I have the counts matrix of an RNA sequencing dataset of fibroblasts and I wish to identify isoforms of a particular gene of interest in it. Can anyone please hint me on a bioinformatics method to achieve this?
In literature, 9 different isoforms of my gene of interest have been reported. My colleague who does the wet lab experiments has identified 3 of those isoforms through western blotting in the fibroblasts that later got sequenced. There might be more isoforms in these fibroblasts.
I will be grateful for any computational hint to identify gene isoforms from my dataset, irrespective if they are differentially expressed or not.
Thank you in advance for your kind help.