Single-molecule peptide sequencing through reverse translation of peptides into DNA - @bioe-stanford.bsky.social go.nature.com/4sRPr2K

This is who runs this account

pdb101.rcsb.org/motm/314 histones outside of the eukaryotic domain are the 'molecule of the month'! nice!

WE ARE #HIRING: [reposting=👌 🙏 ] 2 funded positions for #nanopore related projects @unibas.ch 🇨🇭: 1️⃣ #PhD Candidate in Single-Molecule Biophysics using Nanopore Trapping. 2️⃣ #PhD Candidate in Microplastic Detection Using Micropores and Microfluidics. More info: schmid.chemie.unibas.ch/en/join-us-1/

Our latest cotranslational folding story is now published @cp-molcell.bsky.social. Really cool (I think) new ideas about how exactly the ribosome directs folding and assembly to make sure complicated proteins mature efficiently in cells. www.cell.com/molecular-ce...

Perceptions can be often misleading

Latest #CDlab paper on nanopore protein sequencing now published in JACS: pubs.acs.org/doi/full/10.... Here, Justas Ritmejeris, Xiuqi Chen, collaborator Bauke Albada, and me developed a conjugation chemistry strategy for nanopore sequencing of natural peptides!

Can we design mutations that bias proteins towards desired conformational states? Today in @science.org, we introduce Conformational Biasing (CB), a simple and scalable computational method that uses contrastive scoring by inverse folding models to identify conformation-biasing mutations.

Giving the gift of negative data 🥰 Since I joined @lsajournal.org I have handled several stellar manuscripts that report null results. These papers do very well and reviewers almost always appreciate them! Thanks @rockefeller.edu news team for the article! www.rockefeller.edu/news/38829-t...

Quite unhinged format 🤯

A major output of the 4D Nucleome project appeared today. This is the joint effort of many scientists working together and (publicly) sharing data and results for several years. We hope this is of interest to many genome biologists! www.nature.com/articles/s41...

Latest #CDlab paper on nanopore protein sequencing on @biorxivpreprint.bsky.social: www.biorxiv.org/cgi/content/... Here, Justas Ritmejeris, @xiuqichen.bsky.social, collaborator @albadalab.bsky.social and me developed a conjugation chemistry strategy for nanopore sequencing of natural peptides!

I recently wrote a 1page "Highlight" article for the Swiss Journal @chimiajournal.bsky.social about the #single-molecule perspective on biomolecular dynamics and experiments: Beyond 3D Structures: New Ways to Study Biomolecular Gymnastics www.chimia.ch/chimia/artic...

#paperalert Very happy to share our new paper in Chemical Science @chemicalscience.rsc.org Great work by Yuri Damen (now at BioChem in Oss), @joresfu.bsky.social, Judith Firet, and Han Zuilhof @w-u-r.bsky.social Especially for those of you who use strained alkynes in their click reactions!

I am thrilled with the news that our ERC Synergy proposal GeneMotors was granted!! This prestigious grant allows Leonid Mirny (MIT), Wendy Bickmore (Edinburgh), Benjamin Rowland (NKI) and me to study the DNA-looping SMC motors proteins that control our chromosomes in the next 6 years

Lab’s first paper is out!! We show the first structures of #Asgard #chromatin by #cryo-EM 🧬❄️ Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...

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Results from Nature’s 2025 global survey of more than 3,700 doctoral students: Supervisors who make a conscious effort to support and mentor their PhD candidates have more-satisfied students www.nature.com/articles/d41...

Check out our paper from @christ3na.bsky.social in G+D. DIO3, which degrades thyroid hormone/TH, is expressed in progenitors and turns off in neurons. As the progenitor:neuron ratio decreases, DIO3 decreases and TH increases, triggering photoreceptor generation. genesdev.cshlp.org/content/earl...

How do SMC complexes load onto DNA to get ready for loop extrusion? @roisnehamelinf.bsky.social & co discovered that Wadjet, an SMC complex involved in bacterial DNA immunity, performs some impressive molecular gymnastics 🤸‍♂️🤸‍♂️🤸‍♂️. Check out the new paper: www.cell.com/molecular-ce...

Next week GIIN webinar will feature @fmattiroli.bsky.social and Marco Tigano. Join us on Tuesday, October 7th at 5 PM Rome / 11 AM NYC via zoom: uniroma1.zoom.us/j/95149984403 Register here to become part of our community: docs.google.com/forms/d/e/1F...

Join us at the Hubrecht Institute in Utrecht to start your research group! Fantastic scientific environment, strong support, and nice colleagues :) Apply and please share broadly in your network.

Now published! Phosphorylation patterns modulate transient secondary structures of the intrinsically disordered CTD of RNA polymerase II www.sciencedirect.com/science/arti...

