[ensembl-dev] Pathway analysis

[Matthew Laird]

Hi Matiss,

In addition to Kieron's reply there are a number of other high quality 
sources of interaction and pathway data.

InnateDB (http://innatedb.ca)
IntAct (http://www.ebi.ac.uk/intact/site/index.jsf)
Bind (http://bond.unleashedinformatics.com/Action?)
Mint (http://mint.bio.uniroma2.it/mint)

As well EBI maintains a registry of programatically accessible 
interaction data in PSICQUIC registry ( 
www.ebi.ac.uk/Tools/webservices/psicquic/view), unfortunately this is 
still currently offline after a weekend data centre shutdown on campus. 
It should be back online soon.

On 31/08/16 09:54, Kieron Taylor wrote:
> Hi Matiss,
>
> You could try http://www.genome.jp/kegg/rest/keggapi.html
>
> We don't have a direct relationship with KEGG at the moment, so take the links with a little caution.
>
> Kieron
>
>
> Kieron Taylor PhD.
> Ensembl Developer
>
> EMBL, European Bioinformatics Institute
>
>
>
>
>
>
>> On 3 Aug 2016, at 11:58, Matiss Ozols <matiss.ozols at manchester.ac.uk> wrote:
>>
>> Dear all,
>> I am using many Ensembl tools, however I am wondering how I can retrieve an information about pathways each gene is involved in? I found KEGG pathways but not sure if they have API.
>> I am using Python programming and would be great to have an API that retrieves this info for each of genes.
>> I have about 500 genes that I need to know what pathways they are involved in.
>>   
>> Hope you can help,
>> Best regards,
>> Matiss
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-- 
Matthew Laird - Ensembl Core Developer
The European Bioinformatics Institute (EMBL-EBI)
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