David Meyer

David Meyer

@meyerdh.bsky.social

Dr. rer. nat. | Bioinformatician 🧬 | Exploring Aging & Longevity with Machine Learning 🔍 | Unraveling Life's Code | C.elegans | Consultant

187 followers181 following38 posts

David Meyer reposted

FOR5762
@ru5762proteostasis.bsky.social

🚨Thrilled to share this exciting new paper by our #FOR5762 project leader @bjornschumacher.bsky.social, published in #NatureAging! The study uncovers neuron-specific aging patterns and points to potential neuroprotective interventions. Congratulations! 🎉 www.nature.com/articles/s43...

nature.comAging clocks delineate neuron types vulnerable or resilient to neurodegeneration and identify neuroprotective interventions - Nature AgingGallrein et al. pair functional assays with clocks to compare chronological versus biological age of single neuron types in C. elegans, to probe their vulnerability or resilience to neurodegeneration,...

David Meyer reposted

FOR5762
@ru5762proteostasis.bsky.social

🚨Excited to share this new review in @febsj.bsky.social by our #FOR5762 project leader @thevilchezlab.bsky.social! The article explores how organelle #proteostasis preserves cellular function, and how its decline contributes to #aging and disease. febs.onlinelibrary.wiley.com/doi/10.1111/...

febs.onlinelibrary.wiley.comFEBS PressCells rely on regulated proteostasis mechanisms to keep their internal compartments functioning properly. When these mechanisms fail, damaged proteins accumulate, disrupting organelles, such as the n...

David Meyer reposted

Björn Schumacher
@bjornschumacher.bsky.social

🧠⏰our latest paper is out now: how each neuron ages differently allowed us to define in silico screens for new therapeutic molecules that could prevent neurodegeneration @cecad.bsky.social @unicologne.bsky.social @uniklinikkoeln.bsky.social @meyerdh.bsky.social www.nature.com/articles/s43...

nature.comAging clocks delineate neuron types vulnerable or resilient to neurodegeneration and identify neuroprotective interventions - Nature AgingGallrein et al. pair functional assays with clocks to compare chronological versus biological age of single neuron types in C. elegans, to probe their vulnerability or resilience to neurodegeneration,...

David Meyer reposted

CRC1678
@crc1678.bsky.social

🚨Publication Alert🚨 New work from our #CRC1678 members @bjornschumacher.bsky.social and @meyerdh.bsky.social reveals why some neurons age faster. Using neuron‑specific aging clocks, they identified vulnerable neurons and highlight syringic acid and vanoxerine as promising neuroprotective hits.🧬

David Meyer@meyerdh.bsky.social

Why do some neuron types degenerate early while others stay intact? We used transcriptomic aging clocks for single-neuron-types in C. elegans and found neuron-specific biological age predicts vulnerability. 🧪 www.nature.com/articles/s43... #Neurodegeneration 🧵👇 (1/n)

nature.comAging clocks delineate neuron types vulnerable or resilient to neurodegeneration and identify neuroprotective interventions - Nature AgingGallrein et al. pair functional assays with clocks to compare chronological versus biological age of single neuron types in C. elegans, to probe their vulnerability or resilience to neurodegeneration,...
David Meyer
@meyerdh.bsky.social

Amazingly, these in silico predictions held up in vivo: protective hits delayed degeneration (syringic acid, vanoxerine), while predicted pro-aging/toxic compounds caused neurite deterioration and accelerated degeneration (resveratrol, Bay K8644). (8/n)

David Meyer
@meyerdh.bsky.social

Big thanks to @bjornschumacher.bsky.social for his guidance and all co-authors. This was a great team effort. Paper: www.nature.com/articles/s43... (9/n) #aging

nature.comAging clocks delineate neuron types vulnerable or resilient to neurodegeneration and identify neuroprotective interventions - Nature AgingGallrein et al. pair functional assays with clocks to compare chronological versus biological age of single neuron types in C. elegans, to probe their vulnerability or resilience to neurodegeneration,...
David Meyer
@meyerdh.bsky.social

