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Genome Data Generation & Collection at MPIMG and RZPD Resource Center

This article provides an overview of the expression data generation and collection process within the German Human Genome Project at MPIMG and RZPD Resource Center. It discusses the history, objectives, database coverage, and components of the RZPD Database. It also highlights the distribution service, registration, system administration, data submission, and the team involved in the project.

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Genome Data Generation & Collection at MPIMG and RZPD Resource Center

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  1. Expression Data Generation and Collection at MPIMG and RZPD Resource Center within the German Human Genome Project Steffen Schulze-Kremer

  2. Background History • 1987 • first spotting system (EMBL,ICRF) • ~1989 • complex cDNA Hybridisations to arrays • ~1989 onward • distribution of arrays in reference library system

  3. RZPD Database Objectives (since 95) • To support dissemination of variety of biological materials • Clones • Filters • Pools • To collect and redistribute biological primary data • Hybridisations • Sequences • Phenotypes

  4. Biological Information Clones Libraries Genes Sequences Hybridisation Logistic Information Clone storage Library re-arraying Filters Accounting Information Customers Orders / requests Affiliation (DHGP?) Price lists Information Integration Confidential information Links to other databases Query Visualisation RZPD Database Coverage

  5. Biological Information 27.582.866 clones 17.280.664 master clones 319 libraries 47.209 filters 581.219 sequences 24.366 hybridisations 352.806 Blast hits 187.952 distinct targets hit Accounting Information 5551 registered users 1228 organisations 630 German 598 foreign # RZPD orders (in RLDB) 15.980 clones (4405) 3610 filters (1468) 1118 pools (0) Submissions 38.042 sequences (DHGP) 15.589 sequences (other) RZPD Database Contents (Oct 5/99)

  6. Graphical Filter Display Tool

  7. Database Components • Oracle / Unix • DEC Alpha 8 Processor Server • Secure Web Server • protects confidential information during transit • different roles available • customised views • OPM Tools • some 80 object classes • class browser • query editor

  8. OPM Schema Browser

  9. Hybridisation Data in RZPD

  10. Laboratory Database at MPIMG

  11. Dictionaries

  12. „Owned Objects“

  13. „Result“ „Experiment“ • Lab Database Development Team at MPIMG • Dr. Arif Malik, Axel Nagel, Dr. Holger Eickhoff

  14. Distribution Service Nadja Pohl, Eva Partsch, Patience Frederick, Maryam Sabet Registration Radka Kochan System Administration Klaus Dobrindt, Robert Fürst Data Submission Dr. Andreas Hewelt Protein Structure Factory Dr. Jörn Quedenau, Ursula Meyhoefer Database Managers Karsten R. Heidtke, Peter Neubert Web Designer Iris A. Bertram Application Programmers Elisabeth Maschke, Ralf Mühlhaus Students Falco Ripsas, Katja Wegner Informatics Manager Dr. Steffen Schulze-Kremer RZPD Distribution Service, Database & Bioinformatics Team (www.rzpd.de)

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