iiinova — where your digital self keeps evolving

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 08/09/2026

In 2017 I co-organized a BPS thematic meeting on Conformational Ensembles from Experimental Data and Computer Simulations We're back in Berlin Aug 2027 with Biomolecular Dynamics: Integrating Experiments and Computation with a great line-up (to be revealed soon) www.biophysics.org/upcoming-the...

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 15/05/2026

Why is it so difficult to predict accurate mutational effects on protein stability? We explored the contribution from changes in native state configurational entropy in this paper, which also happens to be the last from my PhD. A short thread of why this matters. 1/n doi.org/10.48550/arX...

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 18/03/2026

Proud and honoured to receive the Novo Nordisk Foundation’s Prize for Natural Science Teachers together with Birthe Kragelund and Karen Skriver Teaching takes a village, and I owe many many thanks to amazing colleagues, students, and collaborators over the years science.ku.dk/english/pres...

science.ku.dk

BIO team receives Novo Nordisk Foundation Prize

Birthe B. Kragelund, Karen Skriver, and Kresten Lindorff-Larsen has worked to strengthen the natural science teaching for years. They're now being awarded The Novo Nordisk Foundation’s Prize for Natur...

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 16/03/2026

We are hiring a postdoc in computational biophysics and machine learning studies of intrinsically disordered proteins We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social tinyurl.com/REWIRE-PD

Postdoc position:Computational Biophysics of Disordered Proteins, Lindorff-Larsen group, University of Copenhagen, Denmark

https://tinyurl.com/REWIRE-PD
Deadline May 3rd, 2026

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Justin Lemkul @justinlemkulvt.bsky.social · 26/02/2026

We had a great time at BPS 2026! Sad to conclude my time on the Theory & Comp subgroup committee but I enjoyed that service and made new friends along the way. Until Philly in 2027!

Image of the Lemkul lab members at BPS 2026. From left: Justin Lemkul, Esmat Mohammadi, Ashley Goodberlet, Patrick Gilles (back), and Rakshitha Hosahalli.

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darcy-davidson.bsky.social @darcy-davidson.bsky.social · 14/02/2026

Stand up for science on March 7th! @standupforscience.bsky.social If we don’t stand up no one will

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Brian Ratnasinghe @brianrat.bsky.social · 12/02/2026

Why did my airbnb host throw out my meal prep? I am now hangry trying to analyze MD simulations -_-

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 17/12/2025

The Martini globe. The lipids of the globe are coloured by their continent based on the tectonic plates. The Kingdom of Denmark is coloured dark red. By @fabianschuhmann.bsky.social @cg-martini.bsky.social @weria-lab.bsky.social et al in doi.org/10.1021/acs....

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Brian Ratnasinghe @brianrat.bsky.social · 02/12/2025

Hello EMBO attendees, y'all should come check out my poster on Wednesday at position 157. This time my poster will be about my primary PhD project wherein I am parameterizing a meso scale force field for plant cell walls. It's a fun project and I'm looking forward to talking to y'all about it.

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Dr. Fiona @fionachembot.bsky.social · 17/11/2025

Are you a postdoc stuck in the US?! Is your research stalled or are you in any way affected by the whims of that unfettered madman? Interested in MD simulations of large biomolecules?! Consider joining me at the University of Freiburg! uni-freiburg.de/frias/call-f...

uni-freiburg.de

Call for Applications: Early Career Rescue Fellowship – Freiburg Institute for Advanced Studies

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Justin Lemkul @justinlemkulvt.bsky.social · 06/11/2025

Excited to share a new update to the Drude polarizable force field - phosphorylated amino acids! A long-term project that took quite a bit of effort. Great work with PhD student Laura Gil Pineda, former undergrad Candace Miller, and @alexmackerell.bsky.social authors.elsevier.com/a/1m2md1SPTB...

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Weria Pezeshkian @weria-lab.bsky.social · 27/10/2025

the Martini Pumpkin by my PhD student Isabell Lindahl. Too much fat though! TS2CG, Martini3, Martini @cg-martini.bsky.social

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Anna Duncan @drannaduncan.bsky.social · 15/10/2025

Registration now open for the '3rd Annual Danish Workshop on Advanced Molecular Simulation' Join us in beautiful Aarhus for a 2-day workshop on biomolecular simulations! 9-10 December 2025 Link for registration: aias.au.dk/events/show/...

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Weria Pezeshkian @weria-lab.bsky.social · 15/10/2025

The 3rd Annual Danish Workshop on Advanced Molecular Simulation. This time in Aarhus

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Weria Pezeshkian @weria-lab.bsky.social · 18/09/2025

A new preprint from my group by my PhD student Adria: No attraction between proteins, they do not induce curvature, but they cluster on membranes. One of the reasons why mesoscale modeling matters. www.biorxiv.org/content/10.1...

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 06/08/2025

If you’re interested in learning more about protein folding and misfolding, I’ve created a convenient reading list with a few essential papers: scholar.google.com/citations?us... scholar.google.com/citations?us...

