How to translate EC number of enzymes in to corresponding Entrez gene ID?
Dear mate,
I have a question that need your assistance. How to translate EC number of enzymes in to corresponding Entrez gene ID in large scale (I have around 1000 candidates)?
I appreciate any suggestions.
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You can try the mygene.info services.
Start from Gene info annotation service (http://mygene.info/v3/api#MyGene.info-gene-annotation-services ), and restrict fields to ec.
For example the following will get the e.c. of gene 384:
- http://mygene.info/v3/gene/384?fields=ec%2Cname (arginase 2)
To automatize this for a large number of genes, have a look at the docs and the python APIs: http://docs.mygene.info/en/latest/doc/packages.html
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From EC number to nucleotide sequence with biopython refers to getting sequence but you may be able to modify it if you only need ID's.