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David Angeles

@davidangeles.bsky.social
364 followers 968 following 88 posts

Building a tissue engineering company. Recovering computational geneticist, ex-Altos, ex-eGenesis. Caltech PhD.

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Reposted by David Angeles
Ryan North @ryannorth.ca · 23/09/2026
Pompeii is a UNESCO world heritage site not because it was remarkable in its prime, but because it survived to our era untouched: one moment, preserved for all time. But future generations won't know what OUR world was like unless we do the same. This is why we MUST bury Toronto with a volcano
Picture of the streets of Pompeii, from https://commons.wikimedia.org/wiki/File:Pompei_-_panoramio_(26).jpg. Taken by Tanya Dedyukhina, used under CC
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David Angeles @davidangeles.bsky.social · 22/09/2026
Don't be a postdoc. That's how. Biggest lie ever played on a scientist
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David Angeles @davidangeles.bsky.social · 25/08/2026
Congrats @katecavanaugh.bsky.social --it has been really amazing to watch this work grow from the sidelines over the past many years. Glad it is out!
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David Angeles @davidangeles.bsky.social · 02/08/2026
Maybe more
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Reposted by David Angeles
Kate Cavanaugh @katecavanaugh.bsky.social · 01/10/2025
See this? This = implanting mouse embryo. Usually this happens inside its mother and is invisible to us, but we can actually watch implantation ex vivo with the hope of understanding why implantation goes awry in embryos of older women. A 🧵...
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David Angeles @davidangeles.bsky.social · 23/07/2026
I am chairing the Graduate Research network session today @SocDevBio. If you're around come say hi!
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David Angeles @davidangeles.bsky.social · 19/07/2026
Am I the only person who is a bit tired of hearing mitochondria are overlooked? They are very much not.
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David Angeles @davidangeles.bsky.social · 16/07/2026
woo!
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c0nc0rdance @c0nc0rdance.bsky.social · 08/07/2026
"The dream of every cell is to become two cells." - François Jacob, paraphrasing Jacques Monod.
"François Jacob (left) and Jacques Monod in the lab at the Institut Pasteur, 1971, New York Times obituary."  Two men in a laboratory, Monod in a white shirt and dark tie, smoking, standing behind Jacob, who is seated at a microscope, looking at a slide collection.

French biologists François Jacob and Jacques Monod were pioneering scientists at the Pasteur Institute who revolutionized molecular biology by discovering how cells regulate gene expression. For their groundbreaking work on the lac operon, they were jointly awarded the 1965 Nobel Prize in Physiology or Medicine.
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David Angeles @davidangeles.bsky.social · 29/06/2026
Well, for one it takes market share away from the publishing giants that have 20% profit margins? I get it is not ideal, but I am open minded towards anything that brings more competition to Elsevier
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David Angeles @davidangeles.bsky.social · 29/06/2026
To be fair, this suggests it made good suggestions given it suggested an experiment you tried and did not include in the paper! Would it be better if the AI system said "the paper is fine as is"? What would be a substantial improvement on this system in your mind?
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Reposted by David Angeles
Thomas Fortenberry @thomasfortenberry.bsky.social · 28/06/2026
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David Angeles @davidangeles.bsky.social · 24/06/2026
"shouldn't have been done" -- are we really advocating for censorship in scientific biometrics now? I don't care for rankings but it really concerns me that our community increasingly talks in ways that are so polarizing.
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David Angeles @davidangeles.bsky.social · 23/06/2026
Gorgeous science. Wowowow.
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David Angeles @davidangeles.bsky.social · 23/06/2026
I'm not sure I attributed anything to you, Tim, but thank you for your specification regardless. It is appreciated! 🙏🏽
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David Angeles @davidangeles.bsky.social · 23/06/2026
Only in biology do we a) feel bad for the absolutely richest labs in the world, and b) argue that a three year runway is unreasonable.
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David Angeles @davidangeles.bsky.social · 19/06/2026
Pleasure was mine for working with ya!
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Ashley Albright @aralbright.bsky.social · 19/06/2026
[1/n] Our preprint-in-progress on RNA regionalization in Stentor is no longer in progress! Now @pnas.org 🥳 Turns out a single cell isn't a homogenous soup… it has molecular geography, including things like regionalized transcription factors. Think bicoid, but in a ciliate.
pnas.org
Genome-wide analysis of mRNA regionalization in a giant single cell | PNAS
The molecular mechanisms that produce cell structure are poorly understood. The giant ciliate Stentor coeruleus is a unicellular model organism who...
