Question: Prediction of TSS from tuxedo pipeline
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gravatar for sanoriagarima
5 weeks ago by
sanoriagarima0 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 • 91 views
ADD COMMENTlink modified 5 weeks ago by jnoble33310 • written 5 weeks ago by sanoriagarima0
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gravatar for jnoble333
5 weeks 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 5 weeks ago by jnoble33310
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