These trajectories aren't worm specific. Despite millions of years of evolution, the same transcriptomic signature we see in C. elegans aligns with human brain aging, and it flips sign under geroprotective interventions. That argues for conserved neuronal aging programs. (6/n)

David Meyer
@meyerdh.bsky.social

We used this discovery to adapt an in silico drug screen and mapped worm neuron-aging signatures onto human perturbation profiles (CMAP) to identify novel compounds affecting neurodegeneration. (7/n)

David Meyer
@meyerdh.bsky.social

Critically: fast-aging types show earlier structural degeneration and loss of function in vivo. Remarkably, we can already predict which neurons will degenerate earlier at a late developmental stage. Vulnerability is detectable as an early transcriptomic aging state. (4/n)

David Meyer
@meyerdh.bsky.social

Fast-aging neurons are enriched for neuropeptide and protein biosynthesis pathways. These neuron types show earlier structural decline and loss of neuron-specific function. And indeed, pharmacological inhibition of translation prevents degeneration of fast-aging neurons. (5/n)

David Meyer
@meyerdh.bsky.social

Selective vulnerability is central to #Alzheimer’s and #Parkinson’s disease, but which neurons age faster is rarely quantified. Transcriptomic clocks let us estimate biological age directly from neuron-type gene-expression states. (2/n)

David Meyer
@meyerdh.bsky.social

We applied two independent clocks (links below): our BitAge (binarized transcriptomic aging clock), and our Stochastic clock (noise-based and data-type agnostic). Both independently rank neuron types as fast- vs slow-aging from their transcriptomes. (3/n)

David Meyer reposted

Melike Dönertaş
@mdonertas.bsky.social

Happy to share that this is now out in Microbial Ecology 🥳 Huge thanks to the whole team, especially @sultanova.bsky.social 🙌 link.springer.com/article/10.1... @leibnizfli.bsky.social @uniofeastanglia.bsky.social

link.springer.comAge-Dependent Gut Microbiota Dynamics and Their Association with Male Life-History Traits in Drosophila melanogaster - Microbial EcologyGrowing evidence suggests that the gut microbiota is closely intertwined with life-history evolution in a wide range of species, including well-studied model organisms like Drosophila melanogaster. Al...
Melike Dönertaş@mdonertas.bsky.social

Super happy to share our new preprint with Zahida Sultanova and an amazing team! We explored how age-related changes in gut microbiota associate with life history traits - lifespan, reproduction, and performance - in male Drosophila melanogaster. www.biorxiv.org/content/10.1...

biorxiv.orgAge-dependent gut microbiota dynamics and their association with male fitness traits in Drosophila melanogasterGrowing evidence suggests that the gut microbiota plays a key role in shaping life history in a wide range of species, including well-studied model organisms like Drosophila melanogaster. Although rec...
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David Meyer reposted

CRC1678
@crc1678.bsky.social

New study by our #CRC1678 members @bjornschumacher.bsky.social, @meyerdh.bsky.social and Walter Sandt showing that C. elegans dauer stage decelerates aging and even reverses biological age upon exit, revealing natural gene patterns of rejuvenation. Congratulations! 🎉 #AgingResearch #Longevity

Björn Schumacher@bjornschumacher.bsky.social

🚀 Now out in print: AGE DECELERATION AND REVERSAL GENE PATTERNS IN DAUER DIAPAUSE. How we can learn from nature of to slow aging and rejuvenate. Big congrats to Khrystyna Totska, João Barata, Walter Sandt, and @meyerdavid.bsky.social! @cecad.bsky.social onlinelibrary.wiley.com/doi/10.1111/...

onlinelibrary.wiley.comAge Deceleration and Reversal Gene Patterns in Dauer DiapauseThe dauer diapause is a naturally occurring extraordinarily long-lived alternative C. elegans larval stage that, upon dauer exit, lives a normal adult life with full reproductive capacity. Here, we d...

