Question: E.C. numbers to GO terms or annotations
0
gravatar for shibl_a
7 weeks ago by
shibl_a0
shibl_a0 wrote:

I have a list of E.C. numbers (~200) that I would like to 'translate' into either GO terms or, even better, annotation descriptions. Is there a platform/ software on which I can submit that list as input and get their description as output? Thanks!

ADD COMMENTlink modified 7 weeks ago by lieven.sterck2.1k • written 7 weeks ago by shibl_a0

Please post some example EC numebers.

ADD REPLYlink written 7 weeks ago by cpad01128.3k

here is part of the list:

EC:1.1.1.100 EC:1.1.1.27 EC:1.1.1.29 EC:1.1.1.35 EC:1.1.1.38 EC:1.1.1.39 EC:1.1.1.79 EC:1.1.1.8 EC:1.1.1.81 EC:1.1.1.86 EC:1.1.1.94 EC:1.1.1.95 EC:1.10.2.2

ADD REPLYlink written 7 weeks ago by shibl_a0
2
gravatar for lieven.sterck
7 weeks ago by
lieven.sterck2.1k
Belgium, Ghent, VIB
lieven.sterck2.1k wrote:

There is a 'conversion' list provided by the EBI, you can find it by linking though from here

ADD COMMENTlink modified 7 weeks ago • written 7 weeks ago by lieven.sterck2.1k
1

i think mapping is redirected to this page from EBI: http://www.geneontology.org/external2go/ec2go

ADD REPLYlink written 7 weeks ago by cpad01128.3k

indeed it is, but I pointed to the 'intro' page (which also gives a bit of background info). Will edit my answer

ADD REPLYlink written 7 weeks ago by lieven.sterck2.1k
1

you are correct that you provided correct link (with background and every thing). Link I posted was for impatient users :). @Lieven

ADD REPLYlink written 7 weeks ago by cpad01128.3k

Thanks! I came across this earlier but I would have to manually search for each EC number on it's own. That would work if I had a few to deal with, but given that my list is quite long I was looking for more of a program that would give me the output we see on the page from EBI.

ADD REPLYlink written 7 weeks ago by shibl_a0

Simply use grep or awk or such to select the lines (ECnumbers) you need based on your input list

ADD REPLYlink written 7 weeks ago by lieven.sterck2.1k
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