Varjosalo_Lab
@varjosal.bsky.social
Unveiling the secrets of life through proteomics @helsinkiuni, @HiLIFE_helsinki, @BIOTECH_UH, Proteomics, Genomics, Systems biology 🇫🇮🇨🇳🇧🇩🇭🇷🇮🇳🇮🇹🇹🇷
How do you indicate in a slide deck that an image is AI-generated (and not real data or human-made artwork) in a clear yet unobtrusive way? Today I saw a great solution: a small astroid (the geometric shape, not an asteroid), similar to the Gemini logo. Simple, subtle, and easily recognizable.
The Thermo Fisher situation keeps getting worse. We've now collected 450+ problematic images presented as verification data in TF's antibody catalog. This includes: 🖌️ Dozens more images with duplications or painting 🖨️ Hundreds of blots that all share the same background (behold slideshow below)
Elected as an ordinary member of the Finnish Academy of Science and Letters (founded 1908) at its Spring Meeting on 17 April. This honor came considerably earlier than I had expected. Thanks to my group, colleagues, and collaborators. And to my family. The work continues.
Millions of people worldwide carry genetic mutations that weaken their immune system. A feature in Nature reports on the research to find ways to treat and prevent severe infections in those people. #medsky 🧪
The infection enigma: why some people die from typically harmless germs
Millions of people worldwide carry genetic mutations that weaken their immune system.
go.nature.com
Over €307 million in funding are now available for #AI and related technologies. Two new calls have just been launched under the Horizon Europe Work Programme, mobilising €307.3M to strengthen Europe’s digital innovation & competitiveness.
New paper out in J Proteome Res! 🧬 We automated plasma proteomics with Mag-Net enrichment on Biomek i5—achieving deep coverage at just a few dollars per sample. 🔗 pubs.acs.org/doi/10.1021/acs.jproteome.5c00420 @hilife-helsinki.bsky.social @resynbio.bsky.social @evosep.bsky.social
Automated Mag-Net Enrichment Unlocks Deep and Cost-Effective LC–MS Plasma Proteomics
Plasma is an ideal material for proteomics due to its diverse protein content reflecting physiological and pathological states and its compatibility with minimally invasive sampling. Deep proteomic pr...
pubs.acs.org
PubMed wrapped: categorizing the top 5 high-level topics of papers published in 2025. LLM-based classification of 1,783,299 documents in total 1/3
📢Publication Alert🌶️! Congratulations HiLIFE Helsinki for selecting #Mag_Net from #TeamReSynBio for your automated HT platform for deep proteomics profiling of plasma: pubs.acs.org/doi/10.1021/...
Automated Mag-Net Enrichment Unlocks Deep and Cost-Effective LC–MS Plasma Proteomics
Plasma is an ideal material for proteomics due to its diverse protein content reflecting physiological and pathological states and its compatibility with minimally invasive sampling. Deep proteomic pr...
pubs.acs.org
🎉Congratulations to the team from the @helsinki.fi! In their recent study, the authors report preliminary data showing that the P2 and P2-iST Plasma kits delivered the highest plasma proteome coverage compared with other enrichment approaches. Read the publication: pubs.acs.org/doi/10.1021/...
New paper out in J Proteome Res! 🧬 We automated plasma proteomics with Mag-Net enrichment on Biomek i5—achieving deep coverage at just a few dollars per sample. 🔗 pubs.acs.org/doi/10.1021/acs.jproteome.5c00420 @hilife-helsinki.bsky.social @resynbio.bsky.social @evosep.bsky.social
Automated Mag-Net Enrichment Unlocks Deep and Cost-Effective LC–MS Plasma Proteomics
Plasma is an ideal material for proteomics due to its diverse protein content reflecting physiological and pathological states and its compatibility with minimally invasive sampling. Deep proteomic pr...
pubs.acs.org
🧬 New paper in Nature Communications! We found that POLE2,part of DNA polymerase ε,moonlights as a receptor for NPF motifs, binding 70+ proteins across replication, transcription & repair. The interactome is more interconnected than thought. @teamgogl.bsky.social 🇫🇮🇫🇷🇭🇺🇬🇧 www.nature.com/articles/s41...
Astral users, if you're getting sequence interruptions in Xcalibur/Chromeleon, it's time to update your software: - LC–MS sequences may be interrupted due to an MS response timeout - full resolution of this defect has now been achieved with AST 2.0 SP1 QF thermo.flexnetoperations.com/control/thmo...
This is our loading buffer on our Exploris 480 /U3000 system today. Coming to Nature Methods ASAP: The Proteomics S.P.I.D.E.R. Method (Suitability Protocol Integrating Dead Eight-legged Reference)
I just published: ERC-Plus: jackpot science or missed chance to fix academia? My reflections on ERC-Plus, Europe’s newest ultra-competitive research grant and what it tells us about the academic culture we’re building. medium.com/p/erc-plus-j...
ERC-Plus: jackpot science or missed chance to fix academia?
My reflections on ERC-Plus, Europe’s newest ultra-competitive research grant and what it tells us about the academic culture we’re…
medium.com
Artificial intelligence promises rapid and polite feedback on papers — but we must first review the reviewer. This stand first says it all… A timely World View Colin in our pages by Giorgio Gilestro 🧪 #academicSky @nature.com www.nature.com/articles/d41...
AI reviewers are here — we are not ready
Artificial intelligence promises rapid and polite feedback on papers — but we must first review the reviewer.
nature.com
Very excited to share that my thesis work is out in Molecular Cell! We trained a Structure and Omics informed Classifier (SPOC) to score binary AlphaFold multimer (AF-M) predictions by structural quality and consistency with experimental omics datasets. www.cell.com/molecular-ce...
