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Differential analysis(RiboseqR): Multiple read counts for the same gene identifier
08-May-2018, 11:35 AM
Post: #1
Differential analysis(RiboseqR): Multiple read counts for the same gene identifier
Hi,
I did a "Differential Translation Analysis" under RiboseqR (samples are aligned to yeast transcriptome). I notice for the same gene ID, some of the genes are shown more than once in the list, e.g., there are more than one “YEL071W” in "Riboseq file 1" with read counts shown as “6”, “33”, "79", .....and “23”. (Please kindly see the snapshot of the data in the attachment). Are they coming from multiple segments of "start codons (ATG) - stop codons (TAG, TAA, TGA)"? I read the publication of RiboseqR, but I cannot figure out how should I process for TE calculation for each Gene since I have multiple outputs for the same gene, shall I take the sum (sum =”6” + “33” + “79”+...+"23") for “YEL071W”? Or these counts are corresponding to different length ORFs of “YEL071W” (If in this case, where can I find the corresponding length of these ORFs?)

Thanks a lot for your advice!


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Differential analysis(RiboseqR): Multiple read counts for the same gene identifier - 06dalton - 08-May-2018 11:35 AM

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