sciences Seite 8
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 m ove file logical no changes on logical view Storage Resource A Storage Resource . B Storage Resource D Storage Resource C m ove file physical no changes of physical storing Requirements : Global IDs for Data in the Grid, Metadata Management,… Solution : Storage Resource Broker MediGRI D Grid Computing for Medicine and Life Sciences Seite 9
Database Access via OGSA-DAI Database Connection and Database Access with in the Grid OGSA-DAI Service(s) WSRF Physical Layer: Database Gene Ontology DB Location A Query for a Term NCI Thesaurus DB Location B Distributed Database Human Disease DB Query Location C Database Queries independent from Storage Location Solution : OGSA-DAI Service MediGRI D Grid Computing for Medicine and Life Sciences Seite 10
Certificate based Usage via MediGRI D Portal 4. Grid Gri MediGRID Portal Portal User er PC PC Application Applica ion Grid C Grid CA Portlets Portlets D-Grid D- Grid C CA D-Grid D- Grid C CA Cert rtif ificat icate Zertifikate Zertif kate Zertif Zertifikate kate 1. MyProxy MyProxy Upload Upload Tool Tool Portal rtal Gr Grid id Cred eden ential Cert rtif ificat icate 2. Lifeti Li time : 2 : 2 hours rs 3. Lifet Lifetime me: 2 2 years years Proxy Pro y Lifetime Lifetime : 7 : 7 days ys Cert rtif ificat icate Grid Resources id Resources MyProxy Server MyProx erver and Applications and Applications Advantage: Grid User do not 1. Login at the portal and download the MPU tools via java webstart need a Grid 2. Creation of a proxy certificate and Upload on the MyProxy Server Comupter / no 3. Creation of Credentials via the MediGRID portal Middleware Installation 4. Usage of portal applictions, which need credentials MediGRI D Grid Computing for Medicine and Life Sciences Seite 11
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 MediGRI D Grid Computing for Medicine and Life Sciences Seite 12
MediGRI D Application Classes w ith their Applications o Bioinform atics � Genom e Sequence Analysis � SNPSelection: Single nucleotide polymorphisms selection � RNAi: ribonucleic acid interference screening � Sequorr: Sequence correlation o Medical I m age Processing � 3 D Prostate Biopsy � Statistical Analysis of Functional Brain I m ages � Virtual Vascular Surgery o Clinical Research � Analysis of clinical studies in neurology o Ontologies � Integration of different ontologies with heterogeneous formats MediGRI D Grid Computing for Medicine and Life Sciences Seite 13
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 MediGRI D Grid Computing for Medicine and Life Sciences Seite 14
Contact Thank you for Priv.-Doz. Dr.-Ing. habil. Anette Weisbecker your attention ! Fraunhofer Institute for Industrial Engineering Nobelstraße 12 Questions ? 70569 Stuttgart, Germany http: / / www.iao.fraunhofer.de Phone: + 497119702400 E-Mail: Anette.Weisbecker@iao.fraunhofer.de http: / / www.sw-management.iao.fraunhofer.de http: / / www.enterprisegrids.fraunhofer.de Professor Dr. Otto Rienhoff Abteilung Medizinische Informatik, Georg-August-Universität Göttingen Robert-Koch-Strasse 40 37075 Göttingen, Germany Phone: + 495513991216 E-Mail: haegar@med.uni-goettingen.de http: / / www.mi.med.uni-goettingen.de/ mi/ w w w .m edigrid.de w w w .m edigrid.de MediGRI D Grid Computing for Medicine and Life Sciences Seite 15
Recommend
More recommend
