Question: How to create a gene network
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gravatar for The Last Word
11 months ago by
The Last Word170
India
The Last Word170 wrote:

Hi,

I am trying to create a network from a set of genes that I have. The issue I have is that most of the genes are predicted and the organism I am working with is a type of termite. Hence, I cannot use Genemania which can only be used for genes from specific species like humans, flies etc. I cannot use STRING because that uses protein sequences and the species I work with is also not on it. Most tools I found can be used for network creation only if the genes I have is from well studies species like mus musculus, drosophila etc. Is there anyway in which I can create a network from the set of genes that I have. Thank you in advance.

network • 405 views
ADD COMMENTlink written 11 months ago by The Last Word170

Hello The Last Word!

It appears that your post has been cross-posted to another site: https://bioinformatics.stackexchange.com/questions/4225/create-gene-network-from-list-of-genes

This is typically not recommended as it runs the risk of annoying people in both communities.

ADD REPLYlink written 11 months ago by Devon Ryan89k

Hello The Last Word,

I was working with goat proteins which is a not very studied animal, so I turned my list to similiar Bos taurus proteins which is the most studied ruminant (via uniprot) and so I built my network in STRING.

So, you can to do is to turn your list into a list of the most studied Insecta or Blattodea and so try to build your network by similarity. Tip: Look at the uniprot list which Insecta or Blattodea are present, then convert your list.

Best Regards,

Leite

ADD REPLYlink written 11 months ago by Leite370
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