natechols

"The Shockwave Runner" has aged vastly better than "Stand on Zanzibar", which I found unreadable. The first book predicts an early-21st century society full of smartphone users, ubiquitous privacy violations, and governments run by criminal gangs; the other is like if Paul Ehrlich wrote a sci-fi novel. I don't think "The Shockwave Runner" is as well written as any of the other cyberpunk classics, but as a guess at what 40-50 years in the authors future would look like, it's almost freakily realistic. (Although it feels like reading Neal Stephenson's "Anathem" at times - familiar tech described with alien words.)

The paper by Paul Adams used an earlier version of AlphaFold that was publicly available, not AlphaFold 3 which is not.

It's kind of amazing in retrospect that it was possible to (occasionally) produce very good predictions 20 years ago with at least an order of magnitude smaller training set. I'm very curious whether DeepMind has tried trimming the inputs back to an earlier cutoff point and re-training their models - assuming the same computing technologies were available, how well would their methods have worked a decade or two ago? Was there an inflection point somewhere?

I also worked with the same people (and share most of the same biases) and that paper is about as close to a ringing endorsement of AlphaFold as you'll get.

The DeepMind team was essentially forced to publish and release an earlier iteration of AlphaFold after the Rosetta team effectively duplicated their work and published a paper about it in Science. Meanwhile, the Rosetta team just published a similar work about co-folding ligands and proteins in Science a few weeks ago. These are hardly the only teams working in this space - I would expect progress to be very fast in the next few years.

This must be some kind of sharp generational divide, right? I'm over 40 and I can't think of anything that has made me feel as old as I do reading the "green message shame" discourse.

Seconded, and it touches on the key themes he developed later. I love how a throwaway plot element became a central part of an unrelated novel later, like he had more ideas than he had time to fully explain.

I think it's also one of the best descriptions of living at the onset of massive, disruptive technological changes, and how disorienting (and occasionally terrifying) this would feel. The fundamental problem with that book, for me, is that the main protagonist is (deliberately) an utterly loathsome individual, who somehow ends up as a good guy but doesn't seem to do very much learning or self-reflection.

> Not evil for the sake of evil, but rather reasoned decisions with terrible prices

The Emergents and their system are pretty clearly just evil, and there's never any indication given that they actually care about those terrible prices, or even reflect on them for long. Vinge is very good at channeling the Orwellian language that regimes like these use, but I didn't find his intent at all ambiguous.

The really compelling and ambiguous character in that book is [redacted spoiler], who really does grapple with the moral implications of his decisions, but ultimately chooses the not-evil path. Personally I think this also highlight's Vinge's biggest flaw as an author for me, which is that in all of his books, the most fully realized and believable protagonist is a scheming megalomaniac, with second place going to the abusive misanthrope of Rainbows End, and third to the prickly settlement leader in Marooned in Realtime. All of the more sympathetic characters feel like empty vessels that just react to the plot.

The goal of protein folding simulations like Folding@Home is not to predict 3D structures - it's to understand how folding actually works, and why it sometimes doesn't work. When FAH came out it was already very obvious that there were good computational shortcuts to predicting the end state (the Rosetta approach), but those don't tell you very much about the physical process. Different questions call for different approaches.

Don't forget, they also had to pass another remedial bill to add exemptions later!

7) Mitochondria (and chloroplasts) have double membranes, exactly like they would if they were smaller cells engulfed by the host cell.

8) There are multiple examples of ongoing endosymbiosis where the engulfed cell remains a true symbiont, not yet an organelle. Paramecium bursaria is my favorite - a ciliated protozoan with blue-green algae symbionts.

Bonus: there is evidence for secondary and tertiary endosymbiosis too.

If you haven't already read "The Ungoverned" I recommend it as well - although much shorter it's effectively the second part in a trilogy, bridging the two novels and featuring the same main character as "Marooned in Realtime".

I had to read the book a couple of times before I completely understood this, but I'm pretty sure there's an implicit metaphor that ties the two plots together, and it's about the feedback between technological progress and intelligence, and how physical constraints (or accidents of evolution) limit progress. The society of the Tines is constrained by their peculiar path to sentience - they can't split up pack members and they can't co-mingle packs without losing coherence. From their perspective, early 20th century electronics are the equivalent of neural prosthetics, and might as well be gifts from the Transcend.