P4PP: A Universal Shotgun Proteomics Data Analysis Pipeline for Virus Identification.

ABSTRACT: Humans can be infected by a wide variety of virus species. We developed a data analysis approach for shotgun proteomic data to detect these viruses. A proteome for pandemic preparedness (P4PP) pipeline, a corresponding database (P4PP v01), and a web application (P4PP) were constructed. The P4PP pipeline enables the identification of 1896 virus species from the 32 virus families, based on multiple identified discriminatory peptides, in which at least one human infectious virus is described. P4PP was evaluated using different datasets of cell-cultivated viruses, generated at different institutes, measured with different instruments, and prepared with different sample preparation methods. In total, 174 mass spectrometry datasets of 160 and 14 protein trypsin digests of virus-infected and noni

SUBMITTER: Paauw A 

PROVIDER: S-EPMC12418414 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature