PepQuery: a targeted peptide search engine for identifying or validating known and novel peptides of interest in MS-based proteomics data.
Web server: http://pepquery.org/
PepQuery can be used in two ways:
- Online version: search a peptide of interest in curated large-scale proteomics MS/MS datasets;
- Standalone version: batch search a list of peptides in any MS/MS datasets.
Wen, B., et al. (2019). "PepQuery enables fast, accurate, and convenient proteomic validation of novel genomic alterations." Genome research 29(3): 485-493. Manuscript
Wen, B., Li, K., Zhang, Y. et al. (2020). "Cancer neoantigen prioritization through sensitive and reliable proteogenomics analysis." Nature Communications 11, 1759. Manuscript
Wen, B., Zhang, B. (2023) PepQuery2 democratizes public MS proteomics data for rapid peptide searching. Nature Communications 14, 2213. Manuscript