Predictomes, a classifier-curated database of AlphaFold-modeled protein-protein interactions
Schmid and Walter train a classifier that discerns functionally relevant structure predictions in proteome-wide protein-protein interaction (PPI) screens using AlphaFold-Multimer, and they use this co...
cell.com
Exited to share our latest work! Out now in @natcomms.nature.com Koina aims to transform how #proteomics uses machine learning. You no longer need to be a tech wizard to use ML and now can easily run #ML models. Integrated with FragPipe, Skyline and EncyclopeDIA! www.nature.com/articles/s41...
Koina: Democratizing machine learning for proteomics research - Nature Communications
Koina is an open-source, online platform that simplifies access to machine learning models in proteomics, enabling easier integration into analysis tools and helping researchers adopt and reuse ML mod...
nature.com
A new era for plasma proteomics is on the horizon. 🌅 Get ready for next-generation performance, precision, and simplicity — brought to you by PreOmics® and Biognosys. ✨ www.preomics.com/products/p2-... #plasmaprep #proteomics #iST #sampleprep #P2-iST
I try the newest version of DIA-NN, version 2.3 and its new Infini search approach on some Lumos and tismTOF HT datasets. If you're new to DIA-NN this might be a good video to watch. youtu.be/MIMnDw0loCk
We try the new DIA-NN 2.3 (November 2025)
YouTube video by Brett Phinney
youtu.be
Science HR in 2026: Smarter, Flexible, and Affordable Job Posting for Scientists and Employers #science #jobs #recruiting www.scientific.today/news/1275/sc...
Science HR in 2026: Smarter, Flexible, and Affordable Job Posting for Scientists and Employers
scientific.today
BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
BREAKING: The Nobel Prize in Physiology or Medicine has been awarded jointly to Mary E. Brunkow, Fred Ramsdell, and Shimon Sakaguchi "for their discoveries concerning peripheral immune tolerance" Stay tuned for more. #NobelPrize
Awesome to see GlyCounter at work! www.biorxiv.org/content/10.1...
Extracting informative glycan-specific ions from glycopeptide MS/MS spectra with GlyCounter
Glycopeptide tandem mass spectra typically contain numerous glycan-specific fragments that can inform several features of glycan modifications, including glycan class, composition, and structure. Whil...
biorxiv.org
Emmajay Sutherland@emmajays.bsky.social · 10mo agoHi Jochen! Using Glycounter (from RRG), we can classify MS/MS scans as 'likely glyco' from the presence of >8 oxonium ions. Here, NP+MAX yields around 60% of MS/MS scans with oxonium ions whereas neat plasma (NP0) has 4%.
Final countdown! Only 3 days to go until the YPIC Webinar #19: Transition from Academia to Start-Up. #YPIC #Proteomics #StartUpScience #ScienceCareers #AcademicToIndustry
Welcome! You are invited to join a meeting: 19th YPIC Webinar: Panel Discussion - Transition from Academia to Your Own Start-Up. After registering, you will receive a confirmation email about joining ...
Join us for our 19th YPIC Webinar – “Transition from Academia to Start-Up” From pipettes to pitches: how four brilliant scientists turned their academic ideas into successful start-ups! Are you curi...
us06web.zoom.us
@ypic.bsky.social · 11mo agoJoin us for our 19th YPIC Webinar – “Transition from Academia to Start-Up” Ever wondered what it takes to turn your research into a company?! 🧪 Information in comments! 1/3 #YPIC #Proteomics #ScienceToStartup #ScienceCareers #Entrepreneurship #Biotech #AcademicTransition #Webinar #StartUpScience
New review w/ Lotta J. Happonen (MCP): “State-of-the-Art and Future Directions in Structural Proteomics.” Integrating XL-MS/HDX-MS/LiP-MS with cryo-EM, NMR, X-ray, SAXS/SANS, native & top-down MS + AI. Full text: www.mcponline.org/article/S153...
State-of-the-Art and Future Directions in Structural Proteomics
Structural proteomics has undergone a profound transformation, driven by the convergence of advanced experimental methodologies and computational innovations. Cutting-edge mass spectrometry (MS)-based...
mcponline.org
Thrilled to share: Helsinki Proteomics Center is installing 3 Thermo Scientific Orbitrap Astral/Astral Zoom mass spectrometers. First Astral Zoom arrived in early Aug—among the first worldwide. Rollout by end of summer 2025. Read more: lnkd.in/d76vpMf6 #proteomics #massspectrometry
🐧📉 Emperor penguin decline worse than predicted A new study finds a 22% drop in emperor penguins (2020–2023) in part of Antarctica – far steeper than climate models expected. This highlights urgent risks from sea ice loss 🔗 www.nature.com/articles/s43... #SciComm #ClimateChange #Penguins 🧪
Regional emperor penguin population declines exceed modelled projections - Communications Earth & Environment
The number of emperor penguins in the Bellingshausen and Weddell Sea declined by 22% over the period 2009–2023, a reduction of 1.6% per year, exceeding predictions from population models based on high...
nature.com
Luke Brzozowski of @uhn.ca showed how 20+ core facilities are driving hospital-based innovation at #CTLS2025, from genomics to theranostics. 💡 Techna team 🧪 Biobanks & imaging 🏥 Research meets care #CTLSBrno #CoreFacilities #TranslationalResearch #Stratocore @ctlslifescience.bsky.social
