Obtain Protein-Protein Interaction (PPI) table from a list of Gene IDs in R or Python.
1
0
Entering edit mode
omarrafiqued ▴ 50
@omarrafiqued-21833
Last seen 4 months ago
India

Could someone please give me a working example of obtaining a PPI interaction network from a list of genes in R or Python.

The input is a list of genes such as : 6416, 2318, 351, 409, 5392, 1956 .......

And the output should be two columns that represent two interacting genes, like below:

6416    2318
6416    5371
6416    351
6416    409
6416    5932
6416    1956

Also,there are thousands of gene and I want to control the number of output interaction so my laptop can handle the computations and not run out of computational power. :P

(If possible, please sow how to use BioGRID and PICKLE using R to solve the above)

Thanks.

Protein Protein Interaction Gene List BioGRID PICKLE R Programming • 521 views
ADD COMMENT
1
Entering edit mode
Kevin Blighe ★ 3.9k
@kevin
Last seen 22 days ago
Republic of Ireland

Hi, this forum is for questions related to Bioconductor packages. You may consider a more general bioinformatics forum like Biostars.

ADD COMMENT

Login before adding your answer.

Traffic: 742 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6