David Meyer reposted

SIB Swiss Institute of Bioinformatics
@sib.swiss

🎥 Meet the 2025 SIB Bioinformatics Awards laureates: ⭐ David Meyer @meyerdh.bsky.social, PhD Paper Award ⭐ Michael Skinnider @skinnider.bsky.social Early Career Award ⭐ scverse @scverse.bsky.social, Innovative Resource Award, accepted by Ilan Gold Watch their award ceremony talks👇& congrats to all!

sib.swissCelebrating excellence: meet the 2025 SIB Bioinformatics Awards laureatesTwo early career bioinformaticians have been recognized for their mathematical and AI models, along with a collaborative resource for single-cell data analyses. The three 2025 SIB Bioinformatics Award...

David Meyer reposted

Björn Schumacher
@bjornschumacher.bsky.social

🚀 🚀 🚀 Our latest paper is out now: Age Deceleration and Reversal Gene Patterns in Dauer Diapause. We can learn from nature how aging of a whole organism with completely differentiated tissues can be slowed and how that organism can be completely rejuvenated. onlinelibrary.wiley.com/doi/10.1111/...

onlinelibrary.wiley.comAge Deceleration and Reversal Gene Patterns in Dauer DiapauseThe dauer diapause is a naturally occurring extraordinarily long-lived alternative C. elegans larval stage that, upon dauer exit, lives a normal adult life with full reproductive capacity. Here, we d...

David Meyer reposted

yifanzhao.bsky.social
@yifanzhao.bsky.social

Super grateful that our scETM work (from my summer internship with Dr. Yue Li, in collab. with Huiyu Cai and @tangjian.bsky.social) was recognized with an honourable mention at SIB PhD Paper Award competition. Many thanks to the jury and congrats to @meyerdh.bsky.social and Can Chen! #bc2basel

SIB Swiss Institute of Bioinformatics@sib.swiss

The PhD Paper Award jury gives honourable mentions to: Can Chen for “Structure-Aware Protein Self-Supervised Learning” doi.org/10.1093/bioi... Yifan Zhao for “Learning interpretable cellular and gene signature embeddings from single-cell transcriptomic data” doi.org/10.1038/s414... #bc2basel

doi.orgStructure-aware protein self-supervised learningAbstractMotivation. Protein representation learning methods have shown great potential to many downstream tasks in biological applications. A few recent st

David Meyer reposted

Christian Frezza
@frezzalab.bsky.social

Ribonucleotide incorporation into mitochondrial DNA drives inflammation www.nature.com/articles/s41... Congratulations to the Langer lab @mpiage.bsky.social, Amir, and the rest of the team!

nature.comRibonucleotide incorporation into mitochondrial DNA drives inflammation - NatureImbalanced nucleotide metabolism leads to age- and mtDNA-dependent inflammatory responses and senescence-associated secretory phenotype in senescence.

David Meyer reposted

Andreas Beyer Group
@beyerlab.bsky.social

This review of our @crc1678.bsky.social member @bjornschumacher.bsky.social and @meyerdh.bsky.social is greatly summarizing fundamentals of the molecular biology of aging. What causes aging? Read the answer!

Björn Schumacher@bjornschumacher.bsky.social

🔥🔥🔥Out now: our Perspectives article in @nataging.nature.com outlining how aging is driven by molecular damage leading to increasing molecular noise whose quantification could track aging with the precision of a clock @meyerdh.bsky.social @alexeimaklakov.bsky.social www.nature.com/articles/s43...

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...

David Meyer reposted

Björn Schumacher
@bjornschumacher.bsky.social

🔥🔥🔥Out now: our Perspectives article in @nataging.nature.com outlining how aging is driven by molecular damage leading to increasing molecular noise whose quantification could track aging with the precision of a clock @meyerdh.bsky.social @alexeimaklakov.bsky.social www.nature.com/articles/s43...

