tag:blogger.com,1999:blog-36768584.post4217575724268155063..comments2024-03-03T18:49:34.382-05:00Comments on Omics! Omics!: MinION and Time-to-ResultKeith Robisonhttp://www.blogger.com/profile/04765318239070312590noreply@blogger.comBlogger1125tag:blogger.com,1999:blog-36768584.post-43562033072692048852015-12-14T07:17:02.219-05:002015-12-14T07:17:02.219-05:00Nice summary.
On a side note, 500bp reads is a lo...Nice summary.<br /><br />On a side note, 500bp reads is a lot for aneuploidy screening. For cell free fetal DNA aneuploidy screening (non-invasive prenatal testing NIPT), the pure shotgun MPS approaches usually only use 36bp, as far as I know. That works nicely and I assume the companies offering this have optimized it to the most efficient "sweet spot". And of course, in the setting of cfDNA, fragments are only aroung 150bp anyway.<br /><br />cffDNA/NIPT might actually be an interesting field for nanopore sequencing.<br />30s for a 500bp fragment, lets say roughly 10s for a 150bp fragment of cfDNA. So for 5-10 Mio reads, you would need 50-100 Mio seconds per pore (poreseconds seems like a useful unit in nanopore sequencing....). So you know how many pores you need in order to be ready in a day, or an hour..... If you have an amplification free and rapid library prep, that might one day be very attractive.<br /><br />But anyway, you nicely pointed out the disadvantage of the current lineup of NGS sequencers. They get bigger and bigger and cost per base goes down with it, but they miss out on a lot of lower throuput needs. Nanopore sequencing might really be a leap forward, especially if sample/library prep will be so easy.Anonymousnoreply@blogger.com