koeng

18 ms·

151.
by koeng 3y ago
One thing that I've been doing lately is creating a "synbiogpt", and from it, have come to realize the limitations of the custom GPTs. - Biological sequence data is usually quite long. This is fine if the biological data is i
152.
by koeng 3y ago
I build synthetic DNA. In the beginning (and still) I do a ton of steps by hand that I’ve slowly been moving to robots. Hours and hours at a bench picking colonies, designing sequences by-hand for customers instead of using software, writin
153.
by koeng 3y ago
You don't even need genetic testing to see holes in that hypothesis (though there is no proof of a parasitic relationship genetically) - it is pretty easy to see phylogenetically the evolution of metamorphosis. Ie, hemimetabolous insec
154.
by koeng 4y ago
My favorite quote I saw or heard somewhere on the rogue genetic elements in us all: “We are but a raft of genes in an ocean of retrotransposons” A little hyperbolic, but dang there are a lot
155.
by koeng 4y ago
Love it. I put in a function that was written in poly (a synthetic biology library in Golang): https://whatdoesthiscodedo.com/g/40c3316 It was able to figure out the sequences referred to are DNA sequences from context
156.
by koeng 4y ago
What about the SRA or Genbank? Those are pretty readily collected DNA databases. You can get curation from uniprot or embl or pdb or kegg or rhea.
157.
by koeng 4y ago
ApE is one of those tools that is so old-school but just works. I used to hate using it but it's really grown on me - Snapgene is just too darn expensive and benchling isn't very power user friendly
158.
by koeng 4y ago
Teal is great for this - statically typed and compiles down to lua. I’ve even integrated it into other languages because teal is written in teal (compiling down to lua, which can be run on lots of different devices!) https://gith
159.
by koeng 4y ago
Does this enable Mac mini dual screen on Linux? Really been looking for that before switching!
160.
by koeng 4y ago
> McClelland found that people who possessed this combination of traits were most likely to obtain senior leadership positions, ultimately outpacing those who merely had a high need for achievement. [14] This seems almost like a tautolo
161.
by koeng 4y ago
Kind of an uncharitable quote, considering I have essays and presentations going back 8 years (and more recently) where I question potential harmfulness to the environment. I also previously worked for 3yr at a nonprofit specifically aimed
162.
by koeng 4y ago
How about “oligo pool synthesis chips” != “dna synthesis machines” “Harmful” can also be seen the other way. From my view within the industry, it is harmful that the tech does not exist, and the idea of harmfulness is, largely, propaganda p
163.
by koeng 4y ago
If we had really smart software engineers, well paid red-teams, and robust government policy collaboration with industry, I think we can make it at least 95% harder to create something dangerous. We have none of those, though. It's sup
164.
by koeng 4y ago
> Will the output of your product add a suicide timer to a cell? Absolutely not. > Will the output of your product prevent the cells from procreating/multiplying? Absolutely not. > Will the output of your product prevent patho
165.
by koeng 4y ago
~10yr of synthetic bio, did 4yr of mitochondrial engineering + directed evolution at UCI, then ran the FreeGenes Project for 3yr at Stanford. Chisel for programming it (great little lang/project) https://www.amazon.com/
166.
by koeng 4y ago
You can't jump over fitness troughs. For example, full tRNA recoding. Plus, it is neat to make life from chemicals.
167.
by koeng 4y ago
It is more like the X Y Z W. However, the X Y Z W bits I am working on as well ( https://github.com/TimothyStiles/poly , https://github.com/TimothyStiles/allbase , trilo.bio, freegenes.org). Going
168.
by koeng 4y ago
They did. This runs genscript's high throughput DNA synthesis platform. They actively sell the result as their oligo pool product.
169.
by koeng 4y ago
As a software engineer, verily and the like just didn't make as much sense to me as chisel. Got this book and have been very slowly working through it - https://www.amazon.com/Digital-Design-Chisel-Martin-Schoeber... E
170.
by koeng 4y ago
Github here - https://github.com/koeng101/dnachips It is a bit dead when it comes to a git, since I am trying to get the first machine needed, which is a DNA synthesizer (asked about that here https://groups
171.
by koeng 4y ago
I'm planning on using the chip ignite program! They can build the chip I need - the harder bit is figuring out the coatings needed (sputter coating post-processing is needed to be compatible with the chemistry). I am pretty new to chip
172.
by koeng 4y ago
I’ve spoken to the CEO of Ansa bio about this topic and they aren’t focused on lowering prices, but increasing what can be built. I would like to know what specifically you think I am wrong about, though. Always happy to improve my thinking
173.
by koeng 4y ago
A little while ago, a patent for high throughput DNA synthesis using silicon chips went off-patent, so I have been learning analog IC chip design to build an open source high-throughput DNA synthesis chip. If it works, and I sold them at co
174.
by koeng 4y ago
“A Genetic Switch” is one of the best books in my field. The entire book is about a single genetic switch in a bacterial virus, starting off high level before going down into the nitty gritty, all for this single switch. Highly recommend fo
175.
by koeng 4y ago
This is one reason I really like lua - it is a simple enough language that it can stand the test of time, while being easy enough to learn by anyone, and still being stupid fast with luajit. A great little language, especially when combined
176.
by koeng 4y ago
You get paid for graduate school. Not much, but still get something.
177.
by koeng 4y ago
How would something like this work with litestream? I imagine that the WAL file gets written the same way, but would recovering the database allow for mojo to continue working?
178.
by koeng 4y ago
How did you get into this space? I previously would imagine that most EV companies or folks building out their own chargers would have this type of thing figured out, and so I'm probably wrong! Would like to hear more about that.
179.
by koeng 4y ago
Been building in this space for a while - built this with a friend of mine - https://github.com/timothystiles/poly Most of the python packages are honestly... kind of terrible to maintain. Sure, it is easy to whip up a
180.
by koeng 4y ago
The answer is actually nuanced. "From the ChipIgnite program you can get bare die; from the Open MPW program, you can't. If you submit something on a ChipIgnite shuttle run, then the pads will be exposed, along with any other pl

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