Question: (Where) can I download the Ensembl cross reference database?
0
gravatar for samuel.lampa
6.3 years ago by
European Union
samuel.lampa0 wrote:

Ensembl has released a beta of a great new REST API for converting between different gene identifiers, over at:

http://beta.rest.ensembl.org/documentation/info/xref_id

We need to do some heavy parsing of some gene ids though, and thought it might be better to download a dump of this data locally rather than sinking the REST endpoint.

Anybody knows if - and if so, where - I can do that?

ensembl database identifier • 2.1k views
ADD COMMENTlink modified 6.3 years ago by Emily_Ensembl21k • written 6.3 years ago by samuel.lampa0
3
gravatar for Emily_Ensembl
6.3 years ago by
Emily_Ensembl21k
EMBL-EBI
Emily_Ensembl21k wrote:

That would be the Perl API

ADD COMMENTlink written 6.3 years ago by Emily_Ensembl21k

Thanks, that was quick! :) I'm now studying http://www.ensembl.org/info/docs/api/api_installation.html ... Would be cool if there was one big json-dump of the xrefs data though, but I guess with a little work I can get the perl API up and running too.

ADD REPLYlink modified 7 months ago by RamRS28k • written 6.3 years ago by samuel.lampa0

There's so much data that it's all stored in MySQL tables.

ADD REPLYlink written 6.3 years ago by Emily_Ensembl21k
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