Presentation in support of AIDA demonstration at the ISMB/ECCB conference in Vienna, 2007. We demonstrated the application of AIDA web services for mining associations of proteins and diseases with an input query through a text mining workflow implemented as a workflow in Taverna. The AIDA toolkit combines services for information retrieval, information extraction, and Semantic Web modelling and storage. The services are created by experts in different fields collaborating under the name of 'Adaptive Information Disclosure' in the VL-e project (http://www.vl-e.nl).

1. Bio AID Knowledge extraction for a Virtual Laboratory for e -Science Marco Roos , Scott Marshall , Sophia Katrenko, Edgar Meij, Willem van Hage, Pieter Adriaans ISMB/ECCB2007 – AIDA demonstration 10/06/09 BioAID AIDA = Adaptive Information Disclosure Application

2. components... 10/06/09 BioAID

3. Biomedical knowledge repository 10/06/09 BioAID PubMed statistics http://www.ncbi.nlm.nih.gov/entrez >17 million citations >400,000 added/year ~70,000 searches/month … Does not compute Does not fit

4. Text mining 10/06/09 BioAID Biology Customized or personalized experiment Extracted knowledge I want to do it my way, use my models Carole Goble’s me-scientist

5. Bioinformatics and e-science 10/06/09 BioAID Single purpose, black box application Customized experiments with reusable components My component Your component My component Your component My component

6. The AIDA toolbox for knowledge extraction and knowledge management in a Virtual Laboratory for e-Science

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8. Components of the AIDA toolbox used for Life Science knowledge extraction

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10. Bio AID ‘watskeburt’ workflow 10/06/09 BioAID AIDA AIDA OMIM service (Japan) AIDA ‘ Taverna shim’ Taverna ‘shim’

11. Bio AID ‘watskeburt’ running 10/06/09 BioAID

12. Bio AID ‘watskeburt’ results 10/06/09 BioAID

13. Proto-ontology (Protégé Jambalaya plugin) 10/06/09 BioAID

14. Enriched ontology (snapshot) 10/06/09 BioAID

15. Components of the AIDA toolbox used for Food Informatics

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17. Food AID thesaurus workflow 10/06/09 BioAID

18. Food AID thesaurus workflow 10/06/09 BioAID

19. 10/06/09 BioAID For my research on crispiness of food products I need pictures of bread structure RMS

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21. Food Resource Management System using AIDA services 10/06/09 BioAID

22. Food Resource Management System using AIDA services 10/06/09 BioAID

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30. End of presentation... 10/06/09 BioAID