flobosg

53 ms·

991.
by flobosg 6y ago
The fantasy UI of Neon Genesis Evangelion[1,2] left a deep impression on me when I watched the original series for the first time. And, in my opinion, it has aged very well. [1]: https://imgur.com/a/PF3oA [2]: https:&
992.
by flobosg 6y ago
> "play random album from my collection" Quod Libet ( https://quodlibet.readthedocs.io/en/latest/ ) lets you do exactly that.
993.
by flobosg 6y ago
Unless that programmer is Rob Pike. (See the acme editor: https://upload.wikimedia.org/wikipedia/commons/9/98/Acme.png )
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by flobosg 6y ago
I just find a typo! I meant > even if I had not been academically successful Sorry about that.
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by flobosg 6y ago
Yes, of course one can do that and it’s probably the most reasonable strategy (as opposed to another postdoc, for example). But then, what was the point of the postdoc? I’d rather move earlier into industry. It’s ultimately a gamble.
996.
by flobosg 6y ago
I’m currently writing my dissertation and still debating whether to stay in academia or not. I mean, even if I had not been academically unsuccessful during grad school I will get a piece of paper saying "You have a PhD" in the en
997.
by flobosg 6y ago
> Didn't the challenge include predicting previously unseen/unsolved proteins? All protein sequences in the competition lacked a published solved structure, but they had enough effective (remotely) homologous sequences to predi
998.
by flobosg 6y ago
> it appears to have solved the inverse folding problem for many proteins While this is true, DeepFold’s algorithm is only applicable to extant proteins having enough evolutionary information, which is arguably a small fraction of the th
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by flobosg 6y ago
> They have the same sequence of amino acids as "correct" proteins and just an incorrect shape. Somatic mutations can trigger the misfolding as well.
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by flobosg 6y ago
> given we can predict what shape of protein an mRNA strand would produce For therapeutic proteins you usually work the other way around: You design the shape and try to get a sequence that folds as intended. In other words, the inverse
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by flobosg 6y ago
mRNA is not the only type of RNA that can be delivered. Another type could be interfering RNA targeting endogenous coding or non-coding RNA molecules.
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by flobosg 6y ago
I found a typo: "Statistic site generators" should be "Static site generators".
1003.
by flobosg 6y ago
This comment left me wondering: What's the astronomy equivalent of “in mice”?
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by flobosg 6y ago
> Should have been something like: [link_location] Markdown has a similar syntax using angle brackets, i.e., <link_location>. See https://daringfireball.net/projects/markdown/syntax#autolink .
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by flobosg 6y ago
Some of Mark Ferrari's palette-shifting scenes can be found at: http://www.effectgames.com/demos/worlds/ http://www.effectgames.com/demos/canvascycle/
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by flobosg 6y ago
Nice resource. While not strictly 2D, it brings to mind this GDC talk [1,2] from Arc System Works showing the lengths they went to achieve a high-res hand-drawn look while developing Guilty Gear Xrd. [1]: https://www.youtube.com&
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AlphaFold2 at CASP14: “It feels like one’s child has left home.”(moalquraishi.wordpress.com)
7 points by flobosg 6y ago|1 comments
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by flobosg 6y ago
https://en.wikipedia.org/wiki/List_of_oldest_companies
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by flobosg 6y ago
You raise very good points about the role of protein folding and quality control in disease. But folding by itself is essentially a physicochemical process. A protein will fold (or its mutant will misfold) within a cell just like it would d
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by flobosg 6y ago
Location: Bayreuth, Germany Remote: Yes Willing to relocate: Yes, preferably within Germany/Europe Technologies: Python, R, Bash, SQL, JavaScript, some C and MATLAB, bioinformatics, computational structural biology, protein modelling a
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by flobosg 6y ago
> Are they talking about creating an actual, physical protein in a lab and observing how it folds? Exactly. Researches purify the folded protein and then use methods such as X-ray crystallography, nuclear magnetic resonance, and cryo-ele
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by flobosg 6y ago
De novo design of protein logic gates: https://science.sciencemag.org/content/368/6486/78
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by flobosg 6y ago
> I'm wondering if an artificial process of evolution would be sufficient to satisfy the co-evolution assumption here. In principle yes, if you can generate a significant number of artificially evolved variants that are folded&#x2F
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by flobosg 6y ago
See https://news.ycombinator.com/item?id=25256318 and https://news.ycombinator.com/item?id=25256772
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by flobosg 6y ago
See also the news in Nature: https://www.nature.com/articles/d41586-020-03348-4
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by flobosg 6y ago
> Agree this is great to hear, but the fact that they had X-ray diffraction data indicates this protein was indeed crystallizable no? Yes. CASP uses as targets proteins with no known published structure but a solved or soon-to-be-solved
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by flobosg 6y ago
Oh, I see! Yes, an intrachain alignment of an artificial sequence does not by itself give any information about co-evolution, especially since you don't know whether your protein is actually folding. To assess co-evolution you need a m
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by flobosg 6y ago
> and the people working on the problem simply weren't looking at the problem in the way that the deepmind people were looking at it. >The approaches are that different. I'm not sure if that analogy applies here. DeepMind wa
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by flobosg 6y ago
> do MSA-based approaches also help understand "first-principles" folding physics any better? Not really. MSA-based approaches, as most structure prediction methods, have as a goal to find the lowest energy conformation of the
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by flobosg 6y ago
Sure! Here's a paper about the method: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4410700/ And another one about its application in structure prediction: https://www.ncbi.nlm.nih.gov/pm

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