Miłosz Wieczór
@milosz-wieczor.bsky.social
Comp bio postdoc @ IRB Barcelona. The voice behind Phase Space Invaders, the keystrokes behind Gromologist, the molecular cameraman behind Molywood. 🇵🇱❤️🇺🇦
A great collaboration we did for Biophysical Society's #BiophysicsWeek - give it a listen!
@pilarcossio.bsky.social · 7mo agoCelebrating #BiophysicsWeek T&C partnered with Phase Space Invaders podcast: Robert Best @sonyahanson.bsky.social @xuhuihuangchem.bsky.social and host @milosz-wieczor.bsky.social Episode 32: Driving the Future of Biophysics: What’s Next in Theory and Computation? www.buzzsprout.com/2313153/epis...
Episode 29 of the Phase Space Invaders #podcast features Jérôme Hénin @jerome-henin.bsky.social! Give it a listen on Spotify or other podcasting platforms: open.spotify.com/episode/23q9...
Episode 29 - Jérôme Hénin: Free energy methods, building useful software, and human learning from biomolecular systems
Phase Space Invaders (ψ) · Episode
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Another episode of Phase Space Invaders is out, and today, my guest number 28 is Yuji Sugita! You can find the #podcast on all platforms, including Spotify and Apple Podcasts: buzzsprout.com/2313153 In the conversation, we cover the birth of replica exchange simulations, ...
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
Phase Space Invaders' episode 27 is now online, featuring Kresten Lindorff-Larsen @lindorfflarsen.bsky.social! Listen to it on Spotify or other platforms: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're headed for, and which exciting pathways will ta...
buzzsprout.com
Phase Space Invaders episode 26 is here, and this week I'm talking to Pratyush Tiwary! Listen to the podcast on Spotify or your favorite app: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
#PCBCommunity |🍰 Aquest matí, els #PCBakers han celebrat l’ #Endorfest en suport de la investigació per l’ #endometriosi, una malaltia ginecològica que afecta el 10% de les dones en edat fèrtil a Espanya🌸. Els fons recaptats es destinaran a la recerca que porta a terme @hospitalclinic.bsky.social 🤝
It took a while, but... the podcast is back! In episode 25, and opening season 4 of Phase Space Invaders, my guest is Ivet Bahar - find our conversation on Spotify, or check for other platforms on Buzzsprout: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
This is a great tool for blind exploration of chemical/conformational space, try it out!
Jan H. Jensen@janhjensen.bsky.social · 2y agoNew CCH highlight: GOAT: A Global Optimization Algorithm for Molecules and Atomic Clusters www.compchemhighlights.org/2025/02/goat... #compchem
Unveiling the Complete Spectrum of SARS-CoV-2 Fusion Stages by In Situ Cryo-ET https://www.biorxiv.org/content/10.1101/2025.02.25.640151v1
Impressive scaling of Gromacs! Quite notably though, there's almost a hard performance limit at small systems sizes. With a 4fs time step, 1-1.5 microsecond/day seems to be the new standard, at which point it only makes sense to invest in more replicas
CompBioPhys@compbiophys.bsky.social · 2y ago🤩 Highly optimized software running on a SOA #HPC cluster provides sufficient #computing power to #simulate #biomolecular systems at the mesoscale of viruses and organelles, and potentially small cells in the near future... Want to know more? Check out our paper 📑 in #JCC 🔗 doi.org/10.1002/jcc....
The paper on ORCA 6’s Global Optimization Algorithm GOAT is finally published at Angewandte Chemie! Feel free to try Bernardo's (@bernadsz.bsky.social) algorithm to generate conformer ensembles and much more. doi.org/10.1002/anie... Tutorial on GOAT: www.faccts.de/docs/orca/6.... #ORCAqc #ChemSky
GOAT: A Global Optimization Algorithm for Molecules and Atomic Clusters
In this work, we propose a new Global Optimization Algorithm (GOAT) for molecules and clusters of atoms and show how it can find the global energy minima for both systems without resorting to molecul...
