Molecule model build

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Revision as of 21:32, 2 March 2010 by Kyook (talk | contribs)
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links to relevant pages
Caltech documentation
Overview of molecule pages
Example molecule pages


Proposed starting model

///////////////////////////small molecule/chemical/drug ////////////////////////////
// 
// ?Sm_molecule  (taken from the WB grant, this model is supposed to represent the proposed small_molecule class, but that name alone is a bit long given the latest feedback of other model names, so if you can propose something shorter and still meaningful, feel free, or let the group decide. 
//
////////////////////////////////////////////////////////////////////////////////////
?Sm_molecule	Name ?Text
		Synonym ?Text
		DB_info Database ?Database ?Database_field ?Accession_number
		Involved_in_process WBProcess ?WBProcess XREF Molecule #Evidence
               sm_molecule_phenotype_interaction 
///////////////////////////////////////////////////////////////////////////////////

Model elements

Name-> do we want a WBID for this class
Synonym -> public/common names
DB_info links to other databases and database ID's


Possible model elements

KEGG ID (enzyme classification) , Gene product KEGG enzyme assignments been supplied by Makedonka and is in the database now.
Vendors/Sources //This information should be linked to a particular experiment and therefore paper.

  • Sigma-Aldrich
  • MP Biochemicals
  • Calbiochem
  • ZINC

Other databases


Chris's notes

Jolene's notes

Raymond's notes

Karen's notes

General concerns and comments