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New antibiotic targets IBD and AI predicted how it would work

healthsci.mcmaster.ca

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Re: New antibiotic targets IBD and AI predicted how it would work

#81

Post by esafak »

fmbb wrote: post #37
KLK2019 wrote: post #2

Here is the original study published in nature microbiology. https://www.nature.com/articles/s41564-025-02142-0 Wanted to share what I thought the interesting parts. From the university press release. "To date, AI has been leveraged as a tool for predicting which molecules might have therapeutic potential, but this study used it to describe what researchers call “mechanism of action” (MOA) — or how drugs attack disea…

Is DiffDock a large language model? Because that is what the general public believes AI means, and Open AI say they are building thinking machines with it, and this headline says ”predicted”.

It's a 3D equivariant graph neural network; a class of models that was hot before LLMs stole the limelight. https://en.wikipedia.org/wiki/Graph_neural_network

Re: New antibiotic targets IBD and AI predicted how it would work

#82

Post by overfeed »

bongodongobob wrote: post #73
jancsika wrote: post #65

Earlier quoted context omitted.

The Reverse Gell-Mann Amnesia Effect-- one vastly underestimates the work it took to reach a conclusion in a book they haven't finished reading. Then, without reading another page, they assume everything in the entire bookshelf is at the same shallow level as their own misapprehension of the book they didn't finish. I rankly speculate: for the set of low-effort comments on HN, there are more Reverse Gell-Manns than t…

There are 1000s of state and community colleges. Not everyone is doing groundbreaking research. Some places, they just teach, which is fine. Additionally, I have no idea what you're trying to say.

There are experts at every single state and community college, with PhDs being thr typical floor.

> Not everyone is doing groundbreaking research.

They don't need to be, they only need to be able to understand recent, groundbreaking papers in their fields, and be able to bounce ideas with colleagues in different disciplines who walk up to them.

Insinuating that faculty staff are either on the bleeding edge or useless is a false dichotomy.

Re: New antibiotic targets IBD and AI predicted how it would work

#83

Post by rdedev »

raincom wrote: post #74
FollowingTheDao wrote: post #60

Earlier quoted context omitted.

What???? We knew that LolCDE was a vulnerability to e coli since well before 2016 and knew inhibitors of the complex, globomycin being one of them, which they knew about since 1978 https://journals.asm.org/doi/full/10.1128/jb.00502-16 https://pubmed.ncbi.nlm.nih.gov/353012/ Is enterololin just another from of globomycin? Is AI smart or are scientists just getting dumber?

AI just picked up these references and gave an answer. Scientists in this field should have read these papers instead of relying on AI.

From what I understand they used a diffusion model (diffdock) to predict the mechanism. These types of models are not LLMs that need to be trained on text

Re: New antibiotic targets IBD and AI predicted how it would work

#84

Post by D-Coder »

raincom wrote: post #74
FollowingTheDao wrote: post #60

Earlier quoted context omitted.

What???? We knew that LolCDE was a vulnerability to e coli since well before 2016 and knew inhibitors of the complex, globomycin being one of them, which they knew about since 1978 https://journals.asm.org/doi/full/10.1128/jb.00502-16 https://pubmed.ncbi.nlm.nih.gov/353012/ Is enterololin just another from of globomycin? Is AI smart or are scientists just getting dumber?

AI just picked up these references and gave an answer. Scientists in this field should have read these papers instead of relying on AI.

There are probably 37,392 papers on this. So your "should" is probably just impossible for humans.

Re: New antibiotic targets IBD and AI predicted how it would work

#85

Post by m_fayer »

nick__m wrote: post #69
smeej wrote: post #56

Earlier quoted context omitted.

My favorite is the "bless your heart" head tilt that strongly implies you're just too damn stupid to follow what they're saying, when it's obvious on its face that they're contradicting themselves. "I was correctly diagnosed with it before." "Correct." "I do not have it now." "Correct." "It is not 'in remission.' I just do not have the disease." "Correect." "But it isn't curable." "Correct." "So if it wasn't 'cured,'…

My trick is to learn the terminology/jargon of the specialists by buying meds students used textbooks. It completely changes the conversation dynamics even if initially it appears to slightly confuse them. Sometimes it angers them but then it's a clear signal that you must see someone else ASAP. When we grilled my wife first oncologist on his protocol, he broke down and said that he was not up to date on the latest r…

I actually tried this once and it quickly led to hostility. Thanks for your insight and I’m happy your wife is doing well, take care.

Re: New antibiotic targets IBD and AI predicted how it would work

#86

Post by FollowingTheDao »

D-Coder wrote: post #84
raincom wrote: post #74

Earlier quoted context omitted.

AI just picked up these references and gave an answer. Scientists in this field should have read these papers instead of relying on AI.

There are probably 37,392 papers on this. So your "should" is probably just impossible for humans.

This is such a ridiculous argument. They could have read five papers, couldn’t they?

Re: New antibiotic targets IBD and AI predicted how it would work

#88

Post by yosito »

teiferer wrote: post #31

> Currently, we can’t just assume that these AI models are totally right, Why could we ever assume that? > but the notion that it could be right took the guesswork out of our next steps, Devils advocate here. Couldn't this just be a severe case of confirmation bias? You take 100 such cases, ask AI "how does it work?" and in 99 of those, the answer is somewhere on the spectrum between "total nonsense" and "clever form…

> You take 100 such cases, ask AI "how does it work?" and in 99 of those, the answer is somewhere on the spectrum between "total nonsense" and "clever formulation but wrong". One turns out to be right.

They're still using the scientific method, the only thing they're getting from AI is hypotheses to test. And AI is great at brainstorming plausible hypotheses.

Re: New antibiotic targets IBD and AI predicted how it would work

#89

Post by klustregrif »

FollowingTheDao wrote: post #86
D-Coder wrote: post #84

Earlier quoted context omitted.

There are probably 37,392 papers on this. So your "should" is probably just impossible for humans.

This is such a ridiculous argument. They could have read five papers, couldn’t they?

Picking up five needles is trivial. Picking up five needles in 50000 haystacks is difficult.

Re: New antibiotic targets IBD and AI predicted how it would work

#90

Post by dang »

FollowingTheDao wrote: post #80
rubyfan wrote: post #40

Earlier quoted context omitted.

Or it was never there to begin with.

[flagged]

Would you please stop posting in the flamewar style and breaking the site guidelines? Your account has been doing a great deal of this, and we've already had to warn you many times:

https://news.ycombinator.com/item?id=35173447 (March 2023)

https://news.ycombinator.com/item?id=33870602 (Dec 2022)

https://news.ycombinator.com/item?id=33568920 (Nov 2022)

https://news.ycombinator.com/item?id=31632010 (June 2022)

https://news.ycombinator.com/item?id=31239687 (May 2022)

https://news.ycombinator.com/item?id=30570715 (March 2022)

If you keep this up we will end up banning your account, so it would be good to review https://news.ycombinator.com/newsguidelines.html and stick the rules from now on.

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