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From 2010.igem.org

1 Microarrays - reliability - How reliable is the protein regulation profile in the article "Transcriptional profiling of melanocytes..."

2 How should one priorate different types of protein-protein interactions? Focus on experimental (not predictive ) data and focus first of all at physical PPI second at co expression and co localisation. Skip the rest.

To improve PPI reliability

• Find a good coverage from many primary databases. -How many and with?
• What experiments were used? If the same result is dereved from many different experiments then the PPI is more reliable.
• Look at 3D structures...?

Compare with canonical pathways to get a better insight in the functional roles of the proteins in the network.