Illuminating the dark phosphoproteome

EJ Needham, BL Parker, T Burykin, DE James… - Science …, 2019 - science.org
Protein phosphorylation is a major regulator of protein function and biological outcomes.
This was first recognized through functional biochemical experiments, and in the past …

Mass spectrometry‐based high‐throughput proteomics and its role in biomedical studies and systems biology

CB Messner, V Demichev, Z Wang, J Hartl… - …, 2023 - Wiley Online Library
There are multiple reasons why the next generation of biological and medical studies
require increasing numbers of samples. Biological systems are dynamic, and the effect of a …

Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV

A Stukalov, V Girault, V Grass, O Karayel, V Bergant… - Nature, 2021 - nature.com
The emergence and global spread of SARS-CoV-2 has resulted in the urgent need for an in-
depth understanding of molecular functions of viral proteins and their interactions with the …

TMTpro-18plex: the expanded and complete set of TMTpro reagents for sample multiplexing

J Li, Z Cai, RD Bomgarden, I Pike, K Kuhn… - Journal of proteome …, 2021 - ACS Publications
The development of the TMTpro-16plex series expanded the breadth of commercial isobaric
tagging reagents by nearly 50% over classic TMT-11plex. In addition to the described …

Apoptotic brown adipocytes enhance energy expenditure via extracellular inosine

B Niemann, S Haufs-Brusberg, L Puetz, M Feickert… - Nature, 2022 - nature.com
Brown adipose tissue (BAT) dissipates energy, and promotes cardiometabolic health. Loss
of BAT during obesity and ageing is a principal hurdle for BAT-centred obesity therapies, but …

Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries

DB Bekker-Jensen, OM Bernhardt, A Hogrebe… - Nature …, 2020 - nature.com
Quantitative phosphoproteomics has transformed investigations of cell signaling, but it
remains challenging to scale the technology for high-throughput analyses. Here we report a …

GLP-1R signaling neighborhoods associate with the susceptibility to adverse drug reactions of incretin mimetics

SC Wright, A Motso, S Koutsilieri, CM Beusch… - Nature …, 2023 - nature.com
G protein-coupled receptors are important drug targets that engage and activate signaling
transducers in multiple cellular compartments. Delineating therapeutic signaling from …

Splicing factor YBX1 mediates persistence of JAK2-mutated neoplasms

AK Jayavelu, TM Schnöder, F Perner, C Herzog… - Nature, 2020 - nature.com
Janus kinases (JAKs) mediate responses to cytokines, hormones and growth factors in
haematopoietic cells,. The JAK gene JAK2 is frequently mutated in the ageing …

Personalized phosphoproteomics identifies functional signaling

EJ Needham, JR Hingst, BL Parker, KR Morrison… - Nature …, 2022 - nature.com
Protein phosphorylation dynamically integrates environmental and cellular information to
control biological processes. Identifying functional phosphorylation amongst the thousands …

Hybrid-DIA: intelligent data acquisition integrates targeted and discovery proteomics to analyze phospho-signaling in single spheroids

A Martínez-Val, K Fort, C Koenig… - Nature …, 2023 - nature.com
Achieving sufficient coverage of regulatory phosphorylation sites by mass spectrometry (MS)-
based phosphoproteomics for signaling pathway reconstitution is challenging, especially …