Question: Regarding cancer data analysis
0
gravatar for selvasvce
8 months ago by
selvasvce10
selvasvce10 wrote:

Hi all,

I have a list of pathways and I want to know the genes that are involved in the particular pathway? For example, let's say vimentin, I wanted to know the list of approved genes in this particular pathway.

I will be glad if you help me

Thanks

genome rna-seq R gene • 248 views
ADD COMMENTlink modified 8 months ago by EagleEye6.2k • written 8 months ago by selvasvce10

What have you tried?

For example, let's say vimentin

What is vimentin? Is it a gene, protein, metabolite or drug? Please show us a little more effort to demonstrate you're invested in this.

ADD REPLYlink written 8 months ago by RamRS21k

Hi

it is a structural protein. Vimentin is a type III intermediate filament.

ADD REPLYlink written 8 months ago by selvasvce10

I used Google to find what it is - that's not the point. You should add these details when you create the post. Also, you haven't answered my first question yet - what have you tried?

ADD REPLYlink written 8 months ago by RamRS21k
1
gravatar for genomax
8 months ago by
genomax65k
United States
genomax65k wrote:

Use Open targets database. Here is an example query with Vimentin.
Similar query at Reactome, Pathway commons.

ADD COMMENTlink modified 8 months ago • written 8 months ago by genomax65k
1
gravatar for EagleEye
8 months ago by
EagleEye6.2k
Sweden
EagleEye6.2k wrote:

Gene Set Clustering based on Functional annotation (GeneSCF)

With this tool you can retrieve all pathways with corresponding genes for your desired organism as simple text/table format. Example usage here

ADD COMMENTlink written 8 months ago by EagleEye6.2k
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