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Old 08-28-2014, 12:25 PM   #1
lucasmiguel
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Location: Brazil

Join Date: Jul 2014
Posts: 9
Default Cuffdiff - NO TESTED isoform

Hi !
I have one question. Analysing one gene differentially expressed by Cuffdiff, i saw that all of your isoforms are not differentially expressed. BUT the isoform that makes the gene be differentially expressed is NOT TESTED ( your FPKM is the highest in comparison of others isoforms ).

My question is: Cuffdiff removes the highly expressed isoforms and after testing them, he sum all FPKM of all isoforms for analyze the gene?

this explain why i have genes differentially expressed with no one isoform differentially expressed, right?

Thanks to all.
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cuffdiff, deg, fpkm, isoforms, testing expression

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