Yves Clément
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yvesclement.bsky.social
Yves Clément
@yvesclement.bsky.social
1.8K followers 1.1K following 730 posts
Assistant Prof @ U-Paris-Cité | Institut Jacques Monod
Molecular evolution and bioinformatics (and some other things, too)
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Reposted by Yves Clément
evomg-dn.bsky.social
🚨 15 days left to apply!
Be part of EvoMG-DN and advance your PhD career in evolutionary genomics.
👉 www.evomg-dn.eu

#PhD #DoctoralTraining #ResearchCareers #LifeSciences #BiomedicalResearch #Genomics #EvolutionaryBiology #MSCA #HorizonEurope #EUResearch #ResearchOpportunities #PhDPositions
November 14, 2025 at 10:19 AM
Reposted by Yves Clément
camilleberthelot.bsky.social
Still looking for our perfect doctoral candidate as part of @evomg-dn.bsky.social - come and join us to work on the evolutionary pressures that shape gene expression and disease in the uterus!

Please RT (or is it RB? not sure how our lingo has changed!)
November 14, 2025 at 10:22 AM
yvesclement.bsky.social
So I guess there’s no more excuses for not getting your RNA-seq right
marmole6.bsky.social Emilio Mármol Sánchez @marmole6.bsky.social · 13h
🦣🧬🦣🤯💥We are pleased to share our new paper about ancient RNA expression profiles from the Woolly Mammoth, now published in Cell @cellpress.bsky.social

www.cell.com/cell/fulltex...

If you want to know more, read the 🧵 below:
November 14, 2025 at 4:52 PM
Reposted by Yves Clément
jrotwitguez.bsky.social
🔊New perspective piece out @genomebiolevol.bsky.social.

"The Genomic Kaleidoscope: On the Hidden Dimensions of Within-Species Genomic Diversity" 💡🌀🌈
doi.org/10.1093/gbe/...

Co-led with @mbrasovives.bsky.social and @diegoharta.bsky.social

Check out our thread! 🧵👇 (1/n)
Validate User
doi.org
November 14, 2025 at 9:11 AM
Reposted by Yves Clément
jamieheather.bsky.social
My generation had to deal with datasets where Excel had autocorrected gene names to dates. Future generations are going to have to deal with the hallucinations of slopbots.
August 14, 2025 at 2:03 PM
Reposted by Yves Clément
claireplacial.bsky.social
Passe moi la pelle j’ai des idées d’usage
November 14, 2025 at 7:39 AM
Reposted by Yves Clément
jlsteenwyk.bsky.social
Just gonna put this here for now
www.science.org/doi/10.1126/...
bsky.app/profile/jlst...
November 13, 2025 at 7:23 PM
yvesclement.bsky.social
So I guess we can *finally* put that debate to rest and move on to another one
November 13, 2025 at 7:42 PM
yvesclement.bsky.social
10 ans.
Tellement loin et tellement proche. La sidération est partie, mais l’incompréhension et la tristesse sont restées.
Pensées aux victimes et à leurs proches
#13Novembre
November 13, 2025 at 5:29 PM
yvesclement.bsky.social
This should be interesting
clauswilke.com Claus Wilke @clauswilke.com · 1d
I've done a lot of work in Python this fall, and it hasn't endeared me to the language at all. Why does stuff have to be so complicated when you're doing it in Python?
blog.genesmindsmachines.com/p/python-is-...
Python is not a great language for data science. Part 1: The experience
It may be a good language for data science, but it’s not a great one.
blog.genesmindsmachines.com
November 13, 2025 at 5:00 PM
Reposted by Yves Clément
clauswilke.com
I've done a lot of work in Python this fall, and it hasn't endeared me to the language at all. Why does stuff have to be so complicated when you're doing it in Python?
blog.genesmindsmachines.com/p/python-is-...
Python is not a great language for data science. Part 1: The experience
It may be a good language for data science, but it’s not a great one.
blog.genesmindsmachines.com
November 13, 2025 at 4:16 PM
Reposted by Yves Clément
nature.com
Nature research paper: Convergent genome evolution shaped the emergence of terrestrial animals

