PeptidomicsDB: a unified resource of endogenous peptidomes for peptide discovery and functional exploration across species and biological contexts.

PeptidomicsDB reanalyzed 151 public peptidomics projects (3992 biological samples) to generate >33 million peptide records, including over 4 million unique sequences.

• Why it matters: Public peptidomics datasets are fragmented and processed with heterogeneous tools, which limits peptide-level retrieval, cross-study exploration, and reuse.
• What they did: The team standardized reanalysis using the DeepNovo Peptidome workflow in PEAKS Studio 13.0, then linked peptide, precursor-protein, sample, and dataset provenance with quantitative evidence and functional annotations.
• The result: Across 249 curated pairwise comparisons, 78 910 differentially abundant peptide records were found, and 14 context-specific datasets yielded 148 175 enriched peptide records for tissues, diseases, or cell types.