Hi,
I want to create a script that will check if specific pairs of genes have an interaction. So let's say for example that we want to check if these genes/proteins ACTA1, TNNC2 interact each other.
Through STRING's WEB interface, and by choosing multiple proteins on the left menu, the results show that these two proteins might interact.
Since that the web interface is not accessible through a script, I tried to use the REST API to retrieve this info but without any success. REST-API always returns a NULL table when trying
http://string-db.org/api/tsv/interactionsList?species=9606&identifiers=ACTA1%TNNC2
OR
http://string-db.org/api/tsv/interactorsList?species=9606&identifiers=ACTA1%TNNC2
Am I doing something wrong?
•
written
by
arronar
1 answer
The STRING API works with STRING identifiers, e.g.:
http://string-db.org/api/tsv/interactionsList?identifiers=9606.ENSP00000304895%0D9606.ENSP00000303830
Use the resolve API:
http://string-db.org/api/tsv-no-header/resolve?species=9606&identifier=ACTA1
If you want only the ID (for example to reuse in a script) then:
http://string-db.org/api/tsv-no-header/resolve?species=9606&format=only-ids&identifier=ACTA1
You have a list of genes and a gene can produce more than one protein. The question is what level of resolution do you need: gene level or protein isoform level ? If all you need is check if a given gene pair interacts via any of their proteins then you can stop as soon as you've found an interacting protein pair.
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