I have a network built using the list of genes coming from a microarray experiemnt, i used Genemania in order to map interactions from co-expression databases, and now I want to know which genes could involved in synthetic lethality.
My approach was the next:
I used igraph package to load and analyze the network, I tried to find those genes that are Hubs using Hub authority and Hub scores functions and the removing them and their interactions from the networks to show that they are involved in Synthetic lethality, however the network didn't show a signifficant change ( i.e didn't collapse it) Do you know any other package in Bioconductor or an existing alternative outside R? Suggestions will be appreciated
Thanks in advance