The document discusses approaches to integrating internal and external data across pharmaceutical research. It describes utilizing a data warehousing strategy through a Research Information Factory (RIF) to create a single global repository for research data. However, integrating external data from various sources poses additional challenges. Tools like PharmaMatrix provide a pre-indexed mine of scientific literature linking drug targets to indications, but result sets can be large. The document suggests that Web 2.0 technologies like wikis, blogs and tagging could help turn integrated information into knowledge by enabling collaboration and sharing. Industry-wide data standards and common ontologies would also help facilitate external data integration.

1. Approaches to Information Integration Ben Gardner Therapeutic Area Scientific Information Services IPI-ConFex (March 2007)

11. How many nets can we cast…? ~6000 diseases recognized by Medicine ~25K genes in human genome Indication 1 Indication 2 Indication N Indication 3 Diseases / Indications Target 1 Target 2 Target 3 Target N Targets

12. How many nets can we cast…? Target 1 Target 2 Target 3 Target N Targets Indication 1 Indication 2 Indication N Indication 3 Diseases / Indications Informatics allows us to systematically mine for evidence against all hypotheses: All drug targets x All diseases

13. How many nets can we cast…? Target 1 Target 2 Target 3 Target N Targets Indication 1 Indication 2 Indication N Indication 3 Diseases / Indications All diseases for a target

14. How many nets can we cast…? Target 1 Target 2 Target 3 Target N Targets Indication 1 Indication 2 Indication N Indication 3 Diseases / Indications All targets for a disease

15. What is the Matrix ? 12.8 Million Medline Abstracts 4 Billion words 4 Million Intersects (20 Synonyms per entity) Targets Diseases Evidence 2000 curated diseases 2000 curated targets

16. “ Show me all the diseases associated with PDE5 from scientific literature ” PDE5 has 40 related terms (PDE5 or phosphodiesterase 5 or phosphodiesterase V or phosphodiesterase (PDE) 5 or phosphodiesterase (PDE) V or pde V or PDE-5 or PDE V or PDE 5 or phosphodiesterase-5 or phosphodiesterase 5A or HSPDE5A or PDE5A or phosphodiesterase-5A or PDE(5) or PDE(5A) or phosphodiesterase (PDE) 5A or PDE 5A or PDE-5A or UK-092,480 or viagra or sildenafil or IBMX or 3-isobutyl-1-methylxanthine or zaprinast or tadalafil or vardenafil or SKF-96231 or YC-1 or DMPPO or UK-83405 or Sch-51866 or UK-343664 or WIN-65579 or GF-248 or T-1032 or SR-265579 or KF-31327 or OPC-35564) There’s ~ 6000 curated diseases Here’s just one: (ASTHMA or asthmatic or Acute severe asthma or Asthmaticus or Excercise induced Asthma or mild intermittent asthma or mild persistant Asthma or moderate persisitant Asthma or Severe persistant Asthma or chronic persistant Asthma or extrinsic Asthma or intrinsic Asthma or aspirin-sensitive asthmatics or Aspirin induced Asthma or occupational asthma or Atopy or allergic asthma) There are about 17 million articles in Medline 17 million abstracts from 32000 separate journals. 4 billion words X X Systematic Searching for Evidence PharmaMatrix - US Patent No . US2005060305 17 th March 2003 Hopkins el al.

17. And here’s a matrix! – All Targets for Asthma Simple abstract co-occurrence Big numbers! Filter for precedence Reduce the workload

22. Easy of use is central

30. Pharma-Bio-Med blog

32. Using tag clouds

34. Acknowledgements