Re: [DIYbio] Ultra-Cheap DNA Printing/Sequencing

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It's not important whether it's competitive with mass-market reagents,
only that it *can* be done.

For example, many programming languages can be "self-hosted" by
compiling their own compiler using a bootstrapping midway compiler. So,
bootstrap compiler is written in C, and is then used to compile the
language's own compiler from native source. Golang is like this.

But almost nobody does this; it's only important that it can be done if
necessary.

Likewise if the foundation of your revolution in synbio is utterly
dependent on one of a handful of chip-fabs around the world to make for
you, then I don't see it as complete. But once you've got a fallback
that you can always rely on if necessary, you continue to use the
cheapest, fastest, most efficient method.

TL;DR: I buy my agarose, but I'm glad I figured out how to make my own
if I'm ever stuck on an island with a desperate need for molecular
biology (oh wait, I am! One without ready access to reagents, then).

On 22/02/14 01:16, Nathan McCorkle wrote:
> With raman detection and sufficiently dilute dNTPS, you could
> potentially use terminal transferase. Sourcing the dNTPs would be akin
> to the recent thread on purifying the triphosphates... I remember you
> comparing that to cleaning up agar into agarose at home, and how it
> wouldn't really be efficient!
>
> On Fri, Feb 21, 2014 at 5:10 PM, Cathal Garvey
> <cathalgarvey@cathalgarvey.me> wrote:
>> Hm, I happen to know a Raman expert! :)
>> For me though, while better chemical methods and nanotechnology stuff is
>> great, I'm a sucker for "self-bootstrapping systems". That's part of
>> what makes biology awesome, after all.
>>
>> So, I won't be happy until we have a biological DNA synthesis reaction
>> or system that can be home-brewed in its entirity! Everything until then
>> is a stopgap!
>>
>> On 22/02/14 00:54, Nathan McCorkle wrote:
>>> you don't need some new kind of laser to do that though, you just need
>>> the right optical know-how and a decent detector setup. Read the
>>> patents by Helicos and you'll find plenty of similar setups in
>>> academic literature:
>>> https://groups.google.com/forum/#!topic/diybio/Ke7BqPUD46A
>>>
>>> You can label-free detection by moving to a Raman setup.
>>>
>>> On Fri, Feb 21, 2014 at 4:37 PM, Cathal Garvey
>>> <cathalgarvey@cathalgarvey.me> wrote:
>>>> Well, Sung (@bookhling) can do nano-lasers. I recall he did bio-nanodots
>>>> and got them to lase. Crazyballs.
>>>>
>>>> On 22/02/14 00:32, John Griessen wrote:
>>>>> On 02/21/2014 01:40 PM, L wrote:
>>>>>> The resulting oglios would then be preferentially selected by
>>>>>> sequencing all and destroying the ones that don't match the desired
>>>>>> sequence.
>>>>>>
>>>>>> So basically, yes.
>>>>>
>>>>> But, nanofabbing of nano-lasers, or even lenses that can aim at a nano
>>>>> speck of anything?
>>>>> Not in my bag of tricks...
>>>>>
>>>>> Cathal Garvey wrote:
>>>>>> An alternative reaction without chain-branching, which can be recovered
>>>>>> as pure DNA using PCR, would be great.
>>>>>
>>>>> But, following a published method like,
>>>>>
>>>>> "I've seen at least one paper on this but lost it, and forgot the
>>>>> keywords! - It used a DNA analogue
>>>>> for the synthesis step, which was compatible enough with DNA Polymerases
>>>>> that it could be PCR'd into real DNA afterwards."
>>>>>
>>>>> seems less imaginary. Thermo-cyclers we can do. Nano-lasers NOT (yet...)
>>>>>
>>>>
>>>> --
>>>> Please help support my crowdfunding campaign, IndieBB: Currently at
>>>> 26.2% of funding goal, with 20 days left:
>>>> http://igg.me/at/yourfirstgmo/x/4252296
>>>> T: @onetruecathal, @IndieBBDNA
>>>> P: +3538763663185
>>>> W: http://indiebiotech.com
>>>
>>>
>>>
>>
>> --
>> Please help support my crowdfunding campaign, IndieBB: Currently at
>> 26.4% of funding goal, with 20 days left:
>> http://igg.me/at/yourfirstgmo/x/4252296
>> T: @onetruecathal, @IndieBBDNA
>> P: +3538763663185
>> W: http://indiebiotech.com
>
>
>

--
Please help support my crowdfunding campaign, IndieBB: Currently at
26.4% of funding goal, with 20 days left:
http://igg.me/at/yourfirstgmo/x/4252296
T: @onetruecathal, @IndieBBDNA
P: +3538763663185
W: http://indiebiotech.com