Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics.

ABSTRACT: Major aims of single-cell proteomics include increasing the consistency, sensitivity and depth of protein quantification, especially for proteins and modifications of biological interest. Here, to simultaneously advance all these aims, we developed prioritized Single-Cell ProtEomics (pSCoPE). pSCoPE consistently analyzes thousands of prioritized peptides across all single cells (thus increasing data completeness) while maximizing instrument time spent analyzing identifiable peptides, thus increasing proteome depth. These strategies increased the sensitivity, data completeness and proteome coverage over twofold. The gains enabled quantifying protein variation in untreated and lipopolysaccharide-treated primary macrophages. Within each condition, proteins covaried within functional sets, inc

SUBMITTER: Huffman RG 

PROVIDER: S-EPMC10172113 | biostudies-literature | 2023 May

REPOSITORIES: biostudies-literature