this post was submitted on 29 Jul 2026
70 points (100.0% liked)

Technology

43303 readers
260 users here now

A nice place to discuss rumors, happenings, innovations, and challenges in the technology sphere. We also welcome discussions on the intersections of technology and society. If it’s technological news or discussion of technology, it probably belongs here.

Remember the overriding ethos on Beehaw: Be(e) Nice. Each user you encounter here is a person, and should be treated with kindness (even if they’re wrong, or use a Linux distro you don’t like). Personal attacks will not be tolerated.

Subcommunities on Beehaw:


This community's icon was made by Aaron Schneider, under the CC-BY-NC-SA 4.0 license.

founded 4 years ago
MODERATORS
 

The award-winning team behind Google DeepMind's AlphaFold program is no more, according to Financial Times. Google has reassigned most of the team's key members and the original authors of its papers, while a few others have already left the company. AlphaFold is an AI program that can accurately predict three-dimensional structures of proteins from their amino acid sequences in minutes instead of years. It's now being used to accelerate drug discovery, develop vaccines and understand the structural changes in proteins associated with neurodegenerative diseases like Alzheimer's and Parkinson's.

DeepMind started developing AlphaFold in 2018. In 2020, it was recognized as a solution to humanity's 50-year-old "protein folding problem," which sought to answer how amino acids automatically fold into complex 3D shapes. Those shapes determine the biological role of a protein. Scientists had identified the structures of roughly 170,000 proteins over the past 50 years, using tools and techniques like X-ray and nuclear magnetic resonance. The AlphaFold team took information from those previous work and then fed it to their AI to train AlphaFold.

In 2021, Nature published the papers with AlphaFold's methodology and the structure predictions of the entire human proteome, or the complete set of proteins expressed by our species. DeepMind then launched the AlphaFold Protein Structure Database, giving researchers free access to over 200 million protein structure predictions. In 2024, DeepMind CEO Demis Hassabis and John Jumper, who was a staff research scientist when the project began and who eventually became a VP and engineering fellow, won the Nobel Prize in Chemistry for their work on AlphaFold.

Keep the slop, kill the science. Got it.

top 5 comments
sorted by: hot top controversial new old
[–] supersquirrel@sopuli.xyz 9 points 4 hours ago

Wow AI! Such transformation! Such innovation!

[–] Sibbo@sopuli.xyz 6 points 3 hours ago (3 children)

Keep the slop, kill the science. Got it.

Arguably, approaches to optimisation problems such as AlphaFold are inherently biased and not really suited for real science. While other approaches take longer, their biases can at least be described. It doesn't help if AlphaFold is super fast, but then you don't really know if you can trust it's output. It's just like ChatGPT which is often correct, but that doesn't help if you never know when it is correct. However, with protein folding at least you can compare solutions and easily see which is better, because computing the potential energy of an existing solution is relatively simple. The hard part is to find a good solution.

Anyways, AlphaFold surely has its uses, and surely works well for proteins that fold in some sort of "standard" way, similar to the proteins in the training data set.

[–] Midnitte@beehaw.org 1 points 14 minutes ago

Mind you, theyre killing it in favor of an LLM, which is arguably further biased (you know, the giant "predict the most likely next work" algorithm, which doesn't predict anything new).

[–] Zaktor@sopuli.xyz 7 points 1 hour ago

This is like saying computational biology is not suited for real science, as AlphaFold beat existing docking search algorithms on accuracy. Neither means you just get an answer spit out and your science is done, but it doesn't mean they're not productive tools in the process.

And all of these predictive methods, ML and not, are biased to existing data, because that's all the information we have to guide their development and gauge their success.

[–] fta@lemmy.zip 13 points 3 hours ago* (last edited 3 hours ago)

Arguably. Maybe.

My understanding is the predictions of alpha fold are always verified with the slower, more accurate process - if the predictions from alpha fold showed something promising.

Its main use was to help identify directions to further investigate. Not to blindly take the protein structure it predicted.

So there might be initial bias in terms of the how possibilities are narrowed, but you can certainly use it to do real science.