Matthias Gstaiger

Chemically induced USP21-KLHL12 association recruits USP21 to COPII assembly

The paper shows that BAY-805 induces USP21-KLHL12 association, recruiting USP21 to COPII vesicles and impairing large cargo transport.

Paradoxical non-catalytic kinase functions are driven by inhibitor-induced displacement of autoinhibitory domains

The paper identifies inhibitor-induced structural changes in kinases that drive non-catalytic effects, revealing the ATP-binding site as a key regulator of kinase conformation and interactions.

In-source fragmentation in mass spectrometry-based proteomics: prevalence, impact, and strategies for mitigation

The paper identifies and quantifies in-source fragmentation (ISF) in proteomics data, showing its prevalence and impact, and proposes an open-source method to detect and remove ISF peptides.

Structure-function relationship of alpha-synuclein fibrillar polymorphs derived from distinct synucleinopathies

This study identifies structural and functional differences in alpha-synuclein fibrils from Parkinson's disease, Dementia with Lewy Bodies, and Multiple System Atrophy, linking these differences to disease-specific cellular responses and potential therapeutic targets.

Covalent targeting leads to the development of LIMK1 isoform-selective inhibitors

This study develops a covalent LIMK1 inhibitor that selectively targets a unique cysteine, enabling isoform-specific studies of LIMK1 function.

A chemical probe to modulate human GID4 Pro/N-degron interactions

The paper introduces PFI-7, a chemical probe that inhibits GID4 Pro/N-degron interactions, revealing non-degradative roles of the CTLH complex in human cells.

An atlas of protein-protein associations of human tissues prioritizes candidate disease genes

The paper constructs a tissue-specific protein interaction atlas using proteomic data from 11 human tissues, identifying key drivers of inter-tissue variation and prioritizing disease genes in brain disorders.

DIP-MS: A novel ultra-deep interaction proteomics for the deconvolution of protein complexes

DIP-MS resolves protein complex isoforms using deep learning and mass spectrometry, revealing new subunits in human prefoldin complexes.

Novel biochemical, structural and systems insights into inflammatory signaling revealed by contextual interaction proteomics

The paper presents an integrated experimental and computational strategy to model protein-protein interactions in cellular context, applied to the TNF-receptor signaling complex.

Systematic dissection of phosphorylation-dependent YAP1 complex formation elucidates a key role for PTPN14 in Hippo signal integration

The paper develops an experimental strategy to link phosphorylation events with protein complex formation, revealing PTPN14's role in regulating YAP1's interaction with LATS1/2 kinases.

Systematic protein complex profiling and differential analysis from co-fractionation mass spectrometry data

The paper introduces PCprophet, a computational framework for identifying and analyzing protein complexes from co-fractionation mass spectrometry data across conditions.

A global screen for assembly state changes of the mitotic proteome by SEC-SWATH-MS

The paper quantifies proteome assembly state changes during mitosis using SEC-SWATH-MS and identifies new mitotic complex disassembly events.

Complex-centric proteome profiling by SEC-SWATH-MS

The paper introduces a method to quantify protein complexes using SEC-SWATH-MS and identifies 462 complexes from HEK293 cells.