Data-independent acquisition (DIA) mass spectrometry (MS) has emerged as a powerful
technology for high-throughput, accurate, and reproducible quantitative proteomics. This …

Targeted proteomics via selected reaction monitoring (SRM) or parallel reaction monitoring
(PRM) enables fast and sensitive detection of a preselected set of target peptides. However …

Plants are essential for life and are extremely diverse organisms with unique molecular
capabilities. Here we present a quantitative atlas of the transcriptomes, proteomes and …

In mass-spectrometry-based proteomics, the identification and quantification of peptides and
proteins heavily rely on sequence database searching or spectral library matching. The lack …

Characterizing the human leukocyte antigen (HLA) bound ligandome by mass spectrometry
(MS) holds great promise for develo** vaccines and drugs for immune-oncology. Still, the …

Nano-flow liquid chromatography tandem mass spectrometry (nano-flow LC–MS/MS) is the
mainstay in proteome research because of its excellent sensitivity but often comes at the …

Data-independent acquisition approaches typically rely on experiment-specific spectrum
libraries, requiring offline fractionation and tens to hundreds of injections. We demonstrate a …

The inclusion of peptide retention time prediction promises to remove peptide identification
ambiguity in complex liquid chromatography–mass spectrometry identification workflows …

Abstract ProteomicsDB (https://www. ProteomicsDB. org) started as a protein-centric in-
memory database for the exploration of large collections of quantitative mass spectrometry …

Abstract ProteomicsDB (https://www. ProteomicsDB. org) is a protein-centric in-memory
database for the exploration of large collections of quantitative mass spectrometry-based …