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Mining molecules from text and data

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  • This is a conservative estimate based only on what is in PubMed Too much to read! Text mining used to extract relations Similar methods used to mine medical records and link diseases
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    • 1. Mining molecules from text and data Lars Juhl Jensen
    • 2. Reflect
    • 3. augmented browsing
    • 4. Pafilis, O’Donoghue, Jensen et al., Nature Biotechnology , 2009 O’Donoghue et al., Journal of Web Semantics , 2010
    • 5. web services
    • 6.  
    • 7. STITCH
    • 8. Kuhn et al., Nucleic Acids Research , 2010
    • 9. >74,000 small molecules
    • 10. >2.5 million proteins
    • 11. 630 genomes
    • 12. Gleevec
    • 13.  
    • 14. evidence types
    • 15. primary experimental data
    • 16. physical interactions
    • 17.  
    • 18. curated knowledge
    • 19. drug targets
    • 20. pathways
    • 21. >10 km
    • 22. literature mining
    • 23. co-mentioning
    • 24.  
    • 25. NLP Natural Language Processing
    • 26.  
    • 27. integration
    • 28. incomparable data
    • 29. quality scores
    • 30. calibrate vs. gold standard
    • 31. Acknowledgments
        • Reflect
        • Sune Frankild
        • Heiko Horn
        • Evangelos Pafilis
        • Michael Kuhn
        • Reinhardt Schneider
        • Sean O’Donoghue
        • STITCH
        • Michael Kuhn
        • Damian Szklarczyk
        • Andrea Franceschini
        • Monica Campillos
        • Christian von Mering
        • Andreas Beyer
        • Peer Bork
    • 32. larsjuhljensen

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