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Our #DeepLearning framework for #proteomics is out in Nature Communications. Learn and predict properties from peptides in a few lines of code. We show how we can boost HLA-immunopeptide analysis. #Python-based on #PyTorch with a #streamlit interface & #opensource nature.com/articles/s4146…

A new episode for our Deep Visual Proteomics: scDVP! We are proud to release a single-cell spatial proteomics map of mouse liver. 400 hepatocytes, 1700 proteins per cell, zonation of more than half of the proteome. Made possible by mDIA. Florian Rosenberger bit.ly/scDVP

Great to see this out!

Combining and scoring new physiological measurements with existing #proteomics data PRIDE at EBI reveals the cell envelope to be central for bacterial starvation. Great collaboration with amazing Severin Schink Harvard Medical School now out Mol Syst Biol embopress.org/doi/full/10.15…

Interesting insights into bacterial starvation by scoring multi-condition protein regulation. Bacteria invests resources to reduce cell envelope permeability, thereby improving lifespan at the cost of growth. Congratulations to our postdoc Constantin Ammar and the entire team!

Congratulations Matthias on winning the GBM e.V. Otto Warburg Medal 2023! This is an amazing achievement and so well deserved. We are incredibly proud to be part of your journey. Your dedication to science is an inspiration to us all. bit.ly/3Hi2OVg CPRatUCPH Max Planck Institute of Biochemistry (MPIB)

Goodbye to weeks-long quantification! directLFQ for label-free quantification (LFQ) allows arbitrarily large #proteomics sample cohorts (>100,000) at improved accuracy. It shifts ion traces on top of each other, scaling linearly in DDA or DIA. biorxiv.org/content/10.110…

Really great to have this out as a preprint - feel free to check out the GitHub repo!

I just started my lab at WEHI and am looking for a motivated Research Assistant. Please apply if you are interested!

Pleased to present MS-EmpireS to broadly detect differential splicing in standard proteomics datasets. Combining information from Ensembl with a ‘double differential’ statistical approach to disentangle isoforms. Eval. on cancer, mouse brain & RNA-seq. biorxiv.org/content/10.110…

Arrr you looking for an adventure at work? Delve into the "Legends of Coding Assistance: Orc Edition" where a mighty orc will help you with your coding tasks. chat.openai.com/g/g-DDL1pxGXp-…

The wait is over!! We are thrilled to announce that we have chosen Spatial Proteomics as 2024’s Method of the Year! 🥳 For more on Spatial Proteomics and a road map to this special issue, please see this month’s Editorial or read on in this thread. nature.com/articles/s4159…

Introducing #AlphaQuant: Our tree-based proteomics quantification detects up to 50X more protein regulation, scores accuracy, and clusters peptides to infer regulated proteoforms. github.com/MannLabs/alpha… biorxiv.org/content/10.110… A thread by Constantin Ammar explains below: