This workflow uses the PepQuery tool to verify peptides discovered with the clinical metaproteomics discovery workflow. The PepQuery tool outputs verified peptides that can be used to generate a verified protein database that can be used for the clinical metaproteomics quantitation workflow.
More background on this workflow can be found in the Clinical Metaproteomics 3: Verification tutorial
- SGPS peptide report
- MaxQuant Peptide report
- Distinct Peptides for PepQuery
- Uniprot HUMAN database
- cRAP
The tandem MS/MS files can be downloaded via Zenodo. These MS/MS input files are pilot datasets from Papanicolaou test samples from healthy, benign and ovarian cancer patients.
For PepQuery:
- Search Tolerances
- Digestion Enzyme
- Peptide Length
- Modifications
Extract protein sequences for the verified peptides.