Comparative Genomics #glioma; #aneuploidy #evolution 🧑‍💻 🧬 | ❤️ 😋 🥘🧑‍🍳 📷 | @YaleMed | Views = own | ❤️ 🔄 ≠ endorsement.

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Joined January 2007
Samir Amin retweeted
Atrophy is a choice. Machines play chess better than we do, but we still play and reap many benefits from it. Let AI perform tasks, but never stop challenging your mind, or yourself.
We created gyms because modern day work no longer required physical activity. Without exercise, our muscles atrophy. I predict we’ll need gyms for our brains too, once AI starts doing our knowledge work.
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Samir Amin retweeted
$1.8 billion committed for predictive models of AI biology @biohub @GoogleDeepMind, @ENERGY , @NIH, @Meta @IsomorphicLabs all came together reuters.com/business/healthc…
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Samir Amin retweeted
There are people who leave a mark on the world, and then there are people who change it entirely. Steve changed the world and so many lives in the process. He certainly changed my life forever. His spirit lives on in everything he created and everyone he inspired.
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Three generation of Bohr's in one frame✍️ Niels Bohr (left) – along with his son Aage Bohr (center) – and his grandson Tomas Bohr (bottom) – currently Professor of Physics at the Technical University of Denmark (DTU).
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The Jackson Laboratory is a wonderful, collaborative place to pursue basic & translational science. On the faculty job market? I strongly encourage you to consider joining us in Bar Harbor, Maine! Apply: go.jax.org/276n55 #JAXresearch #JAXstemcellsdev
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Samir Amin retweeted
A few thoughts on this: 1) If you’ve only seen clips of this interview, I’d encourage you to watch the full podcast. I push back on plenty of AI hype in it. 2) As I said in the podcast, this example is academic. My intention was to illustrate how hard it is to make absolute guarantees about isolation, which is why it's important to have layers of defense. The part before the clip starts is me talking about other layers of defense. 3) The example I'm bringing up isn't about weight exfiltration via temperature sensors, it's about coordination between agents that are supposed to be fully isolated and independent. Coordination can require very few bits of information. 4) One lesson from the HF incident is that we put too much trust in sandbox isolation and didn't have enough independent safeguards. Airgapping is an extremely strong safeguard. When designing safety protocols, I think it's much better to overestimate rather than underestimate.
OpenAI's Noam Brown says air-gapping the computers may not stop a misaligned AI, because two air-gapped machines can still talk by running a CPU hot and reading the temperature change "But I think the major takeaway from the incident is that people underestimated the AI. And we never want to be in a situation again where we underestimate the AI. It's a weird world, because AI progress is so fast that people are consistently underestimating the AI." "So to be in a situation where you don't underestimate it again, when it comes to safety and alignment, you have to have a very, very, very high bar." "You could even go as far as to say, "Well, we should air gap the computers." And I'm not convinced that that would be sufficient." "There are studies, and this is mostly academic, where you can have two computers next to each other that are air-gapped and they're still able to communicate with each other because they have temperature sensors." "One of them is able to run their CPU really hot, and then the other one can actually detect the temperature change, and then that actually gives them a mechanism to communicate." _________ Link and more key quotes from OpenAI's safety related conversations: firesidealpha.substack.com/p…
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Samir Amin retweeted
What can we learn about a single rare variant? Published today in Science: the @23andMeResearch Institute and Dana-Farber studied the EGFR T790M in 11M 23andMe research participants. The variant has OR = 25.2 for lung cancer, rising to 61.7 in never-smokers(!). 🧵
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Samir Amin retweeted
Ever wonder how heterogeneity defines bladder cancer subtypes? Ha and Hsieh Lab postdoctoral fellows @pushpa_itagi and Samantha Schuster @fredhutch did, leading to a deep study of bladder cancer clonality, evolution, and heterogeneity published @Nature nature.com/articles/s41586-0…
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How did we come to understand cancer in the light of evolutionary theory? Nothing makes sense if not with population genetics! In our latest @NatureRevCancer review we unpack how population genetics theory applied to somatic cells allows us to measure and predict cancer evolution from molecular data. Computational modelling in oncology has gone a long way but we need to go much further. The frontier is combining evolutionary theory with machine learning. Link below👇
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Terence Tao spent a year at the Institute for Advanced Study - no teaching, no random events of committees, just unlimited time to think. But after a few months, he ran out of ideas. Terence thinks that mathematicians and scientists need a certain level of randomness and inefficiency to come up with new ideas.
