There was a cool visualization from data produced on nanopore on /r/dataisbeautiful recently [1]. It really shows the strengths of the device - ~50kb region with 3kb imperfect repeats. This would be impossible to align properly with [1]
https://www.reddit.com/r/dataisbeautiful/comments/7rpdr0/wev...
Nanopore MinION – $1k solid-state DNA sequencers
41–50 of 111 posts
Re: Nanopore MinION – $1k solid-state DNA sequencers
#42As some that works in this industry the most amazing thing is the original sequencing technology (Sanger) is still going strong and about as much Sanger sequencing is being done now as back in the early 00s [0].
Re: Nanopore MinION – $1k solid-state DNA sequencers
#43Can we ever imagine dna sequencing been done like a remoter sensor? E.g. automated sampling for e(environmental) dna,in-situ sequencing (single and multi species targeting), results transmitted back wirelessly. A biodiversity IoT system?
All the technology required already exists. You'd just need a compelling enough application.
> You'd just need a compelling enough application.
Pshhh, easy: Gattaca
kidding
Re: Nanopore MinION – $1k solid-state DNA sequencers
#44sequencing is only half the story, after this we'll have software to find out allergies or perfect diets, etc..
Re: Nanopore MinION – $1k solid-state DNA sequencers
#45Can we ever imagine dna sequencing been done like a remoter sensor? E.g. automated sampling for e(environmental) dna,in-situ sequencing (single and multi species targeting), results transmitted back wirelessly. A biodiversity IoT system?
All the technology required already exists. You'd just need a compelling enough application.
Fast mapping of epidemics outbreaks?
Re: Nanopore MinION – $1k solid-state DNA sequencers
#46There was a cool visualization from data produced on nanopore on /r/dataisbeautiful recently [1]. It really shows the strengths of the device - ~50kb region with 3kb imperfect repeats. This would be impossible to align properly with [1] https://www.reddit.com/r/dataisbeautiful/comments/7rpdr0/wev...
That’s great, but for a company that has raised on a valuation of >2BUSD how are they going to compete with Illumina.
The read lengths might be long, but the error rate is a couple of orders of magnitude higher. I can’t see a market large enough for highly error’d log reads to support their valuation.
Re: Nanopore MinION – $1k solid-state DNA sequencers
#47I remember looking into this device before, but as I recall it was intended for small bacterial genomes. A quick Google turns up that a paper using the device to sequence a human genome has only just been published [0] hence the update to the website. I'm not at all familiar with the technology, but doesn't the fact that experts have only just now been able to sequence human DNA mean it would be pretty unlikely the d…
A few years ago, the sequencing field was really excited for this platform as an alternative/competitor to Illumina. Unfortunately, the MinION platform has never been able to generate enough high-quality data for most eukaryotic sequencing use cases. The MinION still has it's niche... long read sequencing can resolve problematic regions of the genome, and the minION is the only option for rapid sequencing in the fiel…
> Their HiSeq X platform can put out a human genome right about $1k.
That's what Illumina will tell you. But that really depends what you mean by "a genome" and what you intend to use it for. Getting anywhere near the quality of the Human Genome Project is not possible.
Re: Nanopore MinION – $1k solid-state DNA sequencers
#48Earlier quoted context omitted.
$1,000 for the starter pack - what kind of use can you get out of that, and how much are the ongoing costs for the flowcells and anything else that needs to be replenished? Are you using it for fun? professionally? academically?
Flow cells are 1000$ each (unless you buy a lot of them), the sequencer is basically a USB dongle with a uC in it and all the important stuff is in the flow cell. Flow cells are basically disposable (but you mail them back). You get one-ish use out of a flow cell though they can be "washed" and realoaded. Reagent kits run a few hundred dollars depending on what your doing and you get several uses out of them. IIRC it…
NextSeq is expensive, but there are cheaper options (from 30k) and you can just send your samples to a sequencing service. I’ve seen costs for a whole human genome at high coverage of between 1 and 3000USD.
Re: Nanopore MinION – $1k solid-state DNA sequencers
#49Can we ever imagine dna sequencing been done like a remoter sensor? E.g. automated sampling for e(environmental) dna,in-situ sequencing (single and multi species targeting), results transmitted back wirelessly. A biodiversity IoT system?
https://vimeo.com/125796581 is a grand vision ONT have in the works
Re: Nanopore MinION – $1k solid-state DNA sequencers
#50I'm pretty sure we are now just a couple of marketing cycles away from a version of this being re-packaged and sold to police departments around the world as a tool for identifying suspects in a cloud database of DNA sequences belonging to People of Interest.
(You don't need a complete sequence for that, just enough unique markers to ID somebody.)
Goodbye "papers, please", hello "cheek swab, please".