User: andrea.bast

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Posts by andrea.bast

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Comment: C: Which sequencing parameters are required for SGSeq analysis of splice events?
... Dear Leonhard, one more question occured while discussing about the project. Is there a requirement for the length of the fragments generated in the library preparation? You also said that longer reads would be helpful. We would plan to do 2x150bp (40 mio reads per sample). Would you say that shoul ...
written 9 months ago by andrea.bast0
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Answer: A: Which sequencing parameters are required for SGSeq analysis of splice events?
... Hi Leonard, ok, I think we will then perform the experiment like that. Thanks a lot for your help. Best, Andrea ...
written 9 months ago by andrea.bast0
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Answer: A: Which sequencing parameters are required for SGSeq analysis of splice events?
... Dear Leonhard, thanks a lot for your reply. Good to know that we don't necessarily require strand-specific sequencing. Concerning the sequencing depth, do you think that 50M reads for each sample with 3 biological replicates per group would be ok? Best, Andrea  ...
written 9 months ago by andrea.bast0
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Which sequencing parameters are required for SGSeq analysis of splice events?
... We plan to do an RNA-Seq analysis of knockdown and control samples in order to analyse differences in alternative splicing patterns between the two groups. The analysis should be done using R package SGSeq. We would now like to know which parameters we have to choose for the RNA-Seq experiment that ...
rna-seq sgseq alternative splicing written 9 months ago by andrea.bast0

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