database with Ensembl transcript identifiers

[Martina Kutmon]

The normal gene databases just contain the Ensembl gene identifiers, but not the transcripts, right?

Is there already a database available that also has the transcripts?

Best,

Martina

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Martina Kutmon

PhD researcher

Department of Bioinformatics

Maastricht University, NL
email: mku...@gmail.com
skype: mkutmon

[Alexander Pico]

No. We tried adding transcripts and exons as one point and the dbs exploded in size, making them unmanageable for use in WikiPathways.  I could produce separate versions with transcripts for projects/usage outside of WP. I’d like to do this for just 1 or 2 species based on need. Or, the transcript to gene mappings could always be added as a separate table with transitivity through BridgeDb.

 - Alex