
Comparative Genomics #glioma; #aneuploidy #evolution š§āš» š§¬ | ā¤ļø š š„š§āš³ š· | @YaleMed | Views = own | ā¤ļø š ā endorsement.
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Breaking News: Patrick Stewart, who found acclaim as a Shakespearean actor before making a career pivot that would bring him his greatest fame, has died at 86. He achieved pop-culture stardom with major roles in āStar Trek: The Next Generationā and āX-Men.ā nyti.ms/4zc4Ka8
š especially for younglings @RayDalio
A big choice in life is accomplishment versus savoring life.
Savoring life is taking a moment to smell the roses, enjoying a beautiful day, and making sure you have time with the people you love. Then there's the other side, which is accomplishment and impact.
You have to discover for yourself where you are and how you deal with those choices. The key, and the most effective path, is where they alignāwhen you can make your work and your passion one and the same.
#RayDalio #LifePrinciples
Samir Amin retweeted
Postdoctoral scientist ready to lead your own lab? Applications for our #HannaGray Fellows Program ā aka āyour launchpad to a faculty career" ā open 11/3! Robust funding, a thriving scientific community, & so much more. Register now: bit.ly/4yFH10Z
Samir Amin retweeted
How does the mitotic spindle adapt to genomes that differ in size by more than 10,000-fold? Our new paper in @NatureCellBio reveals a simple scaling law and the physics behind it: chromosome crowding! š§µ
nature.com/articles/s41556-0ā¦
Samir Amin retweeted
I captured this video in my lab to show the power of medicines called T-cell engagers.
Left: T cells move in and out of a cancer tumoroid, largely ignoring it.
Right: Add a T-cell engager, and the T cells attack. Once they recognize their targets, they tear through the tumor.
Samir Amin retweeted
New analysis reveals that development is not a mere readout of a genetic program, but rather a dynamic process in which communities of cells build themselves, and the very landscape they navigate, by mutual negotiation and interaction, into an organism.
quantamagazine.org/how-does-ā¦
Samir Amin retweeted
I had fun chatting with Exa for their inclusion on the 3b1b talent page. It got me thinking about how a lot of the goals for better search end up aligning with goals of better credit assignment/attribution.
We sat down withĀ āØ@3blue1brownĀ to discuss our research vision of "Attention over all the world's information."
Plus why knowledge should not live in model weights, the compression trick behind cheaper retrieval, and why we hire through work trials.
1:20 ā What is āattention over everythingā?
4:46 ā A knowledge graph of the whole web
11:32 ā How do you evaluate search for AI agents?
15:13 ā Why not put everything in the weights?
22:55 ā Why Exa hires through work trials
25:15 ā The compression trick behind cheaper retrieval
27:40 ā Dealing with misinformation
Samir Amin retweeted
SAVE THE DATE! 10/20/26 Genetics Seminar Speaker Dr. Jonathan Pritchard, PhD, Stanford University, presents: "Trait Causal Models: Harnessing GWAS and perturbations to understand human biology."
Link below...
medicine.yale.edu/event/gensā¦
Samir Amin retweeted
Applications are now open for two new Anthropic Fellowships.
STEM Fellows (science and engineering) and Conceptual Reasoning Fellows (philosophy, cognitive science, economics, policy, and law) will spend four months at Anthropic from January 2027, working to help Claude reason well about some of the hardest problems in those fields.
For more information, see the descriptions below. The application deadline is October 28.
Conceptual Reasoning Fellows: job-boards.greenhouse.io/antā¦
STEM Fellows: job-boards.greenhouse.io/antā¦
Samir Amin retweeted
1/5 Telomerase has long been linked to chromosome maintenance in eukaryotes. Now, we show that telomerase-like activity is also present in bacteria, shedding new light on its ancient origins.
Excited to share that our work on DRT10 is now out in @Nature!
nature.com/articles/s41586-0ā¦
Samir Amin retweeted
Most important, we want to get this model into as many scientistsā hands as we can.
Today, weāre announcing that 10,000 scientists will get the highest usage tier access to Gemini 4 Argon in Google @antigravity free of charge for 6 months.
