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Sourcing High-Quality Online Data Resources for Computational Toxicology Antony Williams Bio-IT World, Current Methods for Computational Toxicology and Chemogenomics
The Community Depends On Us ,[object Object],[object Object],[object Object],[object Object]
Comp Tox Models Depend on DATA ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Nothing but the Facts ,[object Object],[object Object]
Open Notebook Science ,[object Object]
Aqueous Solubility of ECGC ,[object Object]
Melting Point of DMT
Content is King and  Quality  Costs ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Where can we find data online?
Where is chemistry online? ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Lots of “Public Compound” Databases ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Toxicology Data
 
Chemistry on the Internet ,[object Object],[object Object],[object Object],[object Object],[object Object]
www.chemspider.com
Search for a Chemical
Available Information… ,[object Object]
We Have Delivered the Vision ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Dialects describing chemicals
What is the Structure of Vitamin K?
MeSH ,[object Object]
What is the Structure of Vitamin K1?
What is the Structure of Vitamin K1?
CAS’s Common Chemistry
Wikipedia
 
 
ChEBI – Manual Curation
 
 
PubChem
 
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Public Domain Chemistry Databases ,[object Object],[object Object],[object Object],[object Object],[object Object]
Vancomycin ,[object Object],[object Object],[object Object]
The FDA’s DailyMed
  Structures on DailyMed
Lack of Stereochemisty
  Incorrect Structures
Wow!
We want to model DILI… ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Thanks to Sean Ekins https://dilin.dcri.duke.edu/for-researchers/info/
Initial DILI data – Names and Data ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
So you want data on drugs??? ,[object Object],[object Object],[object Object]
Vytorin: Ezetimibe/Simvastatin
Vytorin: Ezetimibe/Simvastatin
Vytorin: Ezetimibe/Simvastatin
Vytorin: Ezetimibe/Simvastatin
Vytorin: Ezetimibe/Simvastatin
Symbicort: Budesonide + Formoterol
Symbicort: Budesonide + Formoterol ChemIDPlus Wikipedia
DrugBank: Search Symbicort…
Symbicort: Budesonide + Formoterol ,[object Object],[object Object],[object Object],[object Object]
Taxol: Paclitaxel  44  structures
Taxol: Paclitaxel  Bioassay  Data
Public Domain Chemistry Databases ,[object Object]
 
Drug Name Generic Name ChEBI ChemSpider CAS Com. Chem ChemIDPlus DailyMed DrugBank PubChem Wikipedia Spiriva Tiotropium Bromide No Hits  No Hits    4/0  Depakote Valproate semisodium        No Structure Basen Voglibose   No Hits  No Hits  2/1  Symbicort 1) Budesonide       8/1  Symbicort 2) Formoterol WRONG  No Hits    6/1  Vytorin 1) Ezetimibe   No Hits      Vytorin 2) Simvastatin       2/1  Taxol Paclitaxel       44/1  Thalidomid Thalidomide No Hits        Zocor Simvastatin       2/1  Crestor Rosuvastatin   No Hits    2/1 
Personal  Experiences ,[object Object],[object Object],[object Object]
What can be done to help? ,[object Object],[object Object],[object Object],[object Object]
The Future: Open Source and Data ,[object Object],[object Object],[object Object],[object Object]
The Future: Open PHACTS ,[object Object]
Exposing Data for Semantic Web…
Coming soon… ,[object Object],[object Object],[object Object]
Thank you Email: williamsa@rsc.org  Twitter: ChemConnector Blog: www.chemspider.com/blog Personal Blog: www.chemconnector.com SLIDES: www.slideshare.net/AntonyWilliams

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Sourcing high quality online data resources for computational toxicology