Is there any systematic way to compare human transcriptome annotation of different databases like UCSC, RefSeq and Ensemble with each other? I was wondering how much isoforms annotation overlap between different databases. For example for gene A, there is 3 isoform at UCSC, but there is only one isoform at UCSC databases.
This is certainly true that manually curated databases should be better. But still, there is no general way to decide this, right? - e.g. which one of the manual curated databases is 'better' than another one? This is hard to say and I guess most people would say something like 'in my opinion....' or 'judging by my experience...' - wouldn't you agree?
I guess, in the end - this is why you always cite the database, including data/version where you base you results on - 'cause stuff can change ;)