Apply here: forms.gle/WvmBbPvRbpKG1BPn9
Programming is still an essential skill, but how you do it needs to change, says Jacques Cornwell
go.nature.com/4zyLvYk
A few good pointers below from evolutionary biology side worth considering when it comes to AI containment and alignment. Some might argue this is a stretch but wish may also consider sheer force of evolution as long as three tenets are met 1/3
... variation, inheritance, and difference fitness. It's the variation or ability of agents to explore vast search space and to me, that alone is a powerful force, i.e., drift without much purpose and agents does not need to have any malintent to begin with. Of course, 2/3
...there is more to agentic AI vs evolutionary theory on whether agents are blind or not to outcome of interest, unit and level(s) of selection (agent vs swarm intelligence), etc (may write later as a blog than thread!). A relevant from @RichardSSutton teapawt.net/RichardSSutton/status/ā¦
A new and possibly controversial perspective:
In this video, I explain the sense in which generative AI trained by supervised learning is incapable of making novel discoveries.
youtu.be/K5LAFEjTlBA
The text of the speech:
AI Creativity and Discovery
Good day ladies and gentlemen. I regret that I am unable to be with you all today to engage in a back-and-forth discussion, but I am nevertheless pleased to be able to share with you, via this recording, some high-level thoughts about the current and future state of artificial intelligence, and in particular about AIās relationship to science and mathematics, which is, as I understand it, the central focus of this meeting and of the SAIR Foundation.
I would like to start with an old joke; I am sure you have heard it before. It is the one about the researcher whose work is being evaluated, and the review comes back, and says āThis work is both novel and good. Unfortunately, the parts that are good are not novel, and the parts that are novel are not good.ā
My first point about AI is that this assessment applies exactly to large parts of AI as we know it today. Not all of todayās AI, but a large part of it. Pretty much all of what we mean by āGenerative AIā---which includes large language models, and the images and video models, and even the new methods for learning world models. All of these AIs take large numbers of examples and produce a āmodelā which behaves similar to the examples, that is, which generates text like people, or images like artists or nature, and videos like we find on the internet. Donāt get me wrong, Generative AI can be extremely useful. No doubt about that. But the assessment of the joke still applies. These systems can produce output that is both novel and good, but not at the same time.
In many ways this is just absolutely not a problem. When we ask an AI for an answer from the internet, or to summarize a document, we donāt want it to be novel. We are happy if the quality of the answer, the goodness, comes from the source materialāfrom the people who wrote the document or the articles on the internet. If the AIās answer is novel it means it is going beyond the source material, adding something beyond it. This is what we call āhallucinationsā. In most cases, we donāt like it when the AI makes something up, when it adds something novel.
One exception, of course, is when we are looking not for facts or reality, but for fiction and entertainment. We might ask for a bedtime story for a child, or an image based on existing images on the internet but which is nevertheless different and distinct from them. In these cases, it is never easy for us to know how creative the AI is actually being, as we do not know how close the AIās story, poem, or image is to the source material. In a real practical sense we can not know this because the internet is too big, the possible sources that the AI may draw upon are too numerous.
When we ask for a fiction or novelty, the AI can give it to us because its processing is in part stochastic. Every decision can go multiple ways and will go different ways and produce a different trajectory every time. The trajectory can be randomāand thus novelāor it can be based on the training dataāand thus āgoodā because the training data is good, sourced from people or reality. Thus, the trajectory is either novel or goodābased on randomness or based on dataābut never both at the same time.
Really, I think it is okay if the output of Generative AI is never good and novel at the same time. For the researcher in the joke this is a devastating criticism, but for most things it is not, and for Generative AI it is not. Generative AI is meant to be a mimic. This is what supervised learning is for. Generative AI can be extremely useful, even when it just mimics, if it is faster, or cheaper, or smaller, or more customizable, or more copy-able, than the thing being mimicked. It is okay if Generative AI cannot be both novel and good at the same time. It is still a transformative technology.
But it is a limitation. And remember we are here to use AI for science and mathematics, and for these areas the assessment of the reviewer in the joke is devastating. For these areas we need true creativity and discovery. Generative AIāor Mimicking AIāwill never get where us there. For these we need something more, and indeed we have something more in other parts of AI. We have many AI systems which can give us more. We have AlphaGo with its world-changing move 37, or AlphaZero with its brilliant original chess-playing style. We have GT-Sophy that drives simulated racecars better than any human. We have AlphaFold and AlphaProof and Claude-Code, which have brought true advances in science, mathematics, and programming. We have RL-Lyft which optimizes the assignment of cars to passengers in the ride-hailing business. All these systems have found things that are both novel and good. And, truth be told, some language models have been augmented in ways that make them more than Generative AI based on supervised learning.
