If you are at HUPO 2025, catch up with our team @mannlab.bsky.social to hear about our exciting work in single-cell proteomics, immunopeptidomics, spatial proteomics, and the latest advances in mass spectrometry technology!

In Nature Communications: MS-based proteomics + machine learning to diagnose Lyme neuroborreliosis with 92% accuracy (CSF) and 80% (blood) - paving the way for earlier, less invasive testing. www.nature.com/articles/s41...

Awesome talk by @erictopol.bsky.social at the Bavarian Academy of Sciences and Humanities (BAdW). A positive and hopeful take on #AI in medicine. Thanks for highlighting #DVP, too 😊

Excited to share AlphaDIA's publication in Nature Biotechnology! Our open-source DIA framework brings deep learning directly to raw MS data with feature-free processing, transfer learning for any PTM, and performance matching top tools. www.nature.com/articles/s41...

How much hands-on lab expertise gets lost? We developed a multimodal AI agent that turns videos into protocols and detects procedural errors. Making science accessible. Great collaboration with #Google. Preprint: www.biorxiv.org/content/10.1... @patiskowronek.bsky.social explains👇

Our preprint on scPortrait is out! We built a framework + format to turn microscopy into standardized single-cell image datasets. #scPortrait scales >100M cells, integrates with @scverse.bsky.social, & enables cross-modality modeling from morphology to transcriptomics doi.org/10.1101/2025...

Congratulations on the inaugural of #AITHYRA, the new Biomedical AI institute in Vienna. Thank you for the invitation to speak at the symposium and the fascinating discussions on AI × proteomics. #AIforLifeScience

Out in @cp-cellsystems.bsky.social‬: Deep Visual Proteomics shows xenotransplantation drives colon #organoids toward in-vivo-like proteomes supporting their use in regenerative medicine; culture tweaks can mimic this shift. With @kimbakjensen.bsky.social. Lead author Frederik Post explains below:

If you are interested in scientific software engineering or experimental work in the fields of spatial and multi-modal -omics, high throughput interaction proteomics, or mass instrumentation, apply until Oct 7th! @mannlab.bsky.social www.biochem.mpg.de/mann imprs-ml.mpg.de/How-to-Apply

Spatial proteomics & transcriptomics chart #ovariancancer evolution from fallopian tube precursors. Deep Visual Proteomics reveals early SUMOylation, TRIP13 epithelial driver, BGN therapeutic target & epithelial-stromal cooperation in progression. www.medrxiv.org/content/10.1...

Congratulations Maria Wahle on your #PhD🎉. We wish you every success in your future career. @mannlab.bsky.social @mariawahle.bsky.social @imprs-ml.bsky.social

New preprint reveals why IDO1 inhibitor trials failed! Led by Peter Murray @mpibiochem.bsky.social our collaboration discovered IDO1 actually kills ovarian cancer cells via GCN2/ISR pathway - not protecting them. Spatial proteomics uncovers unexpected biology. www.biorxiv.org/content/10.1...

If you are at the ASBMB Proteomics conference next week, do attend the session talks and lunch seminars @abseabio.bsky.social, @evosep.bsky.social to know about the latest research developments in @mannlab.bsky.social

ICSB2025 in beautiful Dublin with Systems Biology for Health focus. When: Oct 5-9! Topics: Cancer, AI/ML, Drug Discovery, Digital Twins, Multi-omics & more Abstract deadlines: Oral: Aug 1 Poster: Sep 1 Register: icsb2025.com/registration/ #ICSB2025 #SystemsBiology #Dublin

Our collaboration with Ernst Lengyel and team is out in @Nature. The study shows that blocking NNMT reprograms cancer-associated fibroblasts & restores immune response against ovarian cancer. Happy to see that our earlier research contributed to this breakthrough. Congrats all!

Apply today and be part of inspiring science! Deadline July 23rd! #Proteomics #Postdocs

Thank you Matthias for your visionary leadership and for creating a scientific family that continues to push boundaries. Congratulations from all members, and looking forward to the future! #MS #Proteomics #20Years

Our paper on ovarian cancer #LGSC is out in @Cancer_Cell. Using deep visual proteomics #DVP and spatial transcriptomics, we mapped how non-invasive tumors become deadly ovarian disease, and found a promising new treatment combination. www.cell.com/cancer-cell/...

Congratulations!!

Don't forget to connect with our team members at #ASMS2025. Talks and poster line-up below 👇

Don't forget to check out Marvin Thielert's poster 773 on single cell proteomics at #ASMS2025! #SingleCellProteomics

Protein digestion in 200 nL on solid-phase tips: SPEC enables low-input proteomics—even with SDS/SDC at high levels. From FFPE and muscle to high throughput plasma. SPEC is a universal and Evosep-compatible protocol. www.biorxiv.org/content/10.1...

Nano-scale, mega-impact: nanoPhos delivers 100× phosphoproteomics sensitivity, 70k sites from 1µg, 8k from 10ng! Powered by SPEC, it enables phosphoDVP: deep spatial phosphoproteomics from 1000 neurons, hitting 17k sites, a game changer for spatial omics. www.biorxiv.org/content/10.1...

Heading to #ASMS2025? Our team will be there showcasing our latest breakthroughs in mass spectrometry! Don't miss the chance to connect with our team members and discover the cutting-edge work we have been developing.

New approach tackles studying rare pediatric diseases! We developed an ontology-guided clustering framework using SNOMED CT to analyze proteomes from 1,140 children across 394 conditions - enabling meaningful insights even with tiny patient numbers! www.embopress.org/doi/full/10....