go.nature.com/4i0i61w
Convergent genome evolution shaped the emergence of terrestrial animals - Nature
Comparisons of 154 genomes from 21 animal phyla and outgroups have been used to reconstruct ancestral adaptation to life on land across 11 distinct terrestrialization events, revealing strong evidence for convergent genomic evolution across the animal kingdom and recurring periods of terrestrial colonization.
go.nature.com
November 13, 2025 at 9:18 AM
Reposted by Yves Clément
clauswilke.com
My department at UT Austin is looking to hire an Assistant Professor in Evolutionary Biology, broadly defined. Feel free to reach out to me with any questions you may have.
apply.interfolio.com/177547
Apply - Interfolio {{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
apply.interfolio.com
November 13, 2025 at 3:23 PM
Reposted by Yves Clément
igbmc.bsky.social
The IGBMC is recruiting a new Computational Biology Group Leader through the ENACT AI Chair for Scientific Discoveries, covering cancer, developmental, and structural biology. Join one of Europe’s leading life science centers!
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
November 13, 2025 at 9:33 AM
Reposted by Yves Clément
abardet.bsky.social
Great opportunity to join the IGBMC as a Group Leader in Computational Biology ! Happy to discuss it if you like. Please share !
igbmc.bsky.social IGBMC @igbmc.bsky.social · 1d
The IGBMC is recruiting a new Computational Biology Group Leader through the ENACT AI Chair for Scientific Discoveries, covering cancer, developmental, and structural biology. Join one of Europe’s leading life science centers!
cluster-ia-enact.ai/appels-a-pro...
Deadline: Jan 7, 2026
November 13, 2025 at 12:54 PM
Reposted by Yves Clément
profsimonfisher.bsky.social
With sequencing of Hitler's DNA making headlines, time for a reminder: analysing a polygenic score from a dead historically-significant figure won't give new insights into that person's behaviour. In a brief paper last year, we used Beethoven's genome to directly illustrate the fallacies involved.🧪👇
Notes from Beethoven’s genome
Wesseldijk et al. compare the genomic information collected from Ludwig van Beethoven with population-based datasets used to quantify musical achievement.
www.cell.com
November 13, 2025 at 11:26 AM
Reposted by Yves Clément
ornikkar.bsky.social
Il y a 10 ans. (Par @chappatte.bsky.social) #Souvenir #13novembre
Le Baiser de l'hôtel de ville de Doisneau avec un islamiste qui surgit armé d'une kalachnikov
November 13, 2025 at 5:02 AM
yvesclement.bsky.social
J'ai dû écrire "striatum" sur une slide.

Je me sens sale
an older man is holding a cup of coffee and looking at the camera .
ALT: an older man is holding a cup of coffee and looking at the camera .
media.tenor.com
November 13, 2025 at 8:34 AM
Reposted by Yves Clément
hansonmark.bsky.social
We wrote the Strain on scientific publishing to highlight the problems of time & trust. With a fantastic group of co-authors, we present The Drain of Scientific Publishing:

