Tomáš Pluskal
@pluskal-lab.org
Group Leader at the Institute of Organic Chemistry and Biochemistry (IOCB Prague @iocbprague.bsky.social). Plant biochemistry, metabolomics, genomics, bioML, etc. https://www.pluskal-lab.org
Do you have a bold, daring vision how to transform research in biology? Are you a young scientist within 7 years since your PhD? Submit your idea by July 31 to the Dream Biology Award competition and you can win the first prize of €10,000! More details at dreambiologyaward.org
Registration is now open for the 6th Virtual ChemBioTalks on September 29th from 12:00 to 18:00 CEST. We have an amazing program for you highlighted by our keynotes @supertifurgalab.bsky.social and Michelle Chang. Make sure to register to not miss it: events.zoom.us/ev/Ag1AUcW3n...
Come and join us :)
IOCB Prague@iocbprague.bsky.social · 2mo ago🔬 We are looking for a talented and motivated postdoctoral fellow with a research background in molecular biology, synthetic biology, or related fields to join the team of @pluskal-lab.org. See more ► www.uochb.cz/en/open-posi... ⤵️ #openposition #iocbprague #iocb #biochem
🦠 The #PROTOCELL experiment is heading into space! The project led by @hlouchova-lab.bsky.social & @pluskal-lab.org at IOCB Prague is one of 13 Czech scientific and technological experiments supported by @esa.int that will become part of the now confirmed mission of Czech astronaut Aleš Svoboda.
🔬 This tenure-track position is roughly comparable to an #assistantprofessor at a US university or to a #newinvestigator position at Max Planck Institutes in Germany. See more ► www.uochb.cz/en/open-posi... ⤵️ #openposition #iocbprague #iocb #compchem
Thanks and congratulations to @jjjvanderhooft.bsky.social, Soha Hassoun @pluskal-lab.org, Stacey Reinke for organizing this landmark #Dagstuhl Computational Metabolomics seminar 26181 ! www.dagstuhl.de/en/seminars/... What an amazing four days with many fruitful discussions and interactions ...
I am super excited that our paper on inter-laboratory comparability of non-targeted LC–MS/MS analysis of dissolved organic matter was just published in ES&T. pubs.acs.org/doi/10.1021/...
Are you planning to attend the @appliedmldays.bsky.social conference at EPFL? Together with @arianemora.bsky.social we are organizing an ML4Enzymes workshop on Feb 12 morning, including expert presentations and a hands-on coding session. Full program: docs.google.com/document/d/1...
AMLD 2026 ML4Enzymes Workshop Program.docx
AMLD 2026 ML4Enzymes Workshop Program, Feb 12, 2026 Location: EPFL's SwissTech Convention Center, room Garden 1A 9:00-10:30 Foundations session (talks, 15 min each including Q/A) 1. Roman Bushuiev + ...
docs.google.com
🧬 A new paper from the group of Ed Curtis at IOCB Prague in collab with the @pluskal-lab.org introduces a structure-guided way to explore nucleic acid sequence space that goes beyond traditional random mutagenesis. #research #machinelearning #nucleicacids #chemistry 1/3
📰 @forbescesko.bsky.social ve svém výběru českých vědeckých objevů zmínil také výzkum z našeho ústavu. Vedle dalších projektů upozornil na práce týmu Petra Cíglera a týmu @pluskal-lab.org ► forbes.cz/tricko-proti... 📲 #ceskaveda
Excited to release BoltzGen which brings SOTA folding performance to binder design! The best part of this project is collaborating with a broad network of leading wetlabs that test BoltzGen at an unprecedented scale, showing success on many novel targets and pushing the model to its limits!
We train machine learning models on millions of proteins. But when it comes to making predictions, do we need them to understand all proteins at once? Often, we need an accurate model for the specific protein we are studying or designing. We address this with ProteinTTT arxiv.org/abs/2411.02109 1/🧵
BIG BIG congratulations to our PhD student @roman-bushuiev.bsky.social for receiving the Google PhD Fellowship 2025 in Health Research! 🎉💰 goo.gle/43wJWw8
Je život ve vesmíru vzácný, nebo se naopak může vyskytovat skoro všude? Odpověď na to hledá projekt #PROTOCELL Kláry Hlouchové a @pluskal-lab.org, který vzniká v @iocbprague.bsky.social. 1/3 #ČeskáCestaDoVesmíru #CzechSpace #CzechSpaceWeek2025 #CzechSpaceWeek #UOCHB #IOCB #IOCBPrague
MSnLib: a large-scale, open multi-stage fragmentation mass spectral library for 30,000 unique small molecules. @robinschmid.bsky.social @pluskal-lab.org www.nature.com/articles/s41...
