Question: Gene interaction and network analysis tools
0
gravatar for arash.iranzadeh1980
16 months ago by
arash.iranzadeh198030 wrote:

Hi,

I am working on two populations of invasive and non-invasive bacterial samples. I have found hundreds of genes that are present only in invasive samples. The sequence and annotation of all genes are available. I want to investigate the pathways that these genes are involved. What tools do you suggest?

Thanks a lot!

Arash

gene network analysis • 259 views
ADD COMMENTlink written 16 months ago by arash.iranzadeh198030
2
gravatar for A
16 months ago by
A3.8k
A3.8k wrote:

http://www.webgestalt.org/ is one tool I guess one could use

ADD COMMENTlink written 16 months ago by A3.8k
2
gravatar for aln
16 months ago by
aln290
Ukraine
aln290 wrote:

For the quick analysis I would suggest web services:

There are also corresponding R packages for enrichR and pathview.

However, keep in mind that most of the online tools are tuned for human, or mice and rat, so it may complicate your task. If the tool allows (such as webgestalt mentioned earlier) I would suggest using background (reference) genes list at least.

ADD COMMENTlink modified 16 months ago • written 16 months ago by aln290
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