How To Handle Microarray Data In Cytoscape
i am a begiener, and doing my masters degree research work,, i am currently working on gene expression data for avian influenza in ducks with the help of microarray. i want to make a network of genes which are present in my data for downstream analysis.but i am struck as i dont know how to make network from a microarray gene expression data. i have data in the format :
probe name comman name fold change p valuE
Duck_1254 MYBPC1 2.636 0.01 . .
.
AND SO ON
Please suggest me how to proceed ? and can this be done with the help of cytoscape.
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There are many different kinds of network. What kind do you want to make? Sounds like co-expression?
yes sir co expression network, please guide me
You might try WGCNA, then.
might want to check out CORNET https://cornet.psb.ugent.be/main/tool