Changes between Version 15 and Version 16 of SatelliteGlycoBiology
- Timestamp:
- 2009/03/20 15:59:09 (16 years ago)
Legend:
- Unmodified
- Added
- Removed
- Modified
-
SatelliteGlycoBiology
v15 v16 48 48 * getKCFfromIUPAC 49 49 50 Our workflow thus takes as input a keyword and searches GlycoEpitopeDB for entries matching the keyword. The retrieved entries are then used to get the glycan structures from each entry in IUPAC format. A new utility in RINGS was then developed to convert from IUPAC to KCF format. In an additional step, we retrieved similar glycan structures to the converted ones in KCF format. Both RINGS and GlycoEpitope will continue to develop other web services with which to build workflows.50 Our workflow thus takes as input a keyword and searches GlycoEpitopeDB for entries matching the keyword. The retrieved entries are then used to get the glycan structures from each entry in IUPAC format. A new utility in RINGS was then developed to convert from IUPAC to KCF format. In an additional step, we retrieved similar glycan structures to the converted ones in KCF format. However, we still need to develop a parser to retrieve the KEGG GLYCAN IDs along with their scores from the GlycomicsObject. 51 51 52 52 The disease-related workflow was able to retrieve H-Inv entries containing the OMIM Ids which were retrieved from OMIM for entries containing a particular keyword. The issue is that the output is in XML and contains entries which do not contain any SNPs, which 53 53 we want to filter out. Tom showed us how to make a beanshell script which can be added to the workflow, and it worked! 54 54 55 [[Image(disease2snp.png)]] 55 56 [[Image(glycoepitope_rings_wf.png)]]
