Use of Linear Ion Traps in Data-Independent Acquisition Methods Benefits Low-Input Proteomics

The need for a better
understanding of cellular heterogeneity has
pushed mass spectrometry technologies to the analysis of single-cell
and single-cell-type proteomes, although several challenges still
limit their widespread implementation. Among the efforts toward single-cell
and low-input analyses, there is the adoption of data-independent
acquisition methods to increase analytical sensitivity. Here, we revisited
the use of linear ion traps mass analyzers in data-independent acquisition
methods and demonstrate their benefits to boost peptide and protein
identifications in low-input proteomes.