Question

How To Build Gene Network Biology ?

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12.6 years ago

madkitty ▴ 690

I've seen wonderful gene networks recently published. Is there any way to do this from a list of gene ? What do I need ?

gene network biology • 2.6k views

ADD COMMENT • link updated 10.7 years ago by Biostar 20 • written 12.6 years ago by madkitty ▴ 690

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From a list of genes? No. From a list of genes with some kind of data that indicates the interactions between them? Yes.

ADD REPLY • link 12.6 years ago by Neilfws 49k

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can you give us some example what you saw?

ADD REPLY • link 12.6 years ago by Gjain 5.8k

score 1 · Answer 1 · 2012-04-24

As said Neilfws you need pairwise information, e.g.

-a tab separeted text file like this

gene1   interaction gene2
ABC1    2   BRCA2
ABC1    2   BRCA1
BRCA2   2   XRCC1

-a tool for graph visualization (e.g. cytoscape, graphviz...). In cytoscape you should import a new network from table/csv and setup source (gene1), destination (gene2) and interaction type (interaction) column from the wizard.

-look at the graph

p.s. I suggest at least reading the good cytoscape tutorial