1 Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB 05, Madrid Web Servicing the Biological Office ProTag, ProThesaurus.
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1Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Web Servicing the Biological OfficeProTag, ProThesaurus and LiMB
Martin Szugat (Martin.Szugat@GMX.net)Bioinformatics group of the
Ludwig-Maximilians-Universität MünchenLFE Practical Computer Science and Bioinformatics
With contributions from Daniel Güttler, Florian Sohler,
Katrin Fundel, Ralf Zimmer
Part of the HOBIT projectFunded by Helmholtz-Gemeinschafthttp://hobit.sourceforge.net/
2Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Motivation
• Task switching: Office Browser• Copy & Paste: Name Identifier
Protein name
Information
Datab
ase iden
tifier
3Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Motivation
• Task switching: Office Browser• Copy & Paste: Name Identifier
Seamless Integration of the WebContext information at one click
Protein name
Information
Datab
ase iden
tifier
4Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Concept
Markup
Databaseidentifier
Free text
5Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Concept
Databaseidentifier
Annotation
Other identifiers
Synonyms
Web pages
Web Services
…
6Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Application: Smart Tags
7Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Implementation
Download: http://services.bio.ifi.lmu.de/prothesaurus/
8Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Application: Office-Add-In
9Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Application: Standalone Application
10Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Application: Excel formulas and VBA Macros
11Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Your Web Server
Biological NameService
Internet
Biological MarkupService
Other Web Service
services.bio.ifi.lmu.de
BeThesaurus
Extension: Write your own Actions or Services
Add Web Service methodsas custom Actions
12Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Your Web Server
Biological NameService
Internet
Biological MarkupService
Other Web Service
services.bio.ifi.lmu.de
BeThesaurus
Extension: Write your own Actions or Services
Integrate additional databases
13Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Your Web Server
Biological NameService
Internet
Biological MarkupService
Other Web Service
services.bio.ifi.lmu.de
BeThesaurus
Extension: Write your own Actions or Services
User commited protein names and identifiers
14Martin Szugat, LMU Institut für Informatik, Teaching and Research Unit Bioinformatics, ECCB ’05, Madrid
Thanks for your attention!
Open Questions?
Coming soon: ProTag becomes open source:http://sourceforge.net/projects/protag
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