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lindorfflarsen.bsky.social
Protein and coffee lover, father of two, professor of biophysics and sudo scientist at the Linderstrøm-Lang Centre for Protein Science, University of Copenhagen 🇩🇰
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You can still sign up for this anniversary symposium. And if you’re a former sbinner (MSc, PhD, PD) and haven’t received an invitation email to the celebration party please drop an email to Birthe Kragelund, Kaare Teilum, Pétur Heiðarsson, Caspar Christensen or myself. We look forward to seeing you

submitted 16 hours ago • 0 comments

So, how many genetic diseases come down to good ol’ loss-of-function in the targeted protein? Your estimate is probably too high:

submitted 3 days ago • 4 comments

Predicting macromolecular ensembles is incredibly promising. However, as no single experimental method can map a conformational ensemble’s full atomistic landscape, there are foundational questions: What exactly are we trying to predict, and how will we know when we have succeeded?

submitted 4 days ago • 2 comments

Join our interdisciplinary team developing computational approaches to understand and engineer biomolecular condensates. We’re looking for a postdoc—please apply or share with interested persons! 👩🏽‍💻💧🧬 puwebp.princeton.edu/AcadHire/app...

submitted 5 days ago • 0 comments

While this paper looks interesting, let me just say (again) that (essentially all) NMR ensembles in the PDB are NOT thermodynamic ensembles or meant to represent these. They are "uncertainty ensembles" and using them to benchmark machine learning (or other) models of dynamics is not a good idea.

submitted 6 days ago • 9 comments

Presenting one of my favorite manuscripts I've ever worked on: "Characterizing structural and kinetic ensembles of intrinsically disordered proteins using writhe" www.biorxiv.org/content/10.1... by Tommy Sisk, with a generative modeling component done in collaboration with @smnlssn.bsky.social

submitted 10 days ago • 1 comment

Results from CASP16 on predicting conformational ensembles of 2 domain-linker-domain constructs. Happy to see that CALVADOS 3 and our two rescaled versions of Martini do well in matching SAXS data in blind tests. But the results also show that lots remain to be done in modelling domain orientations

submitted 11 days ago • 0 comments

Current mood

submitted 11 days ago • 0 comments

Thanks to Villum Fonden for supporting the establishment of a quantum PhD programme based on a collaboration between the University of Copenhagen’s Quantum Hub and DTU’s Quantum DTU

submitted 11 days ago • 1 comment

"De novo prediction of protein structural dynamics" I'll be presenting an overview of the field tomorrow at a workshop. Link to a PDF copy of the presentation: delalamo.xyz/assets/post_...

submitted 13 days ago • 5 comments

Putting together teaching material for a Medical Data Understanding course, and while looking up early medical informatics, I found out about this absolute legend. Apart from initiating what is now MEDLINE (Index Medicus), he also had an assistant, Hollerith…

submitted 14 days ago • 1 comment

I am excited to share the latest paper from my lab where we leverage the selection bias of condensate-promoting oncofusions to uncover molecular rules governing condensate specificity and function. www.cell.com/cell/fulltex....

submitted 15 days ago • 5 comments

A Perspective by @stephanieaw.bsky.social and @fraserlab.com discusses ways macromolecules use conformational entropy to control binding, catalysis, and allostery www.nature.com/articles/s41...

submitted 15 days ago • 0 comments

The Structural Biology and NMR Laboratory—or SBiNLab as we call it—is turning 25 🎉🧲🇩🇰 We're celebrating with a symposium on Aug. 23 that is free and open to all Great speakers incl. Ad Bax, Frauke Gräter, Harald Schwalbe, Sarah Shammas, Mikael Akke & alumni! Join us: www1.bio.ku.dk/english/rese...

submitted 15 days ago • 1 comment

Mutational Scanning helps guide precision medicine! But how does it work? 🤔 Check out this Introduction to Deep Mutational Scanning (Animation) @uwgenome.bsky.social www.youtube.com/watch?v=NRKj...

submitted 16 days ago • 0 comments

With my colleague @pierrepo.bsky.social , we have an open position related to the @lumen-eu.bsky.social project If you are interested by rendering MD data more FAIR and co-developing new discovery platform for MD and beyond please apply: en: emploi.cnrs.fr/Offres/CDD/U...

submitted 17 days ago • 0 comments

New paper out in Genome Biology! 🎉 We lay out best-practice guidelines for releasing variant effect predictors, developed through the Atlas of Variant Effects Alliance @varianteffect.bsky.social Open, interpretable, and clinically useful VEPs are the goal. 📄 doi.org/10.1186/s130...

submitted 25 days ago • 2 comments

Are there countries that use a more confusing grading scale than Denmark? ufm.dk/en/education...

submitted 19 days ago • 2 comments

It’s always coffee time

submitted 22 days ago • 0 comments

Backbone predictions are great - but what about side chains? Me and @emilthomasen.bsky.social are happy to present AF2χ, a tool for predicting side-chain heterogeneity in protein structures!. If you want to read more about it, check out our preprint and localColabFold implementation!

submitted 23 days ago • 1 comment

AlphaFold is amazing but gives you static structures 🧊 In a fantastic teamwork, @mcagiada.bsky.social and @emilthomasen.bsky.social developed AF2χ to generate conformational ensembles representing side-chain dynamics using AF2 💃 Code: github.com/KULL-Centre/... Colab: github.com/matteo-cagia...

submitted 23 days ago • 3 comments

Happy to share a walkthrough of the applications of our package for simulations using CALVADOS! Big thanks to @sobuelow.bsky.social, @lindorfflarsen.bsky.social, and the whole team for making this possible. Thrilled to mark this as my first last-author paper!

submitted 25 days ago • 0 comments

Do you like CALVADOS but are not quite sure how to make it? We’ve got your back! @sobuelow.bsky.social & @giuliotesei.bsky.social—together with the rest of the team—describe our software for simulations using the CALVADOS models incl. recipes for several applications. 1/5 doi.org/10.48550/arX...

submitted 25 days ago • 2 comments