To bead or not to bead? We evaluate five plasma proteomics workflows, finding bead-based methods enhance detection but show high susceptibility to cellular contamination bias. Strategies to optimize biomarker discovery in plasma proteomics. www.biorxiv.org/content/10.1...

Check out ADAPT-MS: our flexible, scalable diagnostic framework that transforms discovery plasma proteomics directly into clinical decisions.Dynamic retraining enables single-sample diagnostics for any clinical question. www.medrxiv.org/content/10.1...

Since April, @tnordmann.bsky.social has been leading a research Group @mpibiochem.bsky.social. He has now been awarded the prestigious Oscar Gans Prize by the German Dermatological Society. Congratulations and welcome! #award #dermatology #proteomics @mannlab.bsky.social

Excited to share our preprint on multiplexed DVP! mxDVP extends CODEX to DVP family, revealing spatial heterogeneity in human pancreatic islets with 12 endocrine sub-types including rare polyhormonal cells. Fantastic team effort #LundbergLab biorxiv.org/content/10.1101/2025.04.27.650857v1

Congratulations to Matthias Mann on election to the prestigious National Academy of Sciences! Your transformative proteomics research have earned you this exclusive, elite honor. Your team could not be prouder! www.nasonline.org/news/2025-na...

Our paper is out in Nature today! We use Deep Visual Proteomics (DVP) to dissect α1-antitrypsin deficiency (AATD) in human liver at single-cell resolution. Let us take a tour through proteotoxic stress in intact human tissue — one hepatocyte at a time. www.nature.com/articles/s41...

Introducing our single-cell DVP framework combining strategic cell selection with protein gradient mapping algorithms. Analyzing hepatocyte proteomes across 18 human livers, revealing cross-species differences, and mapping disruptions in liver fibrosis. www.biorxiv.org/content/10.1...

Nature's technology spotlight on spatial proteomics explores moving beyond the "one gene, one protein, one function" paradigm. Thanks for highlighting our OpenCell network & our DVP platform that uncovers disease mechanisms at single-cell resolution. #SpatialProteomics www.nature.com/articles/d41...

Exciting new paper from Olsen lab in Cell! SC-pSILAC brings protein turnover to the single-cell level, revealing a multidimensional view of protein dynamics impossible with bulk analysis or transcriptomics: A game-changer for decoding cellular diversity in cancer. www.cell.com/action/showP...

Our PCA-N workflow featuring a neutralization step allows direct enzymatic digestion, doubles proteome depth from 5µL neat plasma, and handles 10K+ sample-preps daily. Democratizing plasma proteomics with 50K sample validation. Check it out on bioRxiv! www.biorxiv.org/content/10.1...

Join us as a Proteomics & Mass Spectrometry Scientist and provide expert support to your customers for complex proteomics projects. Take a look at the #joboffer ❕apply until April 4 ❕http://mpg.de/24313276/proteomics-mass-spectrometry-scientist #hiring #jobalert #JobInScience #proteomics

Introducing #AlphaQuant: Our innovative tree-based proteomics approach reveals up to 50X more regulated proteins, provides quantitative accuracy scoring, and identifies proteoforms through peptide clustering. biorxiv.org/content/10.1... Thread by @ConstantinAmmar below:

In our latest @Nature review with Tiannan Guo & Judith Steen, we explore how technological breakthroughs are revolutionizing MS-based proteomics: From enhanced sensitivity enabling single-cell analysis to high-throughput plasma proteomics & AI-based data interpretation www.nature.com/articles/s41...

Preprint just out: Our international team's perspective on proteomics and AI, led by Tiannan Guo. We outline key areas where global collaboration between AI and proteomics researchers can accelerate biological discoveries and medical applications. Check it out: arxiv.org/abs/2502.15867

Comprehensive coverage of spatial proteomics in The Scientist, highlighting how deep visual proteomics is advancing our understanding of disease. Great to share our perspective alongside another pioneer in the field! www.the-scientist.com/spatial-prot...

Out today in Nature Genetics: Using MS-based proteomics, we mapped 1,200+ plasma proteins in 2,100+ children, showing how genetics & development shape blood protein levels during childhood. nature.com/articles/s41588-025-02089-2 #PediatricProteomics #pQTL First author @liliniu.bsky.social explains ⬇️

Our Deep Visual Proteomics workflow maps protein networks in bladder, prostate, seminal vesicle & lymph node Signet Ring Cell Carcinoma, revealing DNA damage response alterations & immune signatures that could guide therapy choice. Out now in NPJ Precision Oncology! rdcu.be/d8KyK

An interesting survey conducted by Wiley reveals 72% of researchers plan to use AI for manuscript preparation. Sebastian Porsdam Mann (Copenhagen University) notes how researchers across all fields may need to adapt to these changes. nature.com/articles/d41586-025-00343-5

Looking for rapid, deep & reproducible proteomics? Follow our @Nature protocol to get 7k proteins & 29k phosphosites in just 21 min! Complete #PASEF workflow using optimal dia-PASEF, synchro-PASEF & py_diAID. From method development to analysis. #TeamMassSpec @patiskowronek.bsky.social explains 👇

Our mipDVP workflow integrates 22-marker imaging with Deep Visual Proteomics to spatially map cell-type proteomes in hot/cold tumors, revealing distinct immune landscapes, macrophage barriers, T cell adaptations to hypoxia & tumor heterogeneity. Online in Molecular Cell. doi.org/10.1016/j.mo...

Looking forward to a fabulous 2025, full of happiness and scientific achievements! 🔬💫