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Brian Ratnasinghe @brianrat.bsky.social · 01/07/2025

Hey y'all, If any of you are at EBSA this year come check out my poster. You can find my poster at position 332 on Thursday. This year my poster is about the parameterization of meso scale force field for wood cell wall simulations. It's a fun topic, so def swing by if you're interested.

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 25/06/2025

New €94M research centre for protein design will open at the University of Copenhagen and be led by Dek Woolfson Funded by the Novo Nordisk Foundation, the centre will operate across the Departments of Biology and & Drug Design and Pharmacology novonordiskfonden.dk/en/news/new-...

novonordiskfonden.dk

New Danish research centre to make designed proteins with vast potential - Novo Nordisk Fonden

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Brian Ratnasinghe @brianrat.bsky.social · 28/05/2025

Bobo bleps when she sleeps, but doesn't realize she's blepping when she wakes up. It's amazing

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Alex Wild @alexwild.bsky.social · 24/05/2025

This EO is a lot of words for a rule that basically says, political appointees will overrule scientists in deciding what the government considers factual information.

whitehouse.gov

Restoring Gold Standard Science

By the authority vested in me as President by the Constitution and the laws of the United States of America, including section 7301 of title 5, United

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Richard Castillo, PhD, FAAPM @rcmedphys.bsky.social · 25/05/2025

As of yesterday using publicly available data via Grant Watch grant-watch.us/nih-data.html: 05/24/2025 word cloud depicting 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants. @standupforscience.bsky.social @altnih4science.bsky.social

May 24, 2025 word cloud of 165 unique words or phrases, flagged 10904 times, within 2118 terminated NIH grants.

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Stand Up for Science! @standupforscience.net · 17/05/2025

🚨URGENT RESPONSE CALL🚨 🌪️23 LIVES WERE LOST OVERNIGHT AS TORNADOS HIT KY. KY has one of several regions in the US without 24/7 National Weather Service coverage, due to DOGE cuts. W/out overnight monitoring, ppl don't receive weather warnings. THIS is how science cuts cost lives. shorturl.at/JgTjU

weku.org

Multiple deaths reported in Somerset and London due to late night tornadoes UPDATED

The towns of Somerset and London have been hit particularly hard with many homes and buildings damaged in the early morning hours.

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Needhi Bhalla 💅🏽 @needhibhalla.bsky.social · 13/05/2025

"Women are PIs on 58% of the canceled grants, although they are PIs on only 34% of all active NSF grants. Similarly, Blacks are PIs on 17% of the terminated grants, although they make only 4% of the total pool. Hispanic PIs and those with disabilities were twice as likely to lose a grant."

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Michael Baym @baym.lol · 14/05/2025

Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminated for reasons not related to the content of the science, or any actions taken by me or members of my lab

A screenshot of the termination notice showing "Outstanding Investigator Grants"

A screenshot of the termination notice with "This award is terminated effective the date of this award, due to unsafe antisemitic actions that suggest the institution lacks concern for the safety and wellbeing of Jewish students." highlighted

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MDDB @mddbeu.bsky.social · 08/05/2025

Join us to explore how #MolecularDynamics simulations support and accelerate drug discovery! 🗓️ Sep 29 - Oct 1 📍 Montelino (PG), Umbria, Italy Read more and register ➡️ bit.ly/3GFShFs #MDDB #DrugDiscovery #FAIRdata #OpenScience

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Victor Ray @victorerikray.bsky.social · 24/04/2025

They are segregationist and this will be open season for discrimination. “the Attorney General shall initiate appropriate action to repeal or amend the implementing regulations for Title VI of the Civil Rights Act of 1964 for all agencies to the extent they contemplate disparate-impact liability”

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Dr. Jessica M. DeWitt @jessicamdewitt.bsky.social · 14/04/2025

I just attended a conference in the US. We had one speaker detained and two others turned away at the border.

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Brian Ratnasinghe @brianrat.bsky.social · 12/04/2025

The other week I tried to order a thy tuborg and got 5 tuborgs. Turns out I don't know how to pronounce thy

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MDDB @mddbeu.bsky.social · 04/04/2025

📢 Our article calling for a #FAIR database for #MolecularDynamics simulation data has now been peer-reviewed and published in @naturemethods.bsky.social 📖 Read it here: rdcu.be/ef6YX 📝 Support the statement: bit.ly/3zVS3qm #MDDB #FAIRdata #collaboration

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Drew Harwell @drewharwell.com · 26/03/2025

Homeland Security secretary Kristi Noem making content in front of the imprisoned men of El Salvador's notorious Terrorism Confinement Center mega-prison www.washingtonpost.com/technology/2...

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Krassensteins @krassenstein.bsky.social · 23/03/2025

BREAKING: People are being suspended on X in Turkey for posting videos of these protests against Erdoğan’s corrupt and repressive regime. Keep sharing everywhere.

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Rommie Amaro @rommieamaro.bsky.social · 14/03/2025

interesting preprint from Weria Pezeshkian on general material properties of membranes Lateral tension can lead to membrane neck constriction at low tension & dilation at high tensions relevant to nuclear pores, ER, mitochondria, Golgi etc www.biorxiv.org/content/10.1...