All these systems have some additional features that make them capable of true creativity and true discovery. It is important for us to recognize what this isāand that it is not present in ordinary, garden-variety Generative AI. It is something that can not come from just supervised learning, from learning from examples. What is it? Well, it is a simple thing, a commonsense thing. It is not new. We have many names for it, but unfortunately none of them are very good names. I will call it Discovery. Basically, Discovery is just the idea of trying many things and seeing which of them work, then keeping those that worked the best. Evolution by natural selection works this way. The scientific method works this way. And just ordinary life and learning works this way. We try things and remember what works. What could be more obvious? In this behavioral case, psychology has two names for itā āinstrumental learningā and āoperant conditioningāāand in machine learning it is what we mean by āreinforcement learningā. We also see the idea of Discovery in planning and combinatorial searchāanything that involves the idea of āgenerate and testā.
The essence of Discovery is to combine three steps:
1. Variation,
2. Evaluation, and
3. Selective retention.
Of course, I am not the first to say this. I am not the first to point out that this combination of steps is key to science, to evolution by natural selection, and to animal behavior. I think particularly of papers by Donald Campbell, by Daniel Dennett, and by Gary Cziko. What is new in my remarks is to directly relate the idea of Discovery to modern AI to help us see that it is not present in supervised learning or Generative AIāin particular, that Discovery is not present in backpropagation or gradient descent.
Let me say explicitly what is missing from Generative AI. As we have remarked, these systems do have a stochastic aspect, so they do generate a variety of trajectories and behavior. What is missing is the Evaluation step. The generator was pre-trained by supervised learning, leaving no way at runtime to Evaluate what it generates. And of course without Evaluation there can be no Selective retention, and thus no Discovery. The variation can bring novelty, but without evaluation there is no Discovery, and arguably, no creativity. That is, I would say that creativity requires that the new things generated be Evaluated. Without evaluation, and retention of the best, there is nothing created. The novelty flickers into existence but, if its value is unrecognized, it flickers away and is lost.
In many cases, Evaluation is done by people to make a discovery. As when we have Generative AI make many pictures for us, and then we pick the one that we like the best. The human+AI system completes the discovery.
In many other cases, the Evaluation comes from a clear objective. Some moves lead to checkmate, some steps lead to a proof, some actions result in high reward, some genotypes make more copies, some theories explain the data better.
Some prefer the Variation step to be called Blind variation, where āblindā here means that it is uninformed, a shot in the dark. It does not need to be completely uninformed; a good scientist does not select theories to test at random. But neither can it be completely informed and determined. There must be some uncertainty about where the answer lies in order for there to be a discovery. In practice, the variation is partly informed and partly blind, but it is the blind part that corresponds to the discovery.
Now let us briefly go all the way to modern deep learning, to the backpropagation algorithm. At first it might seem that backpropagation is incapable of discovery because it is deterministic and thus incapable of variation. But this is not correct. The weight updates of backprop are deterministic, but the weights are initialized to small random values. The random initialization is often downplayed, but in fact it is a necessary form of variation; it must be done properly to get good performance. In backprop this Variation is done once, at network initialization, so its effect is temporary, and later the network may lose its ability to learn. This is the weakness of deep learning that is alleviated with a new algorithm that my group presented in Nature a couple of years ago. Our ācontinual backpropagationā made one small change: every so often a less-used neuron would be re-initialized to small random weights. This allows the variation to continue and plasticity to be retained.
Although there is much more to be said about Creativity and Discovery, this is the key point: they are more than supervised learning, more than pattern recognition, more than prediction, and more than world modeling. Those things are important, but they alone will not bring us to discovery. Discovery requires Evaluation from a person or from an explicit goal, and only in the latter case will we attain full autonomy.
So that is my call to arms. If we want the full power of AI scientists, then we should share the goals with them so they can create, evaluate, discover, and in these ways fully participate in achieving the goals. Letās be bold! Letās fully automate Creativity and Discovery!
Samir Amin retweeted
Sex difference in response to antibody drug conjugate immunotherapy is due to neutrophils !!
Yes...estrogen activates STING makes NETs, NETS block access...
cell.com/cell/abstract/S0092ā¦
Samir Amin retweeted
Today we're officially launching the redesigned @mathoncoblog site. Our goal is to increase scientific discussion on the blog. Anyone can create an account, login, and submit posts or leave a comment. If youāre interested in contributing, please follow this link to create a profile:
mathematical-oncology.org/siā¦
During the sign-up process, you will be asked if youād like to claim an existing profile (pending editorial approval).





