MSnLib: efficient generation of open multi-stage fragmentation mass spectral libraries - Nature Methods
MSnLib is a large-scale, open MSn spectral library featuring >2.3 million MSn and >357,000 MS2 spectra for 30,008 unique small molecules.
nature.com
I am very proud of the final outcome of this project, mainly driven by Corinna Brungs and supported by numerous labs who donated compounds for analysis.
IOCB Prague@iocbprague.bsky.social · 11mo agoThe @pluskal-lab.org is helping colleagues around the world identify unknown compounds. A #research article about their vast #massspec library has been published in @natmethods.nature.com with Corinna Brungs & @robinschmidt.bsky.social as the first two authors. See more ► www.uochb.cz/en/news/732
The first day of our bioML symposium at @iocbprague.bsky.social went very well. It is amazing to see how fast this field is moving forward. Thanks to everyone for the fantastic talks! 🤖🧬
Yesterday @roman-bushuiev.bsky.social visited our lab. He gave a seminar talk about his recent work on DreaMS (www.nature.com/articles/s41...), and provided a hands-on training to my lab members. Looking forward to what we will discover using this awesome tool!
At #ASMS2025, we presented a next-gen workflow pairing the #timsMetabo MoRE (Mobility Range Enhancement) with #mzmine and #DreaMS Compared to conventional LC-MS2, the data delivered: - 84% more detected features - 5.7× more MS² spectra - 3× more spectral matches Read the full poster to learn MoRE
🚨 MetaboART 🎨 2025 – Deadline Extended: 🗓️ Submissions now open until June 13! Two categoried: 👤 Human-Created // 🤖 AI-Generated 🏆Winner @ #MetSoc25 on June 24 Details👉 tinyurl.com/dh37xt78 📩info.emn@metabolomicssociety.org
EMN Metabolomics Society@emn-metsoc.bsky.social · last yr.🎨 MetaboART 2025 is here! Turn your #metabolomics research into visual art! The categories: 👤 Human-made //🤖 AI-generated 🗓️ Submit Apr 1–May 31 🏆 Winners @ #MetSoc25 on June 24 Details 👉 tinyurl.com/dh37xt78 📩 info.emn@metabolomicssociety.org #MetaboART #SciArt @metsoc.bsky.social
Today is the registration deadline for our bioML symposium on Aug 21-22. Last chance to secure your spot! More info at tinyurl.com/bioMLPrague25
⚛️ @pluskal-lab.org from IOCB Prague, together with his student @roman-bushuiev.bsky.social and colleagues from #CIIRC CTU, Josef Šivic and @anton-bushuiev.bsky.social, have developed a machine learning model called #DreaMS – which accelerates the analysis of previously unknown molecules.
Mass spectrometry is a key method to discover and identify molecules in biological and environmental samples. Yet, >90% of mass spectra remain hard to interpret. In our recent paper, we present DreaMS — a foundation model to interpret mass spectra of small molecules. www.nature.com/articles/s41...
Self-supervised learning of molecular representations from millions of tandem mass spectra using DreaMS - Nature Biotechnology
A transformer model is used to construct the DreaMS Atlas—a molecular network of 201 million MS/MS spectra.
nature.com
This paper represents a great effort by @roman-bushuiev.bsky.social and his brother @anton-bushuiev.bsky.social. The DreaMS foundation model for mass spectra of small molecules now opens lots of avenues for possible downstream applications. It might be a game changer for computational metabolomics.
Nature Biotechnology@natbiotech.nature.com · last yr.Self-supervised learning of molecular representations from millions of tandem mass spectra using DreaMS - @pluskal-lab.org @iocbprague.bsky.social go.nature.com/4k1n5iC
The Mass Spectrometry Query Language (MassQL) is an open-source language for instrument-independent searching across mass spectrometry data for complex patterns of interest via concise and expressive queries without the need for programming skills. www.nature.com/articles/s41...
Join us for a power-packed software workshop where we’ll be breaking boundaries in multi-vendor MS analysis using #mzmine at #ASMS2015 Led by experts @robinschmid.bsky.social and @ansgarkorf.bsky.social 𝗡𝗼 𝘀𝗶𝗴𝗻–𝘂𝗽 𝗿𝗲𝗾𝘂𝗶𝗿𝗲𝗱, 𝗷𝘂𝘀𝘁 𝗱𝗿𝗼𝗽 𝗯𝘆 𝘁𝗵𝗲 𝗯𝗼𝗼𝘁𝗵 𝗮𝘁 𝟭𝟮 𝗺𝗶𝗱𝗱𝗮𝘆. See you there! 👋
