User: bxia

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bxia120
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Posts by bxia

<prev • 93 results • page 1 of 10 • next >
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Comment: C: How Gro-seq identify enhancer RNA?
... Hi, Kevin, I understand that the GRO-seq identify the location for the nascent RNA. Although enhancer is not restricted to TSS, most of them overlap with TSS. In addition, the signal i see on the genebody belong to enhancer RNA or mRNA? Thanks, ...
written 12 days ago by bxia120
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How Gro-seq identify enhancer RNA?
... I am a little bit confused about how Gro-seq could identify the expression of enhancer RNA. Will the most mapped reads are actually belong to coding mRNA? Thanks, ...
rna-seq written 12 days ago by bxia120 • updated 12 days ago by Friederike890
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Could I map strand specific RNA-seq with non-strand specific?
... I have some RNA-seq samples, some are strand specific, some are not. Cuffdiff only can use either strand specific or non-strand specific, if I want to run all these samples together, could I just use the non-strand specific for cuffdiff? Except for the antisense RNA, is there a huge problem of do ...
rna-seq written 12 weeks ago by bxia120 • updated 12 weeks ago by Renesh1.1k
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What is the difference between hg19 v9 vs hg19
... I saw some encode data has processed file with hg19 v9 and hg19. What is the difference? ...
rna-seq written 3 months ago by bxia120 • updated 3 months ago by Denise - Open Targets4.1k
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how do I know there is alternative transcript switch in RNA-seq
... I know cuffdiff2 could detect transcripts expression level. But what is the criteria that I could say that there is transcript switch? Let's say two transcript, A, B, and two conditions. What is the best way to conclude there is a switch, is there a gold standard? Thanks, ...
rna-seq written 5 months ago by bxia120 • updated 4 months ago by Biostar ♦♦ 20
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Comment: C: How to know a RNA-seq is polyA or total-RNA-seq in GEO?
... So there is no way to figure them out without mapping result, right? ...
written 6 months ago by bxia120
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How to know a RNA-seq is polyA or total-RNA-seq in GEO?
... How to know a RNA-seq is polyA or total-RNA-seq in GEO? Does GEO require that kind of meta data during submission? Thanks, ...
geo rna-seq written 6 months ago by bxia120 • updated 6 months ago by Devon Ryan74k
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Comment: C: bed format, START always bigger than END, no matter which strand?
... That is a good idea. Thanks ...
written 6 months ago by bxia120
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Comment: C: bed format, START always bigger than END, no matter which strand?
... I am trying to convert .bowtie file generated by bowtie to BED ...
written 6 months ago by bxia120
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bed format, START always bigger than END, no matter which strand?
... I am trying to convert bowtie to bed format. in bowtie, it only provide start position, if the strand is '-', is that the START in bowtie is actually the left of the reads, no matter which strand? And in bed format, START always bigger than END, no matter which strand? For example, in bowtie I ...
bed bowtie written 6 months ago by bxia120 • updated 6 months ago by Alex Reynolds22k

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