mapping interactions of proteins from two different species

Integrative methods to study complex biological phenomena
bubblepig
Proton Member
Proton Member
Posts: 1
Joined: Thu Jun 12, 2014 8:46 pm

mapping interactions of proteins from two different species

Postby bubblepig » Thu Jun 12, 2014 8:54 pm

Hi all,

I would like to plot potential interactions of proteins from two bacterial species.
String-db only allows one species/query under protein mode.
Does anyone have any suggestions?

Thanks
bubblepig

ranio
Angiotensin Member
Angiotensin Member
Posts: 31
Joined: Fri May 04, 2012 1:06 am

Postby ranio » Mon Jun 16, 2014 6:18 pm

In StringDB you can analyse species and export the interaction data respectively, and plot the interactions figure with different colours or shapes in Cytoscape.

In otherwise, you can try Dapple, http://www.broadinstitute.org/mpg/dapple/dappleTMP.php#

DAPPLE stands for Disease Association Protein-Protein Link Evaluator. DAPPLE looks for significant physical connectivity among proteins encoded for by genes in loci associated to disease according to protein-protein interactions reported in the literature. The hypothesis behind DAPPLE is that causal genetic variation affects a limited set of underlying mechanisms that are detectable by protein-protein interactions. Please refer to the DAPPLE publication for full details.


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