{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Schulte D"],"funding":["Exacte en Natuurwetenschappen","European Research Council"],"pagination":["23120-23130"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12573231"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["97(42)"],"pubmed_abstract":["Accurate and comprehensive peptide spectrum annotation is a crucial step to interpreting mass spectrometry-based proteomics data. While peak assignment in peptide fragmentation spectra is central to a broad range of proteomics applications, current tools tend to be specialized to a specific task. Here, we present a more comprehensive interactive graphical tool (Annotator), along with the underlying codebase written in Rust (rustyms). Annotator enables unified spectrum annotation for bottom-up, middle-down, top-down, cross-linked, and glycopeptide fragmentation mass spectra from all fragmentation methods, including all ion types: a/b/c, x/y/z, d/v/w, and immonium ions. The Annotator integrates all known post-translational modifications from common databases and additionally allows for the d"],"journal":["Analytical chemistry"],"pubmed_title":["A Universal Spectrum Annotator for Complex Peptidoforms in Mass Spectrometry-Based Proteomics."],"pmcid":["PMC12573231"],"funding_grant_id":["024.002.009","101077640"],"pubmed_authors":["Leuvenink RW","Heck AJR","Snijder J","Jager S","Schulte D"],"additional_accession":[]},"is_claimable":false,"name":"A Universal Spectrum Annotator for Complex Peptidoforms in Mass Spectrometry-Based Proteomics.","description":"Accurate and comprehensive peptide spectrum annotation is a crucial step to interpreting mass spectrometry-based proteomics data. While peak assignment in peptide fragmentation spectra is central to a broad range of proteomics applications, current tools tend to be specialized to a specific task. Here, we present a more comprehensive interactive graphical tool (Annotator), along with the underlying codebase written in Rust (rustyms). Annotator enables unified spectrum annotation for bottom-up, middle-down, top-down, cross-linked, and glycopeptide fragmentation mass spectra from all fragmentation methods, including all ion types: a/b/c, x/y/z, d/v/w, and immonium ions. The Annotator integrates all known post-translational modifications from common databases and additionally allows for the d","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Oct","modification":"2026-06-05T10:32:31.084Z","creation":"2026-05-16T03:07:53.263Z"},"accession":"S-EPMC12573231","cross_references":{"pubmed":["41085411"],"doi":["10.1021/acs.analchem.5c02832"]}}