Question: Prediction of TSS from tuxedo pipeline
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gravatar for bioinfo_ga
7 months ago by
bioinfo_ga0
bioinfo_ga0 wrote:

I have 22Million (150*2) human transcriptome reads. I have performed reference alignment using tuxedo pipeline (Tophat followed by Cufflinks).I need to calculate transcription start site (TSS) in my aligned transcripts and how to calculate position of TSS with respect to proximal and distant promoter.

tss rna-seq tuxedo • 224 views
ADD COMMENTlink modified 7 months ago by jnoble33310 • written 7 months ago by bioinfo_ga0
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gravatar for jnoble333
7 months ago by
jnoble33310
jnoble33310 wrote:

I think in the case of a + strand transcript your TSS would be the leftmost position in exon 1 of the transcripts in the gtf file generated by cufflinks.

ADD COMMENTlink written 7 months ago by jnoble33310
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