koeng

12 ms·

31.
by koeng 1y ago
I am working on making ultra-low cost freeze-dried enzymes for synthetic biology. For example, 1 PCR reaction (a common reaction used to amplify DNA) costs about $1 each, and we're doing tons every day. Since it is $1, nobody really tr
32.
by koeng 1y ago
> Why are these capabilities so valuable to a large software company, when small software companies can do without them? This is leaving my area of expertise somewhat, but I’m pretty sure the main answer is large enterprise deals I think
33.
by koeng 1y ago
I've really appreciated the incremental builds with zig - I really like having a single static binary, and I have an application which uses a few different libraries like SQLite and luau and it compiles at nearly Go speeds. That said,
34.
by koeng 1y ago
Interesting. Any plans for a cache? Or would that just be a litestream thing
35.
by koeng 1y ago
Interesting! I really like your wasm compiled SQLite more than the pure Go one, so it is what I use most of the time. What exactly are you trying to port?
36.
by koeng 1y ago
Neat. I wonder what performance is like compared to normal desktop environments.
37.
by koeng 1y ago
Much better embedability and much easier to make it safely embedded. Doesn't require a wasm compilation, just can be in raw C, and that lua can directly integrate with host functions and vice versa - something even these wasm implement
38.
by koeng 1y ago
Very cool! I’ve been looking at using lua for something like this: basically, users will be able to program robots in my lab (biotech) to do things, and I need a scripting language I can easily embed and control the runtime of in the larger
39.
by koeng 1y ago
> I switched to zig from rust for implementing a database since 6 months and have no regrets but just don’t think anyone would use it for writing backend code or other similar smaller things. I've been thinking about starting a proj
40.
by koeng 1y ago
Yep, literally the first thing they say they are targeting, biological capabilities.
41.
by koeng 1y ago
Yes, that is precisely what I believe they ought to do. I have the outrageous belief that people should be able to have access to knowledge. Also, if you're in biology, you should know how ridiculous it is to equate the knowledge with
42.
by koeng 1y ago
I hate the direction that American AI is going, and the model card of OpenAI is especially bad. I am a synthetic biologist, and I use AI a lot for my work. And it constantly denies my questions RIGHT NOW. But of course OpenAI and Anthropic
43.
by koeng 1y ago
Im investigating creating a nattokinase overexpression strain for fun. This is my second home-brewed food GMO! Basically, nattokinase is an enzyme made by natto (Japanese fermented soybeans). It’s been show clinically to help against blood
44.
by koeng 1y ago
Are there any mini NAS with ECC ram nowadays? I recall that being my personal limiting factor
45.
by koeng 1y ago
They're kinda a built-in protein shop (got their own ribosomes) - but they're only for 1 thing, which is locally regulating the insertion of extremely hydrophobic proteins for respiration. You could imagine that this one applicati
46.
by koeng 1y ago
Check this out - https://sci-hub.ru/https://doi.org/10.1038/nature09486
47.
by koeng 1y ago
It's doable https://www.nature.com/articles/s41467-022-33530-3 100,000 x 6kbp == 600 million, or less than 1/5 of our genome. Difficult part is the barcoding bits, but that is not THAT hard.
48.
by koeng 1y ago
Fun fact: respiration is what really caused eukaryogenesis and the ability for multicellular life to occur. If archaea (what our nuclear genomes are derived from) weren't being kinda weird in the deep ocean, we would never have existed
49.
by koeng 1y ago
We are not able to modify human mitochondria other than with TALENs or ZFNs - CRISPR doesn't work (can't import the sgRNA). Even that doesn't work that well. We have not been able to genetically transform human mitochondria.
50.
by koeng 1y ago
Eukaryogenesis is a fascinating topic, and "motherboard" doesn't do it justice. For efficient respiration, you need to have the translation/transcription of certain ATP synthase genes near to the membrane for basically J
51.
by koeng 1y ago
1. Yeah, there are third party bundlers, but none of em worked too well for me. You are right: it should be separate 2. If I recall correctly, gen-target didn't hit it because I was using some very esoteric bullshit from the luajit int
52.
by koeng 1y ago
Apologies, sometimes I forget that I am on a computing forum. Backbone == plasmid backbone. greazy had a good explanation. I'm trying to clone synthetic DNA into plasmids, so all the junk that is necessary for replication and selection
53.
by koeng 1y ago
I really love teal! Here is a 10k loc project I have in it - https://github.com/Koeng101/libB/blob/dev/src/dnadesign/dnad... - Basically, I reimplemented all my synthetic biology bioinformatics
54.
by koeng 1y ago
I do high throughput cloning, so customers of mine want complete, verified genes. There is a shit ton of just stuff that can happen that you can't predict even in the most domesticated organism. Most recently, a transposon jumped fro
55.
by koeng 1y ago
It's fundamentally different than a computer and arguably more complete. The talk of "crawling along the genome" is kinda fundamentally wrong though and is a bit irking - CRISPR kinda just bumps around until it hits a PAM sit
56.
by koeng 2y ago
I'm a synthetic biologist! And I think a big problem is physically executing biology programs. I've been working on building a programming method for biology labs. Basically, it is a dynamic execution environment using lua that ca
57.
by koeng 2y ago
What are the disadvantages of using WITHOUT ROWID?
58.
by koeng 2y ago
I've been looking for something similar! Here is what I'd like to do: I have a long-running script. At several steps, the execution of the script has to pause for a long time for operations to be done in-real-life (biological expe
59.
by koeng 2y ago
Cell-free synthesis is really nice for R/D (it's fast!) but honestly kinda sucks for producing things. Cells have a really nice property of making more of themselves for the cost of basic chemicals (salt, sugar, nitrogen). TXTL al
60.
by koeng 2y ago
You don't even need DACs or ADCs, you just need an SRAM cell leaking current through an electrode. The process is entirely separate from that. By analog, I don't mean the signal, I mean the chip is interacting with the world physi

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