Unbiased spatial proteomics with single-cell resolution in tissues

A Mund, AD Brunner, M Mann - Molecular Cell, 2022 - cell.com
Mass spectrometry (MS)-based proteomics has become a powerful technology to quantify
the entire complement of proteins in cells or tissues. Here, we review challenges and recent …

Human disease models in drug development

A Loewa, JJ Feng, S Hedtrich - Nature reviews bioengineering, 2023 - nature.com
Biomedical research is undergoing a paradigm shift towards approaches centred on human
disease models owing to the notoriously high failure rates of the current drug development …

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 …

Streamlined single-cell proteomics by an integrated microfluidic chip and data-independent acquisition mass spectrometry

ST Gebreyesus, AA Siyal, RB Kitata, ESW Chen… - Nature …, 2022 - nature.com
Single-cell proteomics can reveal cellular phenotypic heterogeneity and cell-specific
functional networks underlying biological processes. Here, we present a streamlined …

Single-cell proteomics: progress and prospects

RT Kelly - Molecular & Cellular Proteomics, 2020 - ASBMB
MS-based proteome profiling has become increasingly comprehensive and quantitative, yet
a persistent shortcoming has been the relatively large samples required to achieve an in …

Spatially resolved mass spectrometry at the single cell: recent innovations in proteomics and metabolomics

MJ Taylor, JK Lukowski… - Journal of the American …, 2021 - ACS Publications
Biological systems are composed of heterogeneous populations of cells that
intercommunicate to form a functional living tissue. Biological function varies greatly across …

MSBooster: improving peptide identification rates using deep learning-based features

KL Yang, F Yu, GC Teo, K Li, V Demichev… - Nature …, 2023 - nature.com
Peptide identification in liquid chromatography-tandem mass spectrometry (LC-MS/MS)
experiments relies on computational algorithms for matching acquired MS/MS spectra …

IonQuant enables accurate and sensitive label-free quantification with FDR-controlled match-between-runs

F Yu, SE Haynes, AI Nesvizhskii - Molecular & Cellular Proteomics, 2021 - ASBMB
Missing values weaken the power of label-free quantitative proteomic experiments to
uncover true quantitative differences between biological samples or experimental …

Defining the carrier proteome limit for single-cell proteomics

TK Cheung, CY Lee, FP Bayer, A McCoy, B Kuster… - Nature …, 2021 - nature.com
Single-cell proteomics by mass spectrometry (SCoPE-MS) is a recently introduced method
to quantify multiplexed single-cell proteomes. While this technique has generated great …

Robust and easy-to-use one-pot workflow for label-free single-cell proteomics

M Matzinger, E Müller, G Dürnberger… - Analytical …, 2023 - ACS Publications
The analysis of ultralow input samples or even individual cells is essential to answering a
multitude of biomedical questions, but current proteomic workflows are limited in their …