Visualisation of the necks‘ behaviour for six (right) necks in PBC at bending rigidity of 𝜅 = 10 𝑘𝐵𝑇. This illustrates a second transition point or region in the six-neck-system, facilitated by successive dilation of more than one neck.

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John Trant @trantteam.bsky.social · 13/03/2025

Share with US students who had their offers of admission withdrawn for PhD programs: Apply to Canada. Check out Canadian professors, and contact us. Our system works differently here, and we are all still, technically, able to accept students for Fall 2025.

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openRxiv @openrxiv.bsky.social · 11/03/2025

openRxiv has arrived! We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences. openrxiv.org/introducing-... #openRxiv #OpenScience #Preprints #bioRxiv #medRxiv

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 09/03/2025

Come to Denmark 🥚

Lots of eggs. A package with 10 Organic eggs for 37kr ($6)

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Brian Ratnasinghe @brianrat.bsky.social · 04/03/2025

I think major biochem because you don't really need to be that good at CS to do the stuff we do

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Brian Ratnasinghe @brianrat.bsky.social · 02/03/2025

Seeing all the scientists I went to college with get fired and struggle with unemployment is indescribably sad

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 01/03/2025

Registration is now open for our Benzon Symposium on "Protein structure prediction and design" Meeting will take place in Copenhagen 🇩🇰 on Sept. 1–4, 2025, and will feature an amazing list of speakers Get your application in before March 31st via: benzon-foundation.dk/benzon-sympo...

Flyer for the conference. Confirmed invited speakers include:
Gabriel J. Rocklin
Birte Höcker
Amy E. Keating
Tanja Kortemme
Bruno Correia
Sarel J. Fleishman
Ashutosh Chilkoti
Minkyung Baek
Noelia Ferruz
James S. Fraser
Alan M. Moses
Susan Marqusee
Ben Lehner
Mohammed AlQuraishi
Dek Woolfson
Gustav Oberdorfer
Hannah K. Wayment-Steele
Ora Schueler-Furman
Jennifer Listgarten
Alexander Rives
Massimiliano Bonomi
Debora S. Marks
Gaurav Bhardwaj

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Stand Up for Science! @standupforscience.net · 02/03/2025

WHERE WILL YOU BE ON MARCH 7TH!? Head to www.standupforscience2025.org/local-event-information/ or the link in our bio to find your closest event—or add one if you're hosting one! #standupforscience2025

Map of Stand Up for Science events, with official SUFS events in Red and solidarity events in Blue

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Rafael C. Bernardi @rcbernardi.bsky.social · 17/02/2025

🚀 First Bluesky Post! 🎉 VMD 2.0 Alpha is here! Released today at BPS 2025, this is the biggest update in 30 years—new UI, real-time ray tracing, fast surfaces, UHD & touchscreen support. Monthly updates coming in 2025! Try it now! #VMD #BPS2025 #MolecularVisualization www.ks.uiuc.edu/Research/vmd...

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Brian Ratnasinghe @brianrat.bsky.social · 15/02/2025

Really happy for everyone at BPS this year. Moving to Europe means I can't make this time but hopefully I'll be able to visit in a few years

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Toni @giorginolab.it · 13/02/2025

AlloViz GUI for VMD: visualization of 5-HT1B receptor allosteric network - a video accompanying our tool and poster. With E. Korchevaya, @cprcll.bsky.social , www.jana-selent.org & AlloViz colleagues. doi.org/10.1016/j.cs... www.youtube.com/watch?v=abYc...

youtube.com

AlloViz GUI for VMD: visualization of 5-HT1B receptor allosteric network

YouTube video by GPCRmd

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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 12/02/2025

Chemical Solutions to Structural Biology symposium. Registration and abstract submission now open: isbuc.ku.dk/chemical-sol...

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Darby Saxbe @darbysaxbe.bsky.social · 04/02/2025

🚨BREAKING. From a program officer at the National Science Foundation, a list of keywords that can cause a grant to be pulled. I will be sharing screenshots of these keywords along with a decision tree. Please share widely. This is a crisis for academic freedom & science.

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Brian Ratnasinghe @brianrat.bsky.social · 23/01/2025

This looks really cool. I'll be reading shortly :)

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Rosana Collepardo @rcollepardo.bsky.social · 23/01/2025

What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties? We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)

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Justin Lemkul @justinlemkulvt.bsky.social · 21/01/2025

We have a new #tutorial posted online, this time for Gaussian-accelerated MD as implemented in NAMD. Article has been submitted to LiveCoMS, a great venue for such efforts. We welcome feedback! Yes, it's alanine dipeptide, but you have to start somewhere :) #compchem github.com/Lemkul-Lab/g...

github.com

GitHub - Lemkul-Lab/gamd_livecoms_tutorial

Contribute to Lemkul-Lab/gamd_livecoms_tutorial development by creating an account on GitHub.

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Weria Pezeshkian @weria-lab.bsky.social · 09/12/2024

(Short talk) Dimitrios Kolokouris from University of Copenhagen, is talking about Investigating the role of cholesterol in regulating the SLC7 family of amino acid transporters

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