Timothée Lionnet

... curious to see if this one weird trick to recoup tariffs on scientific equipment actually works!
tl;dr the UN Florence agreement says that scientific equipment (under certain conditions) may enter free of duty www.trade.gov/statutory-im...

[Resources]

#AlphaFold protein and PPI prediction databases

1️⃣ Predictomes (genome maintenance & H2A/H2b) predictomes.org

2️⃣ Flypredictome www.flyrnai.org/tools/fly_pr...

3️⃣ Human interactome prodata.swmed.edu/humanPPI

4️⃣ BFVD (viral proteins) bfvd.steineggerlab.workers.dev

1/2

Ancient Siberian ice mummy is covered in 'really special' tattoos Tattoos may have been widespread in prehistory, with scientists discovering a plethora of body art on a pastoralist who died in the 3rd or 4th century BC

Elaborate tattoos of tigers, birds and fantastical animals have been revealed on an ice mummy from over 2000 years ago. 🧪⚒️ #Archaeology #archeology #art

www.newscientist.com/article/2490...

Group Leader - Genome Biology Unit Are you ready to lead groundbreaking research in Genome Biology? Join us at EMBL! We are seeking a motivated scientist to lead an independent research group addressing exciting and original biological...

To all post-docs: The Genome Biology dept ‪@embl.org
has an Independent faculty position. Fantastic place to set up your lab –great package: core funding, fantastic Ph.D. students, cutting edge core facilities & great colleagues. Closing date Sept 19th
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...

a yellow sign that says we 're hiring ALT: a yellow sign that says we 're hiring

Spread the news! We are excited to expand our research team, working on cellular senescence, at the Cancer Research UK Cambridge Institute, University of Cambridge.

jobs.cam.ac.uk/job/52026/
jobs.cam.ac.uk/job/52027/

Nick Drake, Long a Folk Mystery, Is (Partly) Revealed

42 new Nick Drake tracks? More than on the existing three albums. Just reeling.
Gift Article🎁
www.nytimes.com/2025/07/23/a...

And another opportunity! Any postdocs looking forward to start your lab on a tenure track? Supportive environment, great core facilities and an outstanding PhD program.

Informally, the House subcommittee on Labor and HHS (read "includes NIH") had its FY2026 markup scheduled for today, but removed it from the calendar.

It is reported the chair indicated markup will occur in SEPTEMBER. Recall, the fiscal year ends Sept 30.

Looks like a continuing resolution...

This seems like a really important paper comparing chromosome tracing methods, demonstrating that classical denaturing DNA-FISH and chromosome tracing leads to substantial distortion of 3D genome structure, likely due to the high-temperatures involved (70-90C):
www.nature.com/articles/s41...

yep

not too crazy to limit submissions! With school admins expecting a minimum funding level per lab and dismal paylines, I guess the immediate result will be a sharp decrease in MPI grants.

Hitting ‘undruggable’ disease targets – Institute for Protein Design Custom proteins made with AI bind disordered proteins and peptides with atomic precision.

The Baker lab @uwproteindesign.bsky.social did it again 😱

Protein design of IDPs binders

www.ipd.uw.edu/2025/07/hitt...

Enough with this out-of-control grant writing! ...says the NIH. New policy: no more than 6 submissions as PI or MPI per calendar year. Effective for grants received September 2025 and onward grants.nih.gov/grants/guide...

Could AI slow science? Confronting the production-progress paradox

Fabulous post by @randomwalker.bsky.social & Sayash raising the same concern many of us have about whether we're on the right track with how we're using AI for science. Everyone should read it, take a deep breath & think through the implications.

www.aisnakeoil.com/p/could-ai-s...

We found a new asymmetry in the large-scale chromosome structure: sister chromatids are systematically shifted by hundreds of kb in the 5′→3′ direction of their inherited strands! The work was led by Flavia Corsi, in close collaboration with the Daniel Gerlich lab.
www.biorxiv.org/content/10.1...
1/

NIH Plans to Cap Publisher Fees, Dilute “Scientific Elite” Director of the National Institutes of Health says that capping research journals’ open-access fees will help rein in the $19 billion academic publishing industry and bolster scientific debate.

NIH Director say journals "bully scientists into paying large fees".

No. Academia is a prestige economy in which scientific leadership chose to make journals the currency & Gold OA was deemed 'the way'. Publishers just cashed in; you don't have to pay $10K

www.insidehighered.com/news/governm...

New paper:
More than 2700 human 3′UTRs are highly conserved. These 3′UTRs are essential components in mRNA templates, as their deletion decreases protein activity without changing protein abundance. Highly conserved 3′UTRs help the folding of proteins with long IDRs.

www.biorxiv.org/content/10.1...

Excited to share our latest by my postdoc Ben KS: we use statistical physics & Bayesian inference to model genome-wide perturbation outcomes. Remarkably, perturbation responses are encoded in gene "chatter" even before the perturbation–a fundamental insight with broad implications
shorturl.at/2LHbw

congrats Evgeny!

Range extender mediates long-distance enhancer activity - Nature The REX element is associated with long-range enhancer–promoter interactions.

Our paper describing the Range Extender element which is required and sufficient for long-range enhancer activation at the Shh locus is now available at @nature.com. Congrats to @gracebower.bsky.social who led the study. Below is a brief summary of the main findings www.nature.com/articles/s41... 1/

How to represent genomes in 3D?

In this paper (and video), we propose Geometric Diagrams of Genomes (GDG)—a visual grammar that aims at emulating the effect ribbon diagrams (Richardson et al 1981) had in protein structural biology. Time will tell.😅

👉🏼 genomebiology.biomedcentral.com/articles/10....

This is the paper I gave to historians about “AI” last week. I was at Queen Mary University in London last week at a charming conference that turned out to be mainly about modern British history. I…

This is a really thoughtful piece from @davehitchcock.bsky.social on the threat that AI presents to history and historians alike:

cavatappi all the way! but add orrechiette and linguine, and you have the perfect trilogy.

This looks like quite something!

Inspired by visits to Woods Hole @mblscience.bsky.social and Roscoff, we hope to welcome folks in #SunnyBergen to foster exchange and spark discoveries in Marine Life Sciences.

So important! Please contact your Republican senators, especially Sen. Susan Collins (R-ME), Sen. Shelley Moore Capito (R-WV), Sen. Bill Cassidy (R-LA), Sen. Katie Britt (R-AL), and Sen. Dave McCormick (R-PA). 🙏 amplify!

The current administration has more successfully destroyed US science and the scientific enterprise than the hypothetical nuclear weapons program in Iran.

In vivo mapping of mutagenesis sensitivity of human enhancers - Nature Human enhancers contain a high density of sequence features that are required for their normal in vivo function.

In vivo mapping of mutagenesis sensitivity of human enhancers

www.nature.com/articles/s41...

A checklist for designing and improving the visualization of scientific data Nature Cell Biology - Creating clear and engaging scientific figures is crucial to communicate complex data. In this Comment, I condense principles from design, visual perception and data...

I gave in! After students asking for it, I now made a simple figure design checklist.
To help all scientists w/o graphic skills create clear, accessible, and truthful charts!
-> Out in @nature Cell Biology: rdcu.be/erwl4

#DataVisualization #PhD #SciComm

Thx for review @bethcimini.bsky.social + 2

What are good places to deposit mammalian cell lines you want to share as open-source? (for an NIH grant/project)