I am in early stage of my research in bioinformatics. I have applied different machine learning and data mining techniques to detect gene clusters using microarray gene expression data. Similarly I also know it is possible to detect protein complexes using protein protein interaction data with the help of machine learning/data mining algorithms.
I also know it is possible to find gene ontology terms and pathways to obtain biological significance of gene clusters / computationally predicted protein complexes.
1) It would be very helpful for me to get the list of other different types of meaningful biological significance analysis that can be performed on the gene clusters to reach into a meaningful conclusion.
2) What are different ways to predict about the roles of the genes in a gene cluster that they may have association with a particular disease?