Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research

L Perez de Souza, S Alseekh, F Scossa, AR Fernie - Nature Methods, 2021 - nature.com
Ultra-high-performance liquid chromatography high-resolution mass spectrometry (UHPLC–
HRMS) variants currently represent the best tools to tackle the challenges of complexity and …

Identification of tumor antigens with immunopeptidomics

C Chong, G Coukos, M Bassani-Sternberg - Nature biotechnology, 2022 - nature.com
The identification of actionable tumor antigens is indispensable for the development of
several cancer immunotherapies, including T cell receptor–transduced T cells and patient …

SARS-CoV-2 infects human pancreatic β cells and elicits β cell impairment

CT Wu, PV Lidsky, Y **ao, IT Lee, R Cheng… - Cell metabolism, 2021 - cell.com
Emerging evidence points toward an intricate relationship between the pandemic of
coronavirus disease 2019 (COVID-19) and diabetes. While preexisting diabetes is …

diaPASEF: parallel accumulation–serial fragmentation combined with data-independent acquisition

F Meier, AD Brunner, M Frank, A Ha, I Bludau… - Nature …, 2020 - nature.com
Data-independent acquisition modes isolate and concurrently fragment populations of
different precursors by cycling through segments of a predefined precursor m/z range …

[HTML][HTML] Functional characterization of the dural sinuses as a neuroimmune interface

J Rustenhoven, A Drieu, T Mamuladze, KA de Lima… - Cell, 2021 - cell.com
Despite the established dogma of central nervous system (CNS) immune privilege,
neuroimmune interactions play an active role in diverse neurological disorders. However …

Ultra‐high sensitivity mass spectrometry quantifies single‐cell proteome changes upon perturbation

AD Brunner, M Thielert, C Vasilopoulou… - Molecular systems …, 2022 - embopress.org
Single‐cell technologies are revolutionizing biology but are today mainly limited to imaging
and deep sequencing. However, proteins are the main drivers of cellular function and in …

Ultra-fast label-free quantification and comprehensive proteome coverage with narrow-window data-independent acquisition

UH Guzman, A Martinez-Val, Z Ye, E Damoc… - Nature …, 2024 - nature.com
Mass spectrometry (MS)-based proteomics aims to characterize comprehensive proteomes
in a fast and reproducible manner. Here we present the narrow-window data-independent …

OpenCell: Endogenous tagging for the cartography of human cellular organization

NH Cho, KC Cheveralls, AD Brunner, K Kim… - Science, 2022 - science.org
Elucidating the wiring diagram of the human cell is a central goal of the postgenomic era.
We combined genome engineering, confocal live-cell imaging, mass spectrometry, and data …

Feature-based molecular networking in the GNPS analysis environment

LF Nothias, D Petras, R Schmid, K Dührkop, J Rainer… - Nature …, 2020 - nature.com
Molecular networking has become a key method to visualize and annotate the chemical
space in non-targeted mass spectrometry data. We present feature-based molecular …

MaxDIA enables library-based and library-free data-independent acquisition proteomics

P Sinitcyn, H Hamzeiy, F Salinas Soto, D Itzhak… - Nature …, 2021 - nature.com
MaxDIA is a software platform for analyzing data-independent acquisition (DIA) proteomics
data within the MaxQuant software environment. Using spectral libraries, MaxDIA achieves …