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Complex network architecture

Complex network architecture. ?. Layered network architecture. Layered network architecture. Layered network architecture. specimen knuckle. genome knuckle. literature knuckle. taxonomy knuckle. Layered network architecture. specimen knuckle. genome knuckle. literature knuckle.

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Complex network architecture

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  1. Complex network architecture ?

  2. Layered network architecture

  3. Layered network architecture

  4. Layered network architecture specimen knuckle genome knuckle literature knuckle taxonomy knuckle

  5. Layered network architecture specimen knuckle genome knuckle literature knuckle taxonomy knuckle

  6. StrainInfo.net bioportal scope specimen knuckle genome knuckle literature knuckle taxonomy knuckle

  7. Data warehousing Stein LD (2003), Integrating biological databases, Nat Rev Genet 4(5):337-45.

  8. Knuckles-and-nodes approach Stein LD (2003), Integrating biological databases, Nat Rev Genet 4(5):337-45.

  9. Semantic web technologies • Globally Unique Identifiers (GUID) • Digital Object Identifiers (DOI) • Life Science Identifiers (LSID) http://www.doi.org http://lsid.sourceforge.net • Ontologies • domain-specific vocabularies (entity-relationships) • RDF triples, XML Schema • Gene Ontology (GO-terms), CABRI, ABCD

  10. Semantic web technologies • Web Services“A web service is a software system designed to support interoperable machine-to-machine interaction over a network. It has an interface described in a machine-processable format (specifically WSDL)” • HTTP binding • FTP binding • SOAP binding • Workflow Management Systems • Taverna Workbench (MyGrid Project) • BioMoby • Pegasys

  11. The End WEB www.StrainInfo.net online since February 1st, 2007

  12. Accumulative learning

  13. Intrusion detection

  14. Intrusion detection Error in NCIMB 8233T RIA 1038  RIA 1040 12.5% of the type strains would have been affected by the inconsistencies present in the originating data sources, without the implementation of an error detection/correction strategy “GARBAGE IN GARBAGE OUT” PRINCIPLE Error in DSM 40066TCBS 498.68  CBS 500.68

  15. Intrusion detection

  16. Integrating information sources

  17. Integrating information sources

  18. sequences literature specimen third party information taxonomy Navigate the information space ?

  19. sequences literature specimen third party information taxonomy Navigate the information space

  20. sequences literature specimen third party information taxonomy Navigate the information space

  21. sequences literature specimen AJ011504 third party information taxonomy Navigate the information space

  22. sequences literature specimen AJ011504 third party information taxonomy Mohn W.W. et al. BKME-9 Pseudomonas sp. Navigate the information space

  23. sequences literature specimen AJ011504 third party information taxonomy Mohn W.W. et al. BKME-9 Pseudomonas sp. Navigating information space

  24. Navigate the information space

  25. Navigate the information space

  26. ATCC 700689 CCUG 50779 CIP 106708 DSM 17554 LMG 20220 Pseudomonas abietaniphila (type strain) Navigate the information space

  27. sequences literature specimen AJ011504 third party information taxonomy Mohn W.W. et al. BKME-9 ATCC 700689 CCUG 50779 CIP 106708 DSM 17554 LMG 20220 Pseudomonas abietaniphila (type strain) Pseudomonas sp. Navigate the information space

  28. Pseudomonas abietaniphila (type strain) Navigate the information space

  29. sequences literature specimen AJ011504 third party information taxonomy Mohn W.W. et al. BKME-9 ATCC 700689 CCUG 50779 CIP 106708 DSM 17554 LMG 20220 Pseudomonas abietaniphila (type strain) Pseudomonas abietaniphila (type strain) Pseudomonas sp. Navigate the information space

  30. sequences literature specimen AJ011504 third party information taxonomy Navigate the information space Pseudomonas abietaniphila (type strain)

  31. Glueing it all together

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