recently I found a data set that uses same experiment setup on these two platforms: HG-U133a and HG-U133b Since the overlap of probes is very small (168) I'm wondering if these platforms belong together. In other words: if it is a same expriment (lets say 50 samples), do I need to append probes in U133a (22283 probes) and U133b (22645 probes) to each other such that my data matrix will have a dimension of 44928x50 ? Or are these just completely "unrelated" platforms ?
Thank you! So for differential expression analysis, classification, and clustering I need to combine them.
That is my suggestion, yes.