doi.org
Although barely discussed outside neurology, cerebral small vessel disease is a major aging-related driver of stroke, dementia, and disability🧠 It is a major public health concern without an available treatment📈 Huge unmet clinical need❗️
Incredible that whenever an otherwise user-friendly service gets taken over by @microsoft.com, it turns into hell on Earth. And it's literally every single one of them - that takes dedication! 🧐
This isn't a surprising but it is devastating. The great betrayal of Ukraine begins. We, in Europe, are in a place of danger. We all owe Ukraine & its people a debt of gratitude for its extraordinary courage. 😢
Who's going to #BPS2025? Please join us at the MGO Symposium @mgo-bps.bsky.social on Saturday 1:30 pm Room 511ABC Featuring experiments, simulations, and all the scales by @serenasanulli.bsky.social @melikel.bsky.social @maristizabal.bsky.social @janhuemar.bsky.social and more Please repost! 🚀✨
I got DeepSeek to give a decent and objective summary of the various takes on Taiwan's legal status, and when it finished, it immediately switched to "Sorry, that's beyond my current scope. Let’s talk about something else." Looks like a cheap censorship patch added at post-inference 🙃
In my latest podcast commentary, I was arguing our field needs initiatives like this one: journalclub.io It's harder and harder to catch up with the literature, and AI summaries are still not good enough, but I'd genuinely pay a small fee to have a weekly review of coolest papers in biophysics 🙌
Journal Club: The latest academic research explained in plain English.
Journal Club is a premium daily newsletter and podcast authored and hosted by Malcolm Diggs. Each episode is lovingly crafted by hand, and delivered to your inbox every morning in text and audio form.
journalclub.io
Looking to curate your own private feed that also helps you discover new voices? I highly recommend the DISCOVER feed. You can mark what kind of posts you like and don't like by clicking on 3 dots at bottom right. Thanks @why.bsky.team! More: publish.obsidian.md/debbieohi/cu... #BlueSkyTips
With the end of season 3, I'm summarizing the last 8 conversations at Phase Space Invaders to capture the most inspiring bits from each interview, and looking back at a whole year of recording. Listen on Spotify or any other platform: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
Molecular simulations or AI models produce ever larger and more complex datasets. Comparing different conditions to find meaningful patterns is a bottleneck for many projects. We address this with PENSA, a flexible open-source analysis library. Now out in JCP: doi.org/10.1063/5.02... 🧪 #CompChem
Systematic analysis of biomolecular conformational ensembles with PENSA
Atomic-level simulations are widely used to study biomolecules and their dynamics. A common goal in such studies is to compare simulations of a molecular system
doi.org
Favourite paper of 2016 "Design and synthesis of a minimal bacterial genome" by Hutchison et al. (1/3) www.science.org/doi/10.1126/...
Design and synthesis of a minimal bacterial genome
Cycles of design, building, and testing produced a 531-kilobase genome comprising 473 genes.
science.org
Joe Greener@jgreener64.bsky.social · 2y agoFavourite paper of 2015 "Accurate and Reliable Prediction of Relative Ligand Binding Potency in Prospective Drug Discovery by Way of a Modern Free-Energy Calculation Protocol and Force Field" by Wang et al. (1/4) pubs.acs.org/doi/10.1021/...
Wrapping up the year 📆, and season 3, at Phase Space Invaders is my conversation with Katarzyna Marcinkiewicz, a senior editor at Nature Communications @naturecomms.bsky.social! Listen to episode 24 🎧 on Spotify and other podcasting platforms: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
The best environment for tool dev is when your labmates come up with ridiculous requests like "hey I want to turn off the attractive part of LJ between these two base pairs only". Turns out that's just 5 minutes of scripting with Gromologist 🧙♂️
Looking back at 2024, I guess no scientific achievement comes close to finally configuring the institutional VPN on Ubuntu 🧑🔧
The latest episode 23 of Phase Space Invaders features Zoe Cournia as a guest! Find it on Spotify or other platforms: www.buzzsprout.com/2313153
Phase Space Invaders (ψ)
With the convergence of data, computing power, and new methods, computational biology is at its most exciting moment. At PSI, we're asking the leading researchers in the field to discover where we're ...
buzzsprout.com
One thing I love about working at the IRB is our Interdisciplinary Rock Band. Over 3 years playing with these folks, students to PIs, and it never ceases to be pure fun ❤️
I swear Bowie's "I'm a space invader" line here had nothing to do with the podcast 🤐 ...but finally seeing this band live after 10 years made me appreciate what a gold mine the Swedish musical scene has been 👩🎤 open.spotify.com/album/1z09JU...
Moonage Daydream
Blues Pills · Single · 2022 · 1 songs
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Do you want to work at the interface of molecular simulations, structural biology experiments and #AI? Come to Paris for a PhD at @pasteur.fr 1 PhD position is available in our lab funded by ERC_Research. Please repost!! #compchem #compbio Info 👇 research.pasteur.fr/b/15Hr
One PhD thesis in integrative structural biology | Research - Institut Pasteur
research.pasteur.fr
In episode 22 of Phase Space Invaders 🎙️, I'm talking to Lucie Delemotte @delemottelab.bsky.social! Listen to our conversation on Spotify or other podcast platforms: open.spotify.com/episode/1Yeg...
Episode 22 - Lucie Delemotte: enhanced sampling methods, alternative publishing models, and becoming a parent in academia
Phase Space Invaders (ψ) · Episode
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