Looking forward to present our work on predicting protein side-chain rotamer distributions with AlphaFold2 Monday 8:30 at #bps0226 But you should also consider instead going to the The Future of Biophysics Symposium at 9:15 to hear Giulio Tesei talk about his work on data-driven modelling of IDPs

Very interesting Would be good to adopt these method for other E3s

Happy to share our newest preprint on Parkin missense variants in work led by Erna Sol & @vvouts.bsky.social in @rhp-lab.bsky.social Using a multiplexed assay we determined the effects of 9,212 out of 9,300 single amino acid substitutions and nonsense Parkin variants. 1/n doi.org/10.64898/202...

The fitness landscapes of binders targeting protein surfaces that are evolutionarily predisposed to engage in PPIs is much narrower and deeper than those that target surfaces with no known interacting proteins. This might be b/c random binding events is bad, and selected against

The campus at @au.dk is very pretty, also in the snow

Happy to share our newest preprint on Parkin missense variants in work led by Erna Sol & @vvouts.bsky.social in @rhp-lab.bsky.social Using a multiplexed assay we determined the effects of 9,212 out of 9,300 single amino acid substitutions and nonsense Parkin variants. 1/n doi.org/10.64898/202...

Roses are red Violets are blue If you fall in love with your hypothesis You’ll be biased to prove it true 🧪

tomato

Yeast ubiquilin Dsk2 scaffolds proteasome-containing condensates under stress via multivalent interactions – @castanedalab.bsky.social et al show how dynamic interactions among its STI1 domain & transient helices in its disordered region promote its phase-separation link.springer.com/article/10.1...

On this International Day of Women and Girls in Science I (as in previous years) take an Implicit Association Test to remind myself of my potential biases and with the goal of remembering to take them into account You too can do this at: implicit.harvard.edu/implicit/

And a new paper from the lab. A follow up to a previous study in which we elucidate the mechanism of the nuclear transport. Read the full story: www.nature.com/articles/s41...

Isomorphic Labs Drug Design Engine (IsoDDE), a unified computational drug-design system Announcement: www.isomorphiclabs.com/articles/the... Report: storage.googleapis.com/isomorphicla...

Really excited to share the latest work from my PhD with @giuliotesei.bsky.social and @lindorfflarsen.bsky.social!

It was a pleasure to write the review on the role of phase separation in transcription together with you, @bsabari.bsky.social, Mikayla and Ambuja. I learnt a lot!

A near-complete map of human cytosolic degrons and their relevance for disease We measured degron potency of >200,000 30-residue tiles from >5,000 human proteins, and trained a model to predict degrons from sequence Led by @vvouts.bsky.social in @rhp-lab.bsky.social doi.org/10.1126/scia...

I am excited to share a new review @cp-molcell.bsky.social written in collaboration with @tanjamittag.bsky.social , Mikayla Eppert, and Ambuja Navalkar where we review the current evidence for and against the role of density transitions in regulating transcription www.cell.com/molecular-ce...

New preprint with work led by @asrauh.bsky.social in which we explore how double mutant cycles could be used to study molecular interactions in condensates, and highlight difficulties in extracting information about interactions from mutational experiments www.biorxiv.org/content/10.6...

New preprint with work led by @asrauh.bsky.social in which we explore how double mutant cycles could be used to study molecular interactions in condensates, and highlight difficulties in extracting information about interactions from mutational experiments www.biorxiv.org/content/10.6...

Now on bioRxiv: genome‑wide CRISPR KO reveals BAG6 (chaperone) and RNF126 (E3) as core PQC for non‑native missense proteins. VAMP seq. shows >1000 Parkin variants are BAG6 targets, including known pathogenic variants. Work led by Line Pedersen. Collab with @lindorfflarsen.bsky.social

Check out our newest preprint on how the chaperone BAG6 and E3 ligase RNF126 cooperate to target unstable and misfolded missense variants for degradation. Work led by Line Pedersen in @rhp-lab.bsky.social doi.org/10.64898/202...

Looking forward to speak tomorrow at the AI & SIMULATION workshop organized by @smnlssn.bsky.social & @giovannivolpe.bsky.social at University of Gothenburg & Chalmers What better way of introducing the importance of protein disorder than by talking about this fellow

AI hallucinations in science manuscripts are a nuisance. Paranormal citations, or paracites, will be a nightmare. www.biorxiv.org/content/10.6... (w/ @sina.bio & @lauraluebbert.com).

Peer review is often opaque and confusing. @elife.bsky.social worked to change that. In a new preprint, we show how eLife’s Publish, Review, Curate model makes it possible to evaluate AI-generated reviews (with OpenEval) against human peer review. w/ @lauraluebbert.com and @lpachter.bsky.social

We could have this for biology if we hadnt collectively decided to spend ~10 Mio dollars per year on BioRender instead 😢

PaperBanana: Automating Academic Illustration for AI Scientists doi.org/10.48550/arX... dwzhu-pku.github.io/PaperBanana/

Wandering down the rabbit hole of journals published in constructed languages, are there chemistry articles in Esperanto? Klingon? #chemSky

Looking forward to read this from @bonomimax.bsky.social Learning Dynamic Protein Representations at Scale with Distograms www.biorxiv.org/content/10.6...

