Question: How to interpret a Stringdb interaction network of a mouse-proteomics dataset when it is detected only in Homo sapiens organism?
gravatar for F. Golestan
10 months ago by
F. Golestan60
F. Golestan60 wrote:


From an Immunoprecipitation/MS (pull down) analysis from mouse cells, I have a list of Accession IDs (such as P10809, P63261, Q09666, ...). I need to discover protein-protein interactions among all of these identified proteins and also specifically interactions with my bait protein (protein X).

So, I used String database to retrieve protein interactions. However, in String db, when I choose "Mus musculus" Organism, It does NOT find any proteins and produces this report "Sorry, the identifiers you provided did not match to any protein in your selected organism (Mus musculus)". However, when I select "Homo sapiens" organism, it can find protein interactions.

My question is that, in this case, from the String db interaction analysis of my identified proteins, in my publication, can I report this Stringdb-retrieved interaction for my proteins when they are detected by Homo sapiens organism and not Mus musculus?

Also, in this case, after retrieving the interaction, should I do further analysis or steps to also verify them in a Mus musculus organism or no need to do that?

I get confused about this issue. I will be so grateful if you can give me your advice in this regard. Best wishes

ADD COMMENTlink modified 10 months ago by andrew.j.skelton736.0k • written 10 months ago by F. Golestan60
gravatar for andrew.j.skelton73
10 months ago by
andrew.j.skelton736.0k wrote:

Your protein identifiers are human. Take P10809 as an example

The solution is to use the Mouse Protein IDs, or gene symbols with the specified mouse organism.

ADD COMMENTlink written 10 months ago by andrew.j.skelton736.0k

That is great. Thanks a lot for your guide.

ADD REPLYlink written 10 months ago by F. Golestan60
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