Breaking barriers in crosslinking mass spectrometry with enhanced throughput and sensitivity using Orbitrap Astral www.nature.com/artic... --- #proteomics #prot-paper

RosettaFold 3 is here! 🧬🚀 AtomWorks (the foundational data pipeline powering it) is perhaps the really most exciting part of this release! Congratulations @simonmathis.bsky.social and team!!! ❤️ bioRxiv preprint: www.biorxiv.org/content/10.1...

Check out Structural Host–Virus Interactome Profiling (SHVIP) in intact cells infected with Herpes Simplex Virus type 1 (HSV-1)! Now published! 📄 www.nature.com/articles/s41... #LoveVirology #TeamMassSpec

Structural host-virus interactome profiling of intact infected cells - Nature Communications

Virus-host protein-protein interactions are fundamental to viral pathogenesis, yet few are structurally resolved. Here, the authors combine cross-linking mass spectrometry, bio-orthogonal labeling and...

nature.com

Happy to have been able to contribute to Lars‘ work!

bioRxiv Biochemistry@biorxiv-biochem.bsky.social · last yr.

Integrative structural interactomics reveals protein organization and structure in a giant virus https://www.biorxiv.org/content/10.1101/2025.06.16.659922v1

Foldseek-Multimer is a strategy for complex-to-complex protein structure alignment to quickly perform large-scale structural comparisons between complexes. @martinsteinegger.bsky.social www.nature.com/articles/s41...

It was nice to be able to contribute to Boris’ study on improving error control in XL-MS! #Proteomics #TeamMassSpec www.embopress.org/doi/full/10....

Redesigning error control in cross-linking mass spectrometry enables more robust and sensitive protein-protein interaction studies | Molecular Systems Biology

imageimageThe authors introduce a fused target-decoy strategy and a context-sensitive data subgrouping scheme for cross-linking MS. This strategy allows for the identification of inter-protein links w...

embopress.org

We have released version 2 of AlphaPulldown - a general pipeline for high-throughput structural modeling! Software: github.com/KosinskiLab/... Preprint: biorxiv.org/content/10.1...

Scout, our high speed search engine, is finally published. Additionally, we developed a standard, ground truth dataset for cross-linking Mass Spectrometry which guided the development of Scout. #XLMS #Massspec #Proteomics www.nature.com/articles/s41...

Proteome-scale recombinant standards and a robust high-speed search engine to advance cross-linking MS-based interactomics - Nature Methods

This Article reports cross-linking mass spectrometry (XL-MS) standard datasets with fully controlled protein interactions that are an order of magnitude more complex than existing ones. These datasets...

nature.com

PROTEOME-SCALE RECOMBINANT STANDARDS AND A ROBUST HIGH-SPEED SEARCH ENGINE TO ADVANCE CROSS-LINKING MS-BASED INTERACTOMICS https://www.biorxiv.org/content/10.1101/2023.11.30.569448v1

PROTEOME-SCALE RECOMBINANT STANDARDS AND A ROBUST HIGH-SPEED SEARCH ENGINE TO ADVANCE CROSS-LINKING MS-BASED INTERACTOMICS https://www.biorxiv.org/content/10.1101/2023.11.30.569448v1

Advancing data analysis tools for proteome-wide cross-linking mass spectrometry (XL-MS) requires gro

biorxiv.org

Cross-linking goes bioorthogonal! In our new preprint, we achieve higher coverage virus-host crosslinks than traditional interaction proteomics approaches by specifically labeling viral proteins, and can characterize new interaction sites in disordered regions via AF-multimer.

Arne Elofsson@handle.invalid · 3y ago

Nice paper highlighting the power of Xling and #AlphaFold www.biorxiv.org/content/10.1...