I am very new to bioinformatics. I have applied 2-3 data mining/ machine learning techniques to detect gene clusters using RNASeq gene expression data. Similarly I also know it is possible to do promoter and pathway analysis or gene ontology on that data using machine learning/data mining algorithms.
1) Can you suggest some very new clustering and/or classification algorithm with very high performance considering replicates at each time point.
2) How can I measure performance of the clustering mechanism that I am using ?
3) What visualisation method would be best for showing the result of clustering?
4) Can you suggest different types of meaningful biological analysis that can be performed on the gene clusters to have a meaningful conclusion on the significance of gene clusters.