a 🧵 1/n

Drain: arxiv.org/abs/2511.04820
Strain: direct.mit.edu/qss/article/...
Oligopoly: direct.mit.edu/qss/article/...
A table showing profit margins of major publishers. A snippet of text related to this table is below. 1. The four-fold drain 1.1 Money Currently, academic publishing is dominated by profit-oriented, multinational companies for whom scientific knowledge is a commodity to be sold back to the academic community who created it. The dominant four are Elsevier, Springer Nature, Wiley and Taylor & Francis, which collectively generated over US$7.1 billion in revenue from journal publishing in 2024 alone, and over US$12 billion in profits between 2019 and 2024 (Table 1A). Their profit margins have always been over 30% in the last five years, and for the largest publisher (Elsevier) always over 37%. Against many comparators, across many sectors, scientific publishing is one of the most consistently profitable industries (Table S1). These financial arrangements make a substantial difference to science budgets. In 2024, 46% of Elsevier revenues and 53% of Taylor & Francis revenues were generated in North America, meaning that North American researchers were charged over US$2.27 billion by just two for-profit publishers. The Canadian research councils and the US National Science Foundation were allocated US$9.3 billion in that year. A figure detailing the drain on researcher time. 1. The four-fold drain 1.2 Time The number of papers published each year is growing faster than the scientific workforce, with the number of papers per researcher almost doubling between 1996 and 2022 (Figure 1A). This reflects the fact that publishers’ commercial desire to publish (sell) more material has aligned well with the competitive prestige culture in which publications help secure jobs, grants, promotions, and awards. To the extent that this growth is driven by a pressure for profit, rather than scholarly imperatives, it distorts the way researchers spend their time. The publishing system depends on unpaid reviewer labour, estimated to be over 130 million unpaid hours annually in 2020 alone (9). Researchers have complained about the demands of peer-review for decades, but the scale of the problem is now worse, with editors reporting widespread difficulties recruiting reviewers. The growth in publications involves not only the authors’ time, but that of academic editors and reviewers who are dealing with so many review demands. Even more seriously, the imperative to produce ever more articles reshapes the nature of scientific inquiry. Evidence across multiple fields shows that more papers result in ‘ossification’, not new ideas (10). It may seem paradoxical that more papers can slow progress until one considers how it affects researchers’ time. While rewards remain tied to volume, prestige, and impact of publications, researchers will be nudged away from riskier, local, interdisciplinary, and long-term work. The result is a treadmill of constant activity with limited progress whereas core scholarly practices – such as reading, reflecting and engaging with others’ contributions – is de-prioritized. What looks like productivity often masks intellectual exhaustion built on a demoralizing, narrowing scientific vision. A table of profit margins across industries. The section of text related to this table is below: 1. The four-fold drain 1.1 Money Currently, academic publishing is dominated by profit-oriented, multinational companies for whom scientific knowledge is a commodity to be sold back to the academic community who created it. The dominant four are Elsevier, Springer Nature, Wiley and Taylor & Francis, which collectively generated over US$7.1 billion in revenue from journal publishing in 2024 alone, and over US$12 billion in profits between 2019 and 2024 (Table 1A). Their profit margins have always been over 30% in the last five years, and for the largest publisher (Elsevier) always over 37%. Against many comparators, across many sectors, scientific publishing is one of the most consistently profitable industries (Table S1). These financial arrangements make a substantial difference to science budgets. In 2024, 46% of Elsevier revenues and 53% of Taylor & Francis revenues were generated in North America, meaning that North American researchers were charged over US$2.27 billion by just two for-profit publishers. The Canadian research councils and the US National Science Foundation were allocated US$9.3 billion in that year. The costs of inaction are plain: wasted public funds, lost researcher time, compromised scientific integrity and eroded public trust. Today, the system rewards commercial publishers first, and science second. Without bold action from the funders we risk continuing to pour resources into a system that prioritizes profit over the advancement of scientific knowledge.
November 11, 2025 at 11:52 AM
Reposted by Yves Clément
jmlafon.bsky.social
Stade de France. Le Petit Cambodge. Le Carillon. Café Bonne Bière. Casa Nostra. Bataclan. La Belle Équipe. Comptoir Voltaire. C’était un vendredi 13, il y a dix ans.
Rassemblement en hommage aux victimes des attentats du 13 novembre à Paris et Saint-Denis, le 22 novembre 2015 sur la place de la République à Paris. afp.com/Loic VENANCE
November 13, 2025 at 6:10 AM
yvesclement.bsky.social
Je ne sais pas ce qui m'agace le plus : ma fille qui refuse de se mettre au lit (à 21h passé) ou ma mère qui range encore des trucs à minuit passé (et que je vais devoir envoyer au lit)
November 12, 2025 at 11:24 PM
Reposted by Yves Clément
mixlamalice.bsky.social
Rapport de l'#IGESR de cette année sur les heures d'enseignement à l'université. #ESR

www.enseignementsup-recherche.gouv.fr/sites/defaul...
www.enseignementsup-recherche.gouv.fr
November 10, 2025 at 5:52 PM
Reposted by Yves Clément
nanoporous.net
Je suis d'accord avec France Universités : « l’annulation du colloque scientifique porte atteinte à la liberté académique ».

Franchement ça me fait tout bizarre d'être d'accord avec France Universités. C'est dire si les pressions de notre ministre (et la décision du CDF) sont inquiétantes.
franceuniversites.bsky.social France Universités @franceuniversites.bsky.social · 4d
France Universités exprime sa vive inquiétude après l’annulation d’un colloque scientifique au Collège de France.
franceuniversites.fr/actualite/fr...
#LibertéAcadémique
November 10, 2025 at 4:24 PM
Reposted by Yves Clément
michaelhoffman.bsky.social
The definitive obituary of James Watson, written by the late, great Sharon Begley @statnews.com www.statnews.com/2025/11/07/j...
James Watson, dead at 97, was a scientific legend and a pariah among his peers
James Watson, the co-discoverer of the structure of DNA who died Thursday at 97, was a scientific legend and a pariah among his peers.
www.statnews.com
November 10, 2025 at 5:51 PM
Reposted by Yves Clément
clauswilke.com
I think I understand how it can be that LLMs are both exceptionally good and quite terrible at programming. It's because there are two entirely different skillsets that we both call "good at programming." LLMs have only one of them.
blog.genesmindsmachines.com/p/llms-excel...
LLMs excel at programming—how can they be so bad at it?
My explanation for the mystery of why LLMs can be both exceptionally good and quite terrible at programming.
blog.genesmindsmachines.com
November 6, 2025 at 3:43 PM