Single-cell proteomics enabled by next-generation sequencing or mass spectrometry

HM Bennett, W Stephenson, CM Rose, S Darmanis - Nature Methods, 2023 - nature.com
In the last decade, single-cell RNA sequencing routinely performed on large numbers of
single cells has greatly advanced our understanding of the underlying heterogeneity of …

A review of the current state of single-cell proteomics and future perspective

R Ahmad, B Budnik - Analytical and Bioanalytical Chemistry, 2023 - Springer
Single-cell methodologies and technologies have started a revolution in biology which until
recently has primarily been limited to deep sequencing and imaging modalities. With the …

Automated single-cell proteomics providing sufficient proteome depth to study complex biology beyond cell type classifications

C Ctortecka, NM Clark, BW Boyle, A Seth… - Nature …, 2024 - nature.com
The recent technological and computational advances in mass spectrometry-based single-
cell proteomics have pushed the boundaries of sensitivity and throughput. However …

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 …

Data‐dependent acquisition with precursor coisolation improves proteome coverage and measurement throughput for label‐free single‐cell proteomics

T Truong, KGI Webber… - Angewandte Chemie …, 2023 - Wiley Online Library
We combined efficient sample preparation and ultra‐low‐flow liquid chromatography with a
newly developed data acquisition and analysis scheme termed wide window acquisition …

Recent advances in isobaric labeling and applications in quantitative proteomics

MK Sivanich, TJ Gu, DN Tabang, L Li - Proteomics, 2022 - Wiley Online Library
Mass spectrometry (MS) has emerged at the forefront of quantitative proteomic techniques.
Liquid chromatography‐mass spectrometry (LC‐MS) can be used to determine abundances …

Micropillar arrays, wide window acquisition and AI-based data analysis improve comprehensiveness in multiple proteomic applications

M Matzinger, A Schmücker, R Yelagandula… - Nature …, 2024 - nature.com
Comprehensive proteomic analysis is essential to elucidate molecular pathways and protein
functions. Despite tremendous progress in proteomics, current studies still suffer from limited …

Plant proteome dynamics

J Mergner, B Kuster - Annual Review of Plant Biology, 2022 - annualreviews.org
Proteins are intimately involved in executing and controlling virtually all cellular processes.
To understand the molecular mechanisms that underlie plant phenotypes, it is essential to …

Instrumentation at the leading edge of proteomics

TM Peters-Clarke, JJ Coon, NM Riley - Analytical Chemistry, 2024 - ACS Publications
The proteome, or collection of proteoforms expressed in a biological system, is dynamic and
heterogeneous. As our appreciation for the complexity of the proteome has evolved, so have …

Insights into protein post-translational modification landscapes of individual human cells by trapped ion mobility time-of-flight mass spectrometry

BC Orsburn, Y Yuan, NN Bumpus - Nature communications, 2022 - nature.com
Single cell proteomics is a powerful tool with potential for markedly enhancing
understanding of cellular processes. Here we report the development and application of …