MSTRG. gene id in differentially expressed gene list!
I used stringtie and got a ballgown file with a GTF file in it. I have used prepDE.py3 to extract the gene count matrix from the GTF file. I used the extracted gene count matrix CSV file with the DeSeq2 and obtained the significantly differentially expressed genes. But most of the gene IDs are MSTRG. instead of Os in Oryza sativa japonica. What may be the reason? How to convert those MSTRG. Gene ID to the Os gene ID?
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GenoMax
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khanald2114 •
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See the explanations and solutions for this issue in one of these past threads -->
How to deal with MSTRG tag without relevant gene name?
Convert MSTRG gene IDs to real one?