tag:blogger.com,1999:blog-6334453475526523597.post6505490244297397233..comments2023-11-07T10:31:25.370+00:00Comments on CoreGenomics: Sequencing versus arraysJames@cancerhttp://www.blogger.com/profile/02825715598810395734noreply@blogger.comBlogger3125tag:blogger.com,1999:blog-6334453475526523597.post-88164086775222950252012-01-16T13:16:25.505+00:002012-01-16T13:16:25.505+00:00We're just about to order our first custom amp...We're just about to order our first custom amplicon project for the Miseq. We have included in our panel a couple of genes in which the predominant mutation is either a large deletion or duplication. What do you think are the chances of being able to make some analysis of CNV using the miseq and a few representative amplicons from both within and outside of the deleted/duplicated region. Is it worth a go?Josh Hershesonnoreply@blogger.comtag:blogger.com,1999:blog-6334453475526523597.post-24102634338617662702011-09-09T12:53:54.719+01:002011-09-09T12:53:54.719+01:00I am not usre and would have said 10M from data pu...I am not usre and would have said 10M from data published over a year ago by Manolis Dermitzakis whilst at Sanger.<br />However in 2011 Illumina published this whitepaper on their website http://bit.ly/o8M67y.<br />I'd have thought you'd already know about that article? Care to comment on what it says?James@cancerhttps://www.blogger.com/profile/02825715598810395734noreply@blogger.comtag:blogger.com,1999:blog-6334453475526523597.post-61496775607271259592011-09-08T21:09:53.048+01:002011-09-08T21:09:53.048+01:00Wow, do you really think 1-5M reads is enough for ...Wow, do you really think 1-5M reads is enough for diff exp? Are you talking 'standard' RNA-Seq, or some sort of tag-based approach? I'd generally recommend at least 10M (but I admit I don't have the data to back it up).Anonymoushttps://www.blogger.com/profile/08590569202982138251noreply@blogger.com