Differential Expression analysis of Brassica polyploids
Hello, I'm having a problem in the Differential Expression analysis of Brassica allopolyploids. I have sequenced paired end read data from three Brassica diploids and three Brassica tetraploids. I have aligned them separately to the reference genome and expression quantification was done using RSEM. But I don't understand how can I do the Differential Expression analysis between diploids and tetraploids. Because they have different gene id's in their count tables. Please help me to clarify this problem!
Thanks in advance.
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thulani.m.hewavithana •
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