Does targeting enzymes and substrates in a condensate lead to rate enhancement? No. Here, we investigate how the condensate environment can inhibit an enzyme reaction. Spoiler: Mass-transport limitations. We find a strong correlation between diffusion and reaction rates. doi.org/10.64898/202...

1️⃣4️⃣ Don't mention gene patenting to Steven Henikoff. If you really insist, here's what will happen. www.nature.com/articles/358...

New lab preprint - Common and rare variant studies for the same trait identify different genes and here Diederik Laman Trip developed a protein network AI enconding to investigate if traits studied by different approaches converge on the same molecular pathways www.biorxiv.org/content/10.6...

New preprint led by Fan Cao & Giulio Tesei We present a data-driven “stickiness” scale for amino acids in intrinsically disordered proteins 🍝, learned from SAXS data on 115 proteins. The scale captures effective residue interactions without conflating size and strength doi.org/10.64898/202...

We’re happy to share our 2025 Annual Report! A year of "momentum and connections"! ➡️ zenodo.org/records/1833... #AnnualReport #GlobalAlliance #FunctionalGenomics #VariantEffect #Community

Shaping the future of biomolecular simulations in 2026! 🔬🚀 BioExcel’s Spring School, Summer School & Conference are now open for registration. @bioexcelcoe.bsky.social 👉 bioexcel.eu/training-and... Watch last year’s Summer School video below 📽️

For those of us who are living with the anxiety that we don't have what it takes to get it over the line, today was a day which feeds right into that. We're still top, we still have a decent lead, but in the league we're under-performing and that has to be put right ASAP. Otherwise ... 😑

Just re-read the wonderful "How to write consistently boring scientific literature" As important as ever with the increasing amount of homogeneous AI-generated/inspired text doi.org/10.1111/j.00...

Integrative structural biology by the sea The Jan 31st deadline for our FEBS advanced course on integrative structural biology is getting closer, so get your applications in for Lost In Integrative Vol. 2 probingbiomolecules2026.febsevents.org network.febs.org/posts/integr...

Looking for something to read over the weekend? Our review on computational design of intrinsically disordered proteins is now published in final form 🍝 With @giuliotesei.bsky.social & @fpesce.bsky.social doi.org/10.1016/j.sb...

Sampling IDPs is tough, but can be worth the effort! OPES multithermal made it a little easier for us, hopefully you'll find it useful as well

I am recruiting postdoctoral fellows to develop new research directions in the lab. We study transcriptional regulation through biomolecular condensates in development and disease, with an emphasis on first-principles and mechanistic discovery. Please repost or share with colleagues.

New preprint with @invemichele.bsky.social, Sandro Bottaro, Kamil Tamiola, and @lindorfflarsen.bsky.social on transiently structured states of IDPs sampled in atomistic simulations with enhanced sampling and integrated with experimental data.

Third preprint of the year is from @julianstreit.bsky.social who, with our collaborators at Peptone, show that multithermal On-the-fly Probability Enhanced Sampling (OPES) enables efficient generation of atomistic ensembles for disordered peptides and proteins 🍝 www.biorxiv.org/content/10.6...

Third preprint of the year is about all-atom simulations of IDPs, but you will have to wait until it gets screened at bioRxiv (*) to see this one from @julianstreit.bsky.social * Amazing side effect of preprinting is that waiting a few days between submission and publication seems like a long time

A rule even known to biology

Another day, another paper describing an ML method for generating conformational ensembles without comparison to any experimental data 😩

Annika raises many good points about the challenges with (not) “just putting the slides online”

Particularly of interest to people who want to do protein design in an academic environment w/ many colleagues in basic science (cancer biology, cell signaling, immunology, virology) & clinicians who can drive the discovery of new targets for hard-to-treat diseases & bring therapeutics to patients.

Last preprint of 2025 was work led by Ikki Yasuda on the molecular interactions underlying selective partitioning of TF clients into MED1 and FUS condensates using coarse-grained simulations (and some theory) doi.org/10.64898/202...

New preprint! Led by @sarahgersing.bsky.social we map how 7,500+ variants in glucokinase (GCK) affect binding to GKRP and disentangle this from stability. We now have activity, abundance, and interaction scores for 7,128 GCK variants - a resource for understanding phenotypes and glucose homeostasis.

Second preprint of the year in which @sarahgersing.bsky.social from @rhp-lab.bsky.social mapped the effects of >7500 variants in glucokinase (GCK) on the interaction with the glucokinase regulatory protein so that we now have a 3D GCK scan (abundance, interaction, activity) doi.org/10.64898/202...

First preprint of the year, led by Junjie Zhu from Haifeng Chen’s lab Extending Conformational Ensemble Prediction to Multidomain Proteins and Protein Complex doi.org/10.64898/202...