SciBite overview July 2013

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This is just an update to our general overview slides

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SciBite overview July 2013

  1. 1. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 SciBite
  2. 2. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Therapeutic Intelligence I care about asthma. What does the current landscape of (Drugs, Targets, Companies, Tri als, Collaborations…) look like?
  3. 3. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 A Bit Like This Actually
  4. 4. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Where does TI come from?
  5. 5. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 What if the news came to the user, and not the other way round? A Better Way?
  6. 6. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 What Is SciBite? Substrate 1000’s of Patents Literature Newsfeed Blogs Clin Dbs. Constantly Semantic Concept Tagging Target, Diseas e, Drug, Com pany, MicroRNA, Pathway, Cont ext & More SciBite Database Semantically annotated current awareness SciBite.co m Our website is free to all Data/APIs Mine our data SciBite+ Enhanced analytics and package intelligence reports What google doesn’t do
  7. 7. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Free Newsletter Service
  8. 8. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Anatomy Of The Newsletter Coloured bars tell us type of article (news, patent, paper…) Semantic tags tell us exactly which topics mentioned, regardless of synonyms Spikes when interesting stuff happening Never miss a thing, email or RSS updates Not just “things”, context too.
  9. 9. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 A Closer Look
  10. 10. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 “Faculty Of SciBite”
  11. 11. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Annotated Abstracts
  12. 12. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 What‟s Hot?
  13. 13. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 WebConnect http://scibite.com/site/p3/webconnect.html
  14. 14. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Commercial Products http://scibite.com/site/p3/products.html
  15. 15. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Questions You Can Ask  Who‟s publishing on this target, family, protein, micro-RNA?  Who‟s just patented on X/Y/Z? And what for?  Who‟s working on what target-disease combinations ?  Whats hot in breast cancer right now?  Who‟s increasing activity in therapeutic area X right now?  What top news stories, patents, publications and trials might I have missed?  How does the external landscape for protein family X compare to my internal data  ** New ** : What patented small molecules exist for the above?  … And any combination thereof
  16. 16. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 API & Data http://scibite.com/site/p3/prod/scibite_api.html
  17. 17. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Test It Now!
  18. 18. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Infographics
  19. 19. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 SciBite Plus (Late-2013) http://scibite.com/site/p3/prod/scibite_plus.html Connections plot, relationship to other topics by time and frequency Target relationship matrix, find new targets by precedence
  20. 20. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Commercial Landscape Map
  21. 21. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456
  22. 22. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456
  23. 23. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Termite, SciBite‟s Tagging Engine  Why create our own?  Cost  Configuration  Support  Flexibility/Customisation  Thesauri & Algorithms combined
  24. 24. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Thesauri, Our Approach  Value of crowd-sourced curation  Tackle issues at the thesaurus level  Public identifiers by default
  25. 25. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Our Thesauri Products .. And Now… Cell Line Species Investigative Procedure Phenotype
  26. 26. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Examples Of Added Value  EGFR and “estimated glomerular filtration rate” (eGFR)  Mark “EGFR” as case-sensitive matching only  Mark “EGFR” as ambiguous match only  Add “glomerular filtration” as a match-modifier  Auto-expansion (e.g. CHO cells, CHO cell lines, CHO transfectants)  Sub-synonyms (e.g. TBI, transient brain ischemia, traumatic brain injury, TBI Pharmaceuticals and lots more)  Synonym >> Ambig Synonym >> SubSynonym  Dictionary sub-setting (e.g. BIOCHEM is a mixture of lab chemicals and endogenous molcules)  OnDemand & Batch modes  Support Full Text & Abstracts
  27. 27. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Indication Thesaurus, Based on MeSH o Issues with MeSH “raw” for text-mining o Missing numeral versions "Type 1 Diabetes Mellitus", vs. "Type I Diabetes Mellitus”. o Basic stemming is not enough. “Breast Neoplasms” vs. “Breast Neoplasm” vs. "Breast Tumor/Cancer/Malignancy/etc” o International-english variations e.g. “Breast Tumour”; “Hemoglobin H Disease” vs. “Haemoglobin H Disease”; “Celiac disease” vs. "Coeliac” o Annotation vs. recognition forms e.g. "Chorea, Benign Hereditary" vs. "Benign Hereditary Chorea” o Greek letter variants: alpha-actin, a-actin, actin-a, actin-α o Missing major alternative names, e.g. jaundice but no icterus
  28. 28. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 Conclusion & Opportunities  Keeping „current‟ is difficult  Move on from email alerts per source  SciBite is one way of doing it  Natural connection from biomedical news to chemistry (SciBite+SureChem)  Are there other opportunities to feed in information streams (e.g. figure legends)  Can we apply SciBite alerting principles to other domains  Can we evolve text mining technologies to deliver increasing scientific value
  29. 29. SciBite. Drug Discovery, Now. © 2013 SciBite Limited. Reg. No. 7778456 THANKS

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