ProtPipe: A Multifunctional Data Analysis Pipeline for Proteomics and Peptidomics.

ABSTRACT: Mass spectrometry (MS) is a technique widely employed for the identification and characterization of proteins, with personalized medicine, systems biology, and biomedical applications. The application of MS-based proteomics advances our understanding of protein function, cellular signaling, and complex biological systems. MS data analysis is a critical process that includes identifying and quantifying proteins and peptides and then exploring their biological functions in downstream analyses. To address the complexities associated with MS data analysis, we developed ProtPipe to streamline and automate the processing and analysis of high-throughput proteomics and peptidomics datasets with DIA-NN preinstalled. The pipeline facilitates data quality control, sample filtering, and normalization,

SUBMITTER: Li Z 

PROVIDER: S-EPMC11842048 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature