How can we enable drug discovery informatics for personalized healthcare?

Expert Opinion on Drug Discovery

Volumn 6, Issue 3, 2011, Pages 219-224

  Scheiber, Josef ^a  

^a ROCHE DIAGNOSTICS GMBH   (Germany)

Author keywords

cultural change; data usage; drug discovery; healthcare; informatics; knowledge sharing; personalized medicine

Indexed keywords

BIOINFORMATICS; DRUG DESIGN; DRUG INDUSTRY; DRUG INFORMATION; GOOD LABORATORY PRACTICE; HEALTH CARE; HEALTH CARE SYSTEM; HUMAN; HYPOTHESIS; KNOWLEDGE BASE; MEDICAL TECHNOLOGY; PATIENT; PERSONALIZED MEDICINE; PHARMACIST; PHYSICIAN; PRIORITY JOURNAL; REVIEW; SCIENTIST;

EID: 79952235000     PISSN: 17460441     EISSN: None     Source Type: Journal    
DOI: 10.1517/17460441.2011.550279     Document Type: Review

References (36)

1. Kola I. The state of innovation in drug development. Clin Pharmacol Ther 2008;83(2):227-30
2. Giacomini KM, Krauss RM, Roden DM, et al. When good drugs go bad. Nature 2007;446(7139):975-7 (Pubitemid 46676037)
3. Classen DC, Pestotnik SL, Evans RS, et al. Adverse drug events in hospitalized patients. Excess length of stay, extra costs, and attributable mortality. J Am Med Assoc 1997;277(4):301-6 (Pubitemid 27045010)
4. Scheiber J, Jenkins JL, Sukuru SCK, et al. Mapping adverse drug reactions in chemical space. J Med Chem 2009;52(9):3103-7
5. Squassina A, Manchia M, Manolopoulos VG, et al. Realities and expectations of pharmacogenomics and personalized medicine: impact of translating genetic knowledge into clinical practice. Pharmacogenomics 2010;11(8):1149-67
6. Harris T. Gene and drug matrix for personalized cancer therapy. Nat Rev Drug Discov 2010;9(660). Doi: 10.1038/nrd3181-c1
7. Papadopoulos N, Kinzler KW, Vogelstein B. The role of companion diagnostics in the development and use of mutation-targeted cancer therapies. Nat Biotechnol 2006;24:985-95 (Pubitemid 44215393)
8. Harris TJR, McCormick F. The molecular pathology of cancer. Nat Rev Clin Oncol 2010;7:251-65
9. Goble C, Stevens R. State of the nation in data integration for bioinformatics. J Biomed Inform 2008;41:687-93
10. Goble C. Intractable problem in bioinformatics. Available from: www.cs. man.ac.uk/~carole/Talks/ BOSCsevensinsGOBLE.ppt, retrieved 5 September 2010
11. Available from: http://databases. biomedcentral.com/, retrieved 5 September 2010
12. Bader GD, Cary MP, Sander C. Pathguide: a pathway resource list. Nucleic Acids Res 2006;34(Database issue):D504-6
13. Nelson B. Empty. Arch Nat 2009;461:160-3
14. Butte AJ. Translational bioinformatics: coming of age. J Am Med Inform Assoc 2008;15(6):709-14
15. Kant CS, Ibberson MR, Scheer A. Building a disease knowledge environment to lay the foundations for in silico drug discovery and translational medicine. Expert Opin Drug Discov 2010;5(2):117-22
16. Available from: http://bioinformatics. roslin.ac.uk/lawslaws/: "All scientists agree that sharing data is good and are more than happy to share everyone else's", retrieved 4 September 2010
17. Available from: http://www.c-path.org/ CAMDcodr.cfm The Coalition Against Major Diseases (CAMD) has made the C-Path Online Data Repository (CODR) available to qualified researchers. The database contains the de-identified control arm data of over 4000 patients from eleven Alzheimer's disease clinical trials
18. Chen R, Sigdel TK, Li L, et al. Differentially expressed RNA from public microarray data identifies serum protein biomarkers for cross-organ transplant rejection and other conditions. PLoS Comput Biol 2010;6(9):1-12
19. Chaussabel D, Ueno H, Banchereau J, Quinn C. Data management: it starts at the bench. Nat Immunol 2009;10(12):1225-7
20. Mullin R. Next-generation DNA sequencing raises the bar in laboratory data management. Chem Eng News 2009;87(21). Available from: http://pubs.acs.org/ cen/coverstory/87/ 8721cover2.html
21. Hawkins RD, Hon GC, Ren B. Next-generation genomics: an integrative approach. Nat Rev Genet 2010;11:476-86
22. Agrafiotis DK, Alex S, Dai H, et al. Advanced biological and chemical discovery (ABCD): centralizing discovery knowledge in an inherently decentralized world. J Chem Inf Model 2007;47(6):1999-2014 (Pubitemid 350275069)
23. Cheung KH, Prud'hommeaux E, Wang Y, Stephens S. Semantic Web for health care and life sciences: a review of the state of the art. Brief Bioinform 2009;10(2):111-13
24. Searls DB. Data integration: challenges for drug discovery. Nat Rev Drug Discov 2005;4:45-58 (Pubitemid 40109589)
25. Paolini GV, Shapland RH, van Hoorn WP, et al. Global mapping of pharmacological space. Nat Biotechnol 2006;24(7):805-15 (Pubitemid 44086621)
26. Slater T, Bouton C, Huang ES. Beyond data integration. Drug Discov Today 2008;13(13-14):584-9
27. Szalma S, Koka V, Khasanova T, Perakslis ED. Effective knowledge management in translational medicine. J Transl Med 2010;8(68). Doi: 10.1186/1479-5876-8-68
28. Perakslis ED, Van Dam J, Szalma S. How informatics can potentiate precompetitive open-source collaboration to jump-start drug discovery and development. Clin Pharmacol Ther 2010;87(5):614-16
29. Alquier L, Schultz T, Stephens S. Exploration of a data landscape using a collaborative linked data framework. Paper presented at: Proceedings of the Workshop on the Future of the Web for Collaborative Science (WWW2010), 2010
30. Verbeeck R, Schultz T, Alquier L, Stephens S. Relational to RDF mapping using D2R for translational research in neuroscience, ISMB 2010
31. Cochrane GR, Galperin MY. The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources. Nucl Acids Res 2010;38(Suppl 1):D1-4
32. Sayers EW, Barrett T, Benson DA, et al. Database resources of the National Center for Biotechnology Information. Nucl Acids Res 2010;38(Suppl 1):D5-D16
33. Marcial LH, Hemminger BM. Scientific data repositories on theWeb: an initial survey. J Am Soc Inform Sci Technol 2010; DOI: 10.1002/asi.21339 Early View
34. Barabasi AL, Albert R. Emergence of scaling in random networks. Science 1999;286(5439):509-12
35. Granovetter MS. The strength of weak ties. AJS 1973;78(6):1360-80
36. Woodcock J. Precompetitive research: a new prescription for drug development? Clin Pharmacol Ther 2010;87(5):521-3