This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Mapping Of Uniprot Ids To Mips Ids

Hello every body, I have a list of proteins ID in Uniprot format and I want to have their IDs in the MIPS database, could any one point me how to do it? I am still a beginner in this field, Thank you in advance.

uniprot
• 5,024 views • link
updated by Neilfws Neilfws • written by Sirus Sirus

I was about to suggest BioMart, but strangely there is no MIPS attribute there. Thats what i would generally use for these sorts of things

• 0 views • link
written by Dave Bridges Dave Bridges

Dave, isn't that connected to the fact that MIPS services are notoriously unreliable? At this moment ca. half of their databases/web apis are unavailable or broken.

• 0 views • link
written by Pawel Szczesny Pawel Szczesny

I'm confused: I thought MIPS was a mammalian (or perhaps yeast) PPI database? Is there another MIPS? Obviously E. coli will not be in the one that I'm thinking of.

• 0 views • link
written by Neilfws Neilfws

2 answers

http://www.kegg.jp/dbget-bin/www_bget?ath:AT1G15970

So you should have a look at the download section of Kegg if such information is:

  1. Available in raw data file
  2. Available for your species
• 0 views • link
updated by Ram Ram • written by Fred Fleche Fred Fleche

Oh, thank you, but only I couldn't find the download section could you please send me the link .

• 0 views • link
written by Sirus Sirus

I am looking for E.Coli protein list mapping

• 0 views • link
written by Sirus Sirus

Thank you very much :).

• 0 views • link
written by Sirus Sirus

I have tried the link there is not MIPS entries I guess

• 0 views • link
written by Sirus Sirus

In other words I my proteins in this form PXXXX and I want it in the form Yxxxx and I think the MIPS IDs are in this written in this form

• 0 views • link
written by Sirus Sirus

I've searched the web for MIPS and I cannot find anything that is relevant to E. coli. The only MIPS of which I'm aware is part of IBIS and I don't see anything there that relates to E. coli protein sequences.

Unless you can point to a MIPS entry on the web and /or explain why you think that Yxxxx is a MIPS identifier, I think it may be that MIPS is nothing to do with that organism.

• 0 views • link
written by Neilfws Neilfws

Well, me my self I am not that sure that they are MIPS ids, but I had searched from some annotations that are this form and found that they look like MIPS ones, but me too I am confused, because as you said the only available MIPS entries are for mamalian

• 0 views • link
written by Sirus Sirus

For example here it is a Yeast complex

• 0 views • link
updated by Ram Ram • written by Sirus Sirus

Well, actually, those Yxxxx are Ensemble Gene IDs, it took time to figure it out,

• 0 views • link
written by Sirus Sirus

Log in to answer this question.

More posts like this