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...

David Meyer reposted

Alexei Maklakov
@alexeimaklakov.bsky.social

We argue that selection shadow - gradual decline in the force of selection after the onset of reproduction - is sufficient/parsimonious to explain why damage accumulates with age. 'Aging clocks' measure damage accumulation, they neither require nor support any kind of 'program'-based explanation.

David Meyer@meyerdh.bsky.social

🕰️ Is aging driven by a programmed/programmatic mechanism, or by the unavoidable burden of imperfect maintenance? Our perspective argues that aging reflects finite maintenance and reduced evolutionary pressure🧵🧪 www.nature.com/articles/s43... @bjornschumacher.bsky.social @alexeimaklakov.bsky.social

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...

David Meyer reposted

CRC1678
@crc1678.bsky.social

👵🏻⏰👴🏻 Is aging a programmed process? Check out this perspective article in Nature Aging by our two #CRC1678 members @meyerdh.bsky.social and @bjornschumacher.bsky.social. Congratulations! 🥳

David Meyer@meyerdh.bsky.social

🕰️ Is aging driven by a programmed/programmatic mechanism, or by the unavoidable burden of imperfect maintenance? Our perspective argues that aging reflects finite maintenance and reduced evolutionary pressure🧵🧪 www.nature.com/articles/s43... @bjornschumacher.bsky.social @alexeimaklakov.bsky.social

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...
David Meyer
@meyerdh.bsky.social

You can also read it here rdcu.be/eG1N7 👇

David Meyer@meyerdh.bsky.social

🕰️ Is aging driven by a programmed/programmatic mechanism, or by the unavoidable burden of imperfect maintenance? Our perspective argues that aging reflects finite maintenance and reduced evolutionary pressure🧵🧪 www.nature.com/articles/s43... @bjornschumacher.bsky.social @alexeimaklakov.bsky.social

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...
David Meyer
@meyerdh.bsky.social

Aging is the default state of biological systems. Changing markers picked up by aging clocks won’t roll back time, they only mark it. The way forward is strengthening repair & maintenance and embracing biology’s messy and stochastic reality. ➡️ www.nature.com/articles/s43... 6/

nature.comAging by the clock and yet without a program - Nature AgingMeyer and colleagues refute the idea that, as aging can be tracked precisely by clocks, it must be driven by a biological program. They propose that imperfect maintenance and repair processes resultin...
David Meyer
@meyerdh.bsky.social

The accuracy of DNA methylation & other aging clocks has revived programmed and programmatic aging theories. But clocks don’t prove an intrinsic timer. They reflect the accumulation of molecular errors as repair systems are never perfect. #Longevity #Biology 4/

David Meyer
@meyerdh.bsky.social

We previously showed that stochastic variation alone can create aging clocks predicting age across species & interventions. Because repair & maintenance can never be perfect, small errors inevitably build up, giving rise to aging. www.nature.com/articles/s43... #Entropy #DNARepair 5/

nature.comAging clocks based on accumulating stochastic variation - Nature AgingMeyer and Schumacher use simulations to show that accumulation of stochastic variation is sufficient to build clocks that can measure both chronological and biological age, sensitive to changes induce...
David Meyer
@meyerdh.bsky.social

Aging started with the very first replicators on earth facing a harsh entropic environment. Life could persist only by evolving repair and maintenance systems to counter damage. Aging and death is therefore the default state, happening because maintenance can never be perfect 2/

David Meyer
@meyerdh.bsky.social

The force of natural selection is strongest during development and wanes after reproduction. Maintenance & repair only need to be good enough for fitness, not perfect, therefore leaving room for gradual decline. #Evolution #DNArepair 3/