ICYMI: New online: The human ribosome modulates multidomain protein biogenesis by delaying cotranslational domain docking

We're super excited to announce the entire lineup for the Fall season of Fragile Nucleosome Seminars, starting on Sept 10th at 1200 EDT / 1600 UTC with @gracebower.bsky.social and @creminslab.bsky.social! register here for the entire series: us06web.zoom.us/webinar/regi...

💥 We have 3 positions open in my lab in Basel, Switzerland🇨🇭: #nanopores #smFRET #biomolecular #dynamics #singleMolecules We’re looking for talented & ambitious new colleagues enthusiastic about biomolecular dynamics & single-molecule tech. Please share broadly, thank you!🤝 schmid.chemie.unibas.ch

Open position in @ceesdekker.bsky.social lab! Apply if you are interested in nanopore sequencing!

Come join us!

Building a synthetic cell together - nice common perspective written by many leading scientists who gathered in Shenzhen China for the inaugural ‘SynCell Global Summit’. Check it out in Nature Comm: www.nature.com/articles/s41...

🏖️Back from an amazing vacation in 🌴Sanya🐟. Refreshed and recharged, ready to dive back to research!

Telomeres stall DNA loop extrusion by condensin

🤔 How do proteins fold while they're still being made? As the main project in my PhD, I developed "Arrest Peptide Profiling" to record proteins folding with as they emerge from ribosomes in living cells 🦠 - with single codon resolution! @natcomms.nature.com‬ 🧵 1/6 #ProteinFolding

Really appreciate your support on this project @ceesdekker.bsky.social ! Excited to make new discoveries!

New online: Q&A with Francesca Mattiroli

Today in the journal Science: BioEmu from Microsoft Research AI for Science. This generative deep learning method emulates protein equilibrium ensembles – key for understanding protein function at scale. www.science.org/doi/10.1126/...

Here's a new very exciting paper from our #CDlab: www.cell.com/cell-reports... In an exemplary in vitro/in vivo study, 1st authors ‪@btanalikwu.bsky.social‬ & Alice Deshayes showed that dense linear protein arrays (e.g. telomeres) do stop loop-extruding SMCs! Great collaboration with Marcand lab.

The energy landscape of a single disordered protein (tau) and the impact of PTMs is resolved. An important step to understanding the function and dysfunction of disordered proteins from their conformational ensemble. Not yet peer reviewed. www.biorxiv.org/content/10.1...

“Research assistants, local collaborators & community partners, esp those from the Global South, are often seen as data collectors rather than co-creators of knowledge” A great piece on inclusive authorship & the need for flexibility @lseimpactblog.bsky.social blogs.lse.ac.uk/impactofsoci...

🧵5 Top Free Alternatives to BioRender for Scientific Illustrations! These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs. Save and share the post!

Want to learn more about chromatin and its dynamics? Read this review by Charlotte and Jolijn in our lab, aimed at giving an overview on this and the ways this is dealt with during transcription, replication and damage repair. Thanks to Biochemistry for inviting us! doi.org/10.1021/acs....

Preprint on hifiasm Nanopore-only assembly. Led by Haoyu Cheng: www.biorxiv.org/content/10.1...

Excited to share our preprint on the molecular architecture of heterochromatin in human cells 🧬🔬w/ @jpkreysing.bsky.social, @johannesbetz.bsky.social, @marinalusic.bsky.social, Turoňová lab, @hummerlab.bsky.social @becklab.bsky.social @mpibp.bsky.social 🔗 Preprint here tinyurl.com/3a74uanv

MINFLUX works well in theory, but system and sample imperfections can lead to suboptimal resolution. To address this, @jonasries.bsky.social and I developed SimuFLUX: www.biorxiv.org/content/10.1..., a realistic simulator to optimize MINFLUX experiments before samples go on the microscope.

The latest discovery from the lab and great colleagues at McMaster and U Illinois, Chicago. Lariocidin, a new lasso peptide antibiotic that inhibits the ribosome. rdcu.be/efdha

I'm super happy that our story is now published! 📖 www.science.org/doi/10.1126/... But what changed compared to the original preprint? Also, I feel i should post Movie 1 🎥, that inspired the cover. Back when I did the original bluesky thread, movies were not available.

A horse’s gallop was once a blur—until film revealed its rhythm. Sonja Schmid (@scisonja.bsky.social) draws a parallel to biomolecules: only by observing them one at a time can we understand their dynamics. Her team is developing a method using nanopores that let single molecules pass through.

If you're critical of the US government and you are planning to cross the US border any time soon, today is a good day to review EFF's border search pocket guide: www.eff.org/document/eff...

Out now! Our latest paper where we show a "one-pot" labelling technique which allows for simultaneous mechanical and fluorescent readouts from a protein (Hsp90): onlinelibrary.wiley.com/doi/10.1002/... Congratulations to everyone who worked on this, especially Laura!