The SNAP-25 Degradome Foundation Atlas (Version 1) is an open-access, fully reproducible reference dataset that provides the first comprehensive in silico reconstruction of the proteolytic degradome of SNAP-25, a neuronal SNARE protein encoded by the SNAP25 gene. SNAP-25 is a core component of the synaptic vesicle fusion machinery that drives neurotransmitter release at presynaptic terminals. Together with Syntaxin-1 and Synaptobrevin, SNAP-25 forms the neuronal SNARE complex responsible for calcium-triggered synaptic vesicle exocytosis.Beyond its established role in synaptic transmission, SNAP-25 has attracted increasing attention as a candidate biomarker of neuronal injury and synaptic dysfunction. Elevated concentrations of SNAP-25 have been reported in several neurological disorders, where the protein has been investigated as a potential indicator of synaptic degeneration and neurodegenerative disease processes.Proteins undergoing physiological turnover, proteolytic regulation, and pathological modification generate complex populations of peptide fragments. Experimental studies have shown that SNAP-25 can be proteolytically cleaved by endogenous proteases as well as bacterial neurotoxins such as Botulinum neurotoxin type A and Botulinum neurotoxin type E. However, the potential repertoire of SNAP-25-derived peptide fragments has not previously been systematically characterized.The SNAP-25 Degradome Foundation Atlas addresses this gap by enumerating the theoretical peptide landscape that may arise from enzymatic or chemical cleavage of the SNAP-25 primary sequence. Each predicted fragment is annotated with a comprehensive panel of physicochemical properties relevant to proteomics, biomarker discovery, and computational peptide analysis.Scope and ContentThe dataset comprises every predicted proteolytic fragment derived from the human SNAP-25 primary sequence based on defined cleavage boundaries. The atlas currently includes both major splice variants of SNAP-25 (isoforms A and B), which arise through alternative splicing and are differentially expressed during neuronal development.The resulting fragment space includes overlapping peptides spanning the entire protein sequence.For each peptide, the dataset provides:Peptide identifier and coordinates (start and stop positions)Amino acid sequenceCalculated mass-to-charge ratio (m/z)Molecular weight (Da)Boman indexNet chargeIsoelectric point (pI)HydrophobicