tag:blogger.com,1999:blog-6334453475526523597.post1368082062196199930..comments2023-11-07T10:31:25.370+00:00Comments on CoreGenomics: Low-input RNA-seq: ever wondered how much of your total RNA is of any real interestJames@cancerhttp://www.blogger.com/profile/02825715598810395734noreply@blogger.comBlogger3125tag:blogger.com,1999:blog-6334453475526523597.post-1554278792078778962015-01-29T13:36:14.414+00:002015-01-29T13:36:14.414+00:00Hey James,
okay but sorry to be so persistent. Wh...Hey James,<br /><br />okay but sorry to be so persistent. What do you mean with quality filters? What I mean is the number of reads that went into a dge analysis. For example, I have a sample which was sequenced with 20 millions reads. After alignment about 11 million go into gene regions and are usable for DGE. So I use 11 mio for the analysis.<br />Is that what you mean with quality filtered reads?<br /><br />best<br />MathiasAnonymousnoreply@blogger.comtag:blogger.com,1999:blog-6334453475526523597.post-30298218742806352732015-01-29T13:31:36.762+00:002015-01-29T13:31:36.762+00:00We are using 10-20M single-end 50bp reads for mRNA...We are using 10-20M single-end 50bp reads for mRNA DGE, this is reads that have passed the quality filters.James@cancerhttps://www.blogger.com/profile/02825715598810395734noreply@blogger.comtag:blogger.com,1999:blog-6334453475526523597.post-12311376338068257592015-01-29T08:28:29.771+00:002015-01-29T08:28:29.771+00:00Hey,
that's a nice post. thanks for sharing y...Hey,<br /><br />that's a nice post. thanks for sharing your thought. I have a question regarding number of reads for gene expression analysis. Do you mean with 20 - 50M reads for differential gene expression the number of raw reads or reads that fell into gene regions?Anonymousnoreply@blogger.com