GlyTouCan IDs masterlist for June submission

[ReneRanzinger]

Hi,

I have a question related to GlyTouCan Ids use for compounds. In the last release we would provide a list of GlyTouCan Ids from GlyGen. This list would be used by the submission prep tool to validate the provided GlyTouCan Ids.

It seems to me long term it would be better to retrieve the GlyTouCan accessions directly from GlyTouCan and use their list, since they are the glycan naming authority. GlyGen would only have a subset of their Ids in its submission.

There are two webservices that would be used for this:

https://sparqlist.glycosmos.org/sparqlist/api/glytoucan-data
Provides a JSON “dump” of glycans in GlyTouCan. For each glycan the GlyTouCan accession (AccessionNumber) and the sequence (Sequence) is provided.

https://api.glytoucan.org/swagger-ui.html#!/glycan-controller/listGlycansUsingGET
A swagger documented webservice that allows to get a subset of GlyTouCan Ids (using limit and offset). Only provides GlyTouCan Accessions as response.

What do you think? How should we proceed in this release? Should we send an updated GlyTouCan masterlist or do you want to try using the webservices?

Best,
René

[ReneRanzinger]

This confirms that help desk ticket HELP-290 GlyTouCan IDs masterlist for June submission was created.