Question: (Where) can I download the Ensembl cross reference database?
0
gravatar for samuel.lampa
4.3 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 • 1.6k views
ADD COMMENTlink modified 4.3 years ago by Emily_Ensembl15k • written 4.3 years ago by samuel.lampa0
3
gravatar for Emily_Ensembl
4.3 years ago by
Emily_Ensembl15k
EMBL-EBI
Emily_Ensembl15k wrote:

That would be the Perl API

ADD COMMENTlink written 4.3 years ago by Emily_Ensembl15k

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 written 4.3 years ago by samuel.lampa0

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

ADD REPLYlink written 4.3 years ago by Emily_Ensembl15k
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