Biomedical text mining and network analysis
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Lars Juhl Jensen discusses using text mining and network analysis on biomedical literature and electronic medical records. This allows extraction of information on diseases, drugs, adverse drug reactions, and temporal correlations between drug use and adverse events. Molecular networks can also be constructed linking diseases to genes, tissue expression patterns, subcellular localization, and interactions between proteins and chemicals.
Biomedical text mining and network analysis
- 1. Lars Juhl Jensen Biomedical text mining and network analysis
- 3. data mining
- 5. too much to read
- 7. >10 km
- 10. in Danish
- 13. diseases
- 14. drugs
- 16. synonyms
- 17. Clozapine
- 18. Clozaril
- 19. kidney failure
- 20. renal failure
- 21. expansion rules
- 22. Clozapine
- 24. kidney failure
- 26. EMR mining
- 28. Roque et al., PLOS Computational Biology, 2011 3262638254947 Assigned codes Text mined codes
- 29. comorbidity
- 30. Roque et al., PLOS Computational Biology, 2011
- 32. Roque et al., PLOS Computational Biology, 2011
- 34. drugs
- 37. Eriksson et al., Drug Safety, 2014 Drug introduction Drug discontinuationAdverse event Adverse eventNegative modifier Indication Pre-existing condition Adverse drug reaction Possible adverse drug reaction ADR of additional drug
- 38. Eriksson et al., Drug Safety, 2014 Drug introduction Drug discontinuationAdverse eventIdentification start Adverse eventNegative modifier Indication Pre-existing condition Adverse drug reaction Possible adverse drug reaction ADR of additional drug
- 39. Eriksson et al., Drug Safety, 2014 Drug introduction Drug discontinuation Adverse eventNegative modifier Indication Pre-existing condition Adverse drug reaction Possible adverse drug reaction Adverse event ADR of additional drug Identification start
- 40. Eriksson et al., Drug Safety, 2014 Drug introduction Drug discontinuation Adverse eventNegative modifier Indication Pre-existing condition Adverse drug reaction Possible adverse drug reaction Adverse event ADR of additional drug Identification start
- 42. text mining
- 43. data mining
- 45. web resources
- 47. diseases.jensenlab.org Frankild et al., Methods, 2015
- 49. tissues.jensenlab.org Santos et al., PeerJ, 2015
- 51. Binder et al., Database, 2014compartments.jensenlab.org
- 52. protein networks
- 53. Szklarczyk et al., Nucleic Acids Research, 2015string-db.org
- 55. stitch-db.org
- 56. questions?