[ensembl-dev] REST service
rhoda at ebi.ac.uk
Fri Nov 9 12:04:47 GMT 2012
The External attribute section of Biomart contains all the cross references that you can get via REST. These can be classed as synonyms or external references. You should be able to obtain the same information from both resources. I hope that is clear, but if you have an example query, I am happy to illustrate this.
On 9 Nov 2012, at 10:18, Moretti Sébastien <sebastien.moretti at unil.ch> wrote:
> About the second part, I wonder how to get gene name synonyms in BioMart.
>> Hi Sébastien
>> To answer the second part of your question, you can get gene and protein external references from both the REST service and BioMart. In BioMart, if you look at the Attributes->Features page and go to the External section, you will see the list of sources for which we have external references.
>> I hope that helps,
>> On 9 Nov 2012, at 09:29, Moretti Sébastien <sebastien.moretti at unil.ch> wrote:
>>> I wonder if we can submit a list of identifiers in your REST service instead of a single identifier.
>>> This way we could submit a dataset as in BioMart, and also decrease the number of HTTP requests.
>>> Also is there a way to get gene/protein name synonyms in BioMart ?
>>> The REST service can but I cannot figure out how to get them in BioMart.
> Sébastien Moretti
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Rhoda Kinsella Ph.D.
Ensembl Production Project Leader,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus,
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