5 ms·

Oxford Nanopore (makes the sequencer used here) is one of my favorite companies. I think we'll see their work start to change how we do diagnostics in the next

by z991 6y ago

Oxford Nanopore (makes the sequencer used here) is one of my favorite companies. I think we'll see their work start to change how we do diagnostics in the next 5 years, especially with their automated library preparation product [1]. I was blown away how possible billion-base DNA sequencing is in non-lab environments when we bought one of these for fun [2]. [1] https://youtube.com/watch?v=x-z3MFkpvzE&t=1m20s https://youtube.com/watch?v=x-z3MFkpvzE&t=1m20s [2] https://abarry.org/dna-sequencing-in-our-extra-bedroom/ https://abarry.org/dna-sequencing-in-our-extra-bedroom/

vikramkr 6y ago
That's kind of epic that you managed to pull that off in a home setup. How exactly did you manage to run the gel and all? Did you buy a gelbox/agarose/dye etc too?
- ejstronge 6y ago
  ONT have a ‘rapid’ kit that doesn’t require standard DNA lab equipment. 1. https://store.nanoporetech.com/us/sample-prep/rapid-sequencing-kit.html https://store.nanoporetech.com/us/sample-prep/rapid-sequenci...
  - vikramkr 6y ago
    The linked article in the patent comment talks about running a gel to confirm extraction which is what I was referring to
    - z991 6y ago
      We used the rapid kit and also a gelbox / agarose.
      - vikramkr 6y ago
        Did you end up buying everything? I'd be curious to know how much it cost overall if you'd be willing to share. While most of my time has been in well stocked academic labs or shared startup lab space, I did spend some time working out of a bio hacker space and I'm always curious how cost efficiently people can wrangle together enough otherwise expensive kit to run an experiment in an odd setup. Did you end up with a lot of extra agarose etc or were you able to resell the leftovers and the used kit? Super cool stuff.
        z991 6y ago
        In total it was about $3k. So not cheap, but also not a real lab budget by any means.
    - ejstronge 6y ago
      Thanks! I skimmed but noticed that they used the rapid kit - sorry!
refurb 6y ago
Highly entertaining write up! Hats off to you for attempting it (successfully!).

by z991 6y ago

vikramkr 6y ago

That's kind of epic that you managed to pull that off in a home setup. How exactly did you manage to run the gel and all? Did you buy a gelbox/agarose/dye etc too?

ejstronge 6y ago
ONT have a ‘rapid’ kit that doesn’t require standard DNA lab equipment. 1. https://store.nanoporetech.com/us/sample-prep/rapid-sequencing-kit.html https://store.nanoporetech.com/us/sample-prep/rapid-sequenci...
- vikramkr 6y ago
  The linked article in the patent comment talks about running a gel to confirm extraction which is what I was referring to
  - z991 6y ago
    We used the rapid kit and also a gelbox / agarose.
    - vikramkr 6y ago
      Did you end up buying everything? I'd be curious to know how much it cost overall if you'd be willing to share. While most of my time has been in well stocked academic labs or shared startup lab space, I did spend some time working out of a bio hacker space and I'm always curious how cost efficiently people can wrangle together enough otherwise expensive kit to run an experiment in an odd setup. Did you end up with a lot of extra agarose etc or were you able to resell the leftovers and the used kit? Super cool stuff.
      - z991 6y ago
        In total it was about $3k. So not cheap, but also not a real lab budget by any means.
  - ejstronge 6y ago
    Thanks! I skimmed but noticed that they used the rapid kit - sorry!

refurb 6y ago

Highly entertaining write up! Hats off to you for attempting it (successfully!).