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David Ho @davidho.bsky.social · 18/06/2026
Vaccines are humanity's greatest scientific achievement.
bbc.co.uk
Cervical cancer deaths fall to zero in young women given HPV vaccine
A new study finds that hundreds of lives have been saved since school-age girls were offered the HPV jab in 2008.
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David Angeles @davidangeles.bsky.social · 16/06/2026
The first assertion is highly dependent on political moods, no?
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David Angeles @davidangeles.bsky.social · 16/06/2026
If the median lab is 11 scientists + a plurality of scientists sit in the right tail, then increasing median lab size thru funding reallocation is not a local change. It implies a large redistribution of personnel across the entire system Money can be reallocated in a fiscal year. Scientists cannot
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David Angeles @davidangeles.bsky.social · 16/06/2026
I'm guessing this 15% is highly concentrated in the coasts and there within big cities. A redistribution would likely mean money moves places. the concentration of personnel is so massive, even minor inefficiencies should be expected to hit the system hard; and moving is an inefficient process
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David Angeles @davidangeles.bsky.social · 16/06/2026
The corollary to this is a bit scary. If even a little funding is reallocated or removed from this top 15-20%, academic science could lose multiple percentage points worth of scientists. In other words, science is beholden to the rich few.
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David Angeles @davidangeles.bsky.social · 16/06/2026
If 15-20% of labs have >20 scientists (call these "large labs"), this means ~40 percent of scientists work in "large labs"
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David Angeles @davidangeles.bsky.social · 15/06/2026
Who chooses a conference venue in a teeny tiny town where everything closes at 8pm in hurricane season in hot Florida.
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David Angeles @davidangeles.bsky.social · 11/06/2026
If you're a biologist, you essentially cannot use Fable 5 yet 😭
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David Angeles @davidangeles.bsky.social · 06/06/2026
she is a major reason I was able to go to grad school. Miss you, Sue!
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Reposted by David Angeles
Admirable Women @admirablewomen.bsky.social · 05/06/2026
Molecular biologist & geneticist Susan Lindquist (b. #OTD in 1949) was a pioneer in studying protein folding. Her research demonstrated protein folding errors contribute heavily to neurodegenerative conditions like Alzheimer's & Parkinson's diseases. National Medal of Science in 2010. #WomenInSTEM
This colorful portrait captures pioneering American molecular biologist and geneticist Dr. Susan Lindquist (June 5, 1949 – October 27, 2016), a National Medal of Science recipient who revolutionized our understanding of protein folding, prions, and heat-shock proteins. Facing the camera with a warm, confident smile, her short brown hair frames an engaging, intellectual expression. She wears a structured, dark green textured blazer over a striking, light blue silk scarf patterned with vibrant illustrations of sliced limes, lemons, oranges, and cherries, accented by elegant gold hoop earrings.She stands directly in front of a white dry-erase board covered in hand-drawn, multicolored biochemical pathways and pathways tracking "sterol biosynthesis," "Erg3," "Ergosterol," and "Mutations Azoles" from her famous research into evolutionary adaptations and antifungal resistance using yeast models. The tight composition and bright ambient lighting emphasize a deeply intellectual, creative, and historic mood, celebrating one of the most influential scientific minds of the modern era.
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Rebecca R Helm @rebeccarhelm.bsky.social · 10/04/2026
This deep sea creature is as sharp & clear as broken class, & can grow as long as your hand. This giant amphipod, (Cystisoma) only has two colored body parts: the dense orange stomach/egg pouch, & two MASSIVE eyes, which are a glittering holographic orange layer completely covering its head. 📽️ MBARI
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Michael D. Green, PhD @michaeldgreen.phd · 28/05/2026
President of MIT not mincing words today in @statnews.com www.statnews.com/2026/05/27/s...
So let me say it as clearly as I can: Without basic scientific research, supported by the kind of farsighted public investment that allows large-scale, undirected, curiosity-driven inquiry, the scientific pipeline will run dry.
In daily life, people may not feel the effects right away, or even in 10 years. But we will feel it. And when someone we love needs therapies that could have emerged but didn't or when other countries now
investing in science can launch new science-based industries or run their societies on vast resources of fusion energy or reap the benefits of quantum computing power or advanced medical breakthroughs, America will wish it sustained its leadership in scientific research here and now.