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We’re launching AlphaGenome Atlas: an AI-powered searchable database mapping the predicted impact of all 9 billion possible single-letter DNA changes. Here’s how it could help researchers better understand our biology 🧵
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Most of the produce aisle exists thanks to genome duplication events. quantamagazine.org/genome-du…
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Today, a special report from @statnews: The inside story of Moderna $MRNA and Merck's $MRK cancer "vaccine" triumph: This is the story of a biotech relay race in which Moderna, one of the most well-funded startups in the industry’s history, found that what it thought was one of its riskiest projects turned out to be perhaps its biggest shot at success. It is the story of how Merck, one of the most storied large pharmaceutical companies, was pulled along for the ride. And of how a researcher and drug company executive (Tal Zaks) who had been holding on for decades to a radical idea he picked up while working at the National Institutes of Health lit the spark that may have made an anti-cancer dream come true.... statnews.com/2026/08/24/insi… Reported and written by @matthewherper @Jasonmmast and @angRchen
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Samir Amin retweeted
Online Now: Proteo-genomics-guided interpretation of somatic mutations in cancer genomes dlvr.it/TV6pY2
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Everyone working in cancer care — and every oncologist — should read this piece. @sytses is grounded, rational, informed, and respectful to the current oncology establishment. He underwent standard of care therapies and has deep trust in his oncologist. But — he also creates space for every cancer patient to be irreverent. To keep fighting when standard of care runs out. Because he knows what’s it’s like to be fighting for your life.
My cancer case is n=1. I'm not holding it up as a model, because most of what I did is not specifically replicable or scaleable. But it is a proof of concept that fully personalized medicine, built around one patient's own biology, is viable in ways it simply wasn't a few years ago. I have lived a version of the future of cancer care that I think is worth aspiring to more broadly. Many of the tools that made this future possible for me are getting better, faster, cheaper, and more accessible every year. I think what we need next is the infrastructure to deploy these tools, and the community willing to build this infrastructure, one patient at a time. I want to help that future arrive faster. I wrote an article in The Cancer Letter cancerletter.com/guest-edito… for the physicians and researchers closest to the patients who could benefit most from this approach, who also believe in this future. If you are working towards building the systems and practices that will make personalized medicine operationally real, we want to collaborate with you too.
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Samir Amin retweeted
Another major advance vs cancer! @ASCO #ASCO26 Personalized neoantigen mRNA vaccine 5 year follow-up vs metastatic melanoma reduced recurrence and death by 49% (on top of Keytruda) ascopubs.org/doi/10.1200/JCO…
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Centromeres, chromosome attachment sites essential for cell division, are paradoxically the fastest-evolving parts of the genome. New yeast studies reveal how this critical function stays intact despite rapid underlying DNA change. nature.com/articles/d41586-0…
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As promised, I put together my thoughts on the ZEUS failure of IL-6 inhibition in atherosclerotic cardiovascular disease and what it means for drug development efforts centered around human genetics. 🔗Link: thecodon.substack.com/p/why-…
It looks like a brutally null result that doesn't leave much room for alternative interpretations. Given the strong genetic support (still holds), I didn't expect it. Genetic variation in both the receptor and the ligand that downregulates the signaling cascade (as captured by CRP, fibrinogen etc) is associated with lower risk of all forms of ASCVD (AMI, CAD, stroke, PAD, carotid plaques). Variants in IL6R pop up in all GWASs for ASCVD phenotypes. Beyond genetics, IL-6 levels are associated with worse CVD outcomes in all epidemiological studies of primary or secondary prevention settings. And in CANTOS, the benefit of canakinumb was restricted to those, who achieved low IL-6 levels. Still, it's an important reminder that no therapy works until we crash-test it in trials. Ofc the setting is important and Novo's choice to go for a CKD population, where mechanisms contributing to CVD are likely different, always felt somewhat weird to me. Signals for incident disease in genetic studies might not work well there. Still, if IL-6 signaling was crucial, I'd expect to see some effect. Definitely, an opportunity to also reflect on the human genetics side of things in drug development. Genetics for sure points to relevant pathways, but clinical development is a different monster. The fact that a pathway is relevant for incident atherosclerosis doesn't mean that targeting it in patients with CKD, who are on aggressive lipid-lowering therapy and 7 other medications would lower MACE. There are interesting examples, where genetics and clinical development deviated, e.g. for factor XI (open.substack.com/pub/thecod…). People who now criticize genetics because "it doesn't always work" should check the <10% success rates of the industry overall. I'll put my thoughts together and write something in the next days/weeks (or after the full results become available). I'd just like to note that very few therapeutic hypotheses have this level of converging support before they proceed to trials (animal studies, human genetics, epidemiology, even indirect trial evidence). So, I find the comments of everyone here, who "always expected the results" based on their gut feelings very interesting.
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Whole-genome doubling drives immune evasion by silencing antigen presentation cell.com/cancer-cell/fulltex…
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