Work

A deeper look at carrier proteome effects for single-cell proteomics

Year: 2022

Type: article

Abstract: Multiplexing approaches using tandem mass tags with a carrier proteome to boost sensitivity have advanced single cell proteomics by mass spectrometry (SCoPE-MS). Here, we probe the carrier proteome effects in single cell proteomics with mixed species TMTpro-labeled samples. We demonstrate that carrier proteomes, while increasing overall identifications, dictate which proteins are identified. We show that quantitative precision and signal intensity are limited at high carrier levels, hindering the recognition of regulated proteins. Guidelines for optimized mass spectrometry acquisition parameters and best practices for fold-change or protein copy number-based comparisons are provided.

Source: Communications Biology

DOI: 10.1038/s42003-022-03095-4

Authors: Zilu Ye, Tanveer S. Batth, Patrick Rüther, Jesper V. Olsen

Institutions: University of Copenhagen, Novo Nordisk Foundation

Language: English

Topic: Advanced Proteomics Techniques and Applications

Subfield: Spectroscopy

Field: Chemistry

Domain: Physical Sciences

Open Access status: gold

Estimated APC paid: $3,490

Funders: European Commission, Novo Nordisk, Novo Nordisk Fonden, Horizon 2020 Framework Programme