Metabolic Interaction Network analysis

Question

[zizigolu]

Hello,

I have a list of genes, with which tool I can draw cellular pathway and transcriptome interactions of my genes? Pathway Studio is such a tool but it's commercial. I need to draw pathway diagrams showing the proteins involved in my interest network please

Answer 1

[michael.ante]

Hi Sarah,

for first impressions, I'd suggest the graphviz package for the command line. It arranges nodes and edges automatically in different flavours.

If you need something more fancy, try bioUML workbench (see here); I don't know if they changed their policy by now, but a couple of years ago it was freely available.

Cheers,
Michael

[zizigolu]

Thank you Michael, I prefer something far from R then I am trying bioUML workbench right now

[zizigolu]

Try BioLayout Express, but read the manual at first!