Sally Kornbluth is the president of MIT.
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David Angeles @davidangeles.bsky.social · 23/05/2026
Yes, especially so when you are a biologist for whom 90% works is an astounding success.
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Reposted by David Angeles
Nico Stuurman @nicostuurman.bsky.social · 21/05/2026
I'll be writing a few posts about new features in Micro-Manager. If you are interested in those, please follow @micro-manager.bsky.social.
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David Angeles @davidangeles.bsky.social · 18/05/2026
The pearl clutching over generated references is a bit funny. Hallucinated references may be new, but the age old problem of missing citations or citations that have nothing to do with the text, self citations, or citations of friends--these are all equally harmful and prevalent and ignored problems
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David Angeles @davidangeles.bsky.social · 15/05/2026
loaded question, but first let’s define hallucinations: one character wrong? two? first author wrong? year wrong? in conversation, i have definitely made each of these mistakes. i would like to believe in writing they have all been correct, but i would not be surprised if i had.
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David Angeles @davidangeles.bsky.social · 15/05/2026
i shudder to think of the rather large number of times i myself have entered a citation incorrectly. pray tell me folks: how do you tell a hallucinated reference from a human mistake? i am all for minimizing AI slop, but this policy seems likely to catch as much non-AI as AI.
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David Angeles @davidangeles.bsky.social · 11/05/2026
chromatin is related to gene expression? at the single cell level? what!
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Photo Diary @amablephoto.bsky.social · 10/05/2026
. 📷 Kristin Sundberg . #PhotoOfTheDay #Photography #BlueskyPhotography #PhotoKind
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Alexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · 07/05/2026
#RIP Pierre Chambon (1931-2026) via @alainberetz.bsky.social one of the last giants in biology: PARP, nuclear receptors, RNA Pol II, nucleosome, promoters, split genes
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David Angeles @davidangeles.bsky.social · 08/05/2026
scientists: correlative methods do not imply causation. also scientists:
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David Angeles @davidangeles.bsky.social · 06/05/2026
🫨. wow.
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Wallace Marshall @wallaceucsf.bsky.social · 09/12/2025
you can read about it here: www.biorxiv.org/content/10.1...
biorxiv.org
An Algebraic Approach to Representing Mitochondrial Dynamics
This paper addresses the increasing need for comprehensive mathematical descriptions of cell organization by examining the algebraic structure of mitochondrial network dynamics. Mitochondria are cellu...
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David Angeles @davidangeles.bsky.social · 17/12/2025
wowowowow
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David Angeles @davidangeles.bsky.social · 08/12/2025
i did not see this 😭
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David Angeles @davidangeles.bsky.social · 07/12/2025
oh i have to see this.
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David Angeles @davidangeles.bsky.social · 10/11/2025
Currently at #TERMIS2025, sitting at an award plenary, and though the speaker has done amazing science and is a great speaker, 100% of the data she presented is 2008-2018. Why? I can read all of these papers. The point of conferences used to be to show cutting edge work.
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Harold Pimentel @hjp.bsky.social · 29/09/2025
Super excited to get this out. This collab started a few years ago and is the first paper from it. Here, with experimental and computational approaches we: 1. establish that cell villages can be just as accurate (one might argue more accurate!) than arrayed-based designs bsky.app/profile/bior...
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Matthew Hodson @matthewhodson.bsky.social · 13/08/2025
27 years ago, two years after the introduction of effective HIV treatment, the Bay Area Reporter, San Francisco’s lesbian and gay community newspaper, ran ‘No Obits’ as its headline. It was the first edition not to report an AIDS death in almost 15 years.
The Bay Area Reporter front page, 13 August 1998.
The headline ‘No obits’ is written in red above the lead story.
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Buster Jiggs @kdxkawboy.bsky.social · 01/08/2025
🗃️ A history mystery solved: where do potatoes come from? Nine million years ago, as the Andes were rising, a tomato cross pollinated a plant from the S. etuberosum lineage. Each plant contributed a gene, that together enabled underground stems to form tubers. www.sciencenews.org/article/pota...
sciencenews.org
Potatoes have their roots in ancient tomatoes
Knowing potatoes’ origin story could help future-proof the crucial crop against climate threats.
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David Angeles @davidangeles.bsky.social · 15/07/2025
huh.
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David Angeles @davidangeles.bsky.social · 23/06/2025
What does it say if you see circles at the bottom and rectangles at the top? Asking for a friend...
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