How to use PiNAT
Input:
You can submit a list of protein names (UniProt, Swissprot / Trebml, Genbank or DIP) You can also submit your own network.
Parameters:
You should specify the depth of the PPI network around your query proteins. A depth of 1 means that PiNAT will retrieve all the interactions that invlove your query proteins. A depth of 2 will retrieve also the interactions that involve proteins of depth 1, and so forth.Output:
PiNat returns two types of output:
1. a table with the bilogical reasonabilty of each PPI (Low, Neutral or High), based on two different assessments.
2. A schematic representation of the process in the cell. It also returns a GML file that could be dowloaded and viewed with cytoscape.
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