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Tools for protein networks building

Hi guys, I need to create a network of interacting proteins from MS expression measurements. Do you know which tools, softwares and algorithms are available to do this?

Thank you in advance

networks proteins systems biology algorithms
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written by Bnf83 Bnf83

Don't you need interaction data, instead of expression data, in order to do this? Like yeast two hybrid for instance?

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written by Benn Benn

Hi. I only have protein expression data from a MS experiment.

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written by Bnf83 Bnf83

3 answers

Look at this paper:

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086107/

NetworkAnalyst - integrative approaches for protein–protein interaction network analysis and visual exploration

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written by natasha.sernova natasha.sernova

You can use Cytoscape. Granted, you are going to first need interaction data - which proteins are already interacting with what, etc.. Then you can use your expression data as a way to weigh the strength of each interaction.

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written by jiwpark00 jiwpark00

Thank you very much guys!

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written by Bnf83 Bnf83

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