I am in a little bit of a pickle. I have this protein microarray from Kinexus corp. results from our experiment and I need to analyze the results. We were provided with the Excel spreadsheet that states the protein name, phosphorylation site, some error and quality checking columns and lastly what they call the Z-ratio (Z-score difference between treated and control divided by the standard deviation). We came up with a list of comparison of different treatment groups(we have 4) and the names of proteins that were e.g. significantly up or down in our comparisons were noted. Now the question: could you tell me how can we dig deeper i.e. what else can we do, perhaps proteins interactions, post-transcipt. modifications, functional analysis, pathway analysis and their associated most commonly used tools? Great thank you.