Visualize the two pathways sharing some common genes

Question

[Zhilong Jia]

How to get a figure of two pathways where there are some common shared genes? Any website or R package suggestion? Thank you.

Answer 1

[Shicheng Guo]

It is quite easy. First you need get the structure for each pathway,

For example, for the first pathway

A - B
B - C
A - C

And then, for the second pathway

A - F
E - M
T - H
M- H

Then you can merge these two pathway and import them to Cytoscape, then you will get the merge pathway.

Answer 2

[Alex Reynolds]

Our regulatory network browser might offer some guidance on how to do this via a d3.js-based website. Otherwise, you could try rendering a couple networks in Cytoscape and pull exported figures together in Adobe Illustrator or Inkscape.