Question: Bioinformatic tools for identifying protein-interaction network for non model organism (plants)
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gravatar for rajaragupathy
4.8 years ago by
Canada
rajaragupathy10 wrote:

Hello researchers, I have a list of 300 proteins from a non-model organism (Linum) whose genome was sequenced and annotated. I need to explore the potential interaction among all of these proteins. From literature, I learned that NetVenn (Wang et al 2014 Nucleic Acids Research) and STRING (Franceschini et al 2014, Nucleic Acids Research) are available, but only for human and model organisms. Is there any bioinformatics tools to generate protein-protein interaction network for a non-model organism? For most of these proteins I have UniProt, Pfam and TAIR IDs.

Thank you

gene • 1.9k views
ADD COMMENTlink modified 4.8 years ago by Renesh1.6k • written 4.8 years ago by rajaragupathy10
0
gravatar for Renesh
4.8 years ago by
Renesh1.6k
United States
Renesh1.6k wrote:

Use any tool that is designed for identifying protein interaction network in model organism in plant. Find homologous sequences of your proteins with that organism and construct the protein-protein interaction network based on the homologous IDs of model organism.

ADD COMMENTlink written 4.8 years ago by Renesh1.6k
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