David Meyer reposted

CRC1678
@crc1678.bsky.social

💪🎉Congratulations to our #CRC1678 member @meyerdh.bsky.social for winning the SIB Bioinformatics PhD Paper Award 2025 for his work on Ageing Clocks ⏰ 👵🏻👴🏻

David Meyer@meyerdh.bsky.social

✨ I’m honored and grateful to have received the SIB Bioinformatics PhD Paper Award 2025 for part of my PhD work. Thank you for your guidance and inspiration @bjornschumacher.bsky.social #SIBAwards #bc2basel #Bioinformatics

David Meyer
@meyerdh.bsky.social

✨ I’m honored and grateful to have received the SIB Bioinformatics PhD Paper Award 2025 for part of my PhD work. Thank you for your guidance and inspiration @bjornschumacher.bsky.social #SIBAwards #bc2basel #Bioinformatics

SIB Swiss Institute of Bioinformatics@sib.swiss

💫 The PhD Paper Award goes to @meyerdh.bsky.social from Uni-Köln 💫 “David Meyer’s paper ‘Aging clocks based on accumulating stochastic variation’ presents a completely novel concept and a fresh way to address the problem”. #Bioinformatics #SIBawards #bc2basel

David Meyer reposted

SIB Swiss Institute of Bioinformatics
@sib.swiss

Replying to @sib.swiss

Read David’s award winning article ‘Aging clocks based on accumulating stochastic variation’. www.nature.com/articles/s43... #bc2basel

nature.comAging clocks based on accumulating stochastic variation - Nature AgingMeyer and Schumacher use simulations to show that accumulation of stochastic variation is sufficient to build clocks that can measure both chronological and biological age, sensitive to changes induce...

David Meyer reposted

Marc Robinson-Rechavi
@marcrr.ecoevo.social.ap.brid.gy

#bc2basel @SIB PhD Paper Award 👏 David Meyer: Aging clocks based on accumulating variation https://doi.org/10.1038/s43587-024-00619-x

nature.comAging clocks based on accumulating stochastic variation - Nature AgingMeyer and Schumacher use simulations to show that accumulation of stochastic variation is sufficient to build clocks that can measure both chronological and biological age, sensitive to changes induced by smoking, calorie restriction, parabiosis and reprogramming.

David Meyer reposted

David Vilchez
@thevilchezlab.bsky.social

🚨 New from our lab: Here we explored how aging contributes to harmful protein aggregation in diseases like Huntington’s & ALS. The culprit? An overlooked aging factor — EPS8 and RAC signaling. #Aging #Longevity #Proteostasis #ALSResearch 🧵 www.nature.com/articles/s43...

nature.comThe aging factor EPS8 induces disease-related protein aggregation through RAC signaling hyperactivation - Nature AgingAging is a risk factor for neurodegenerative diseases associated with protein aggregation. Here the authors identify age-related hyperactivation of EPS8/RAC signaling in C. elegans as a driver of path...

David Meyer reposted

David Vilchez
@thevilchezlab.bsky.social

New work from the lab! C9orf72 ALS‐causing mutations lead to mislocalization and aggregation of nucleoporin Nup107 into stress granules - Bilican - FEBS Letters - Wiley Online Library febs.onlinelibrary.wiley.com/doi/10.1002/...

febs.onlinelibrary.wiley.comFEBS PressMutations in the C9orf72 gene represent the most common genetic cause of amyotrophic lateral sclerosis (ALS), a fatal neurodegenerative disease. Using patient-derived neurons and C. elegans models, w...
David Meyer
@meyerdh.bsky.social

Can't wait to be at the #ARDD2025 next week! agingpharma.org I'm presenting "Aging by the clock and yet without a program" on Tuesday in the GeroPhysics session. If you're at the conference, let's grab a coffee and chat! 🧪 #AgingResearch #Longevity #Science

agingpharma.orgARDD 2025In this symposium, leaders in the aging and longevity field will describe the latest progress in the molecular, cellular and organismal basis of aging and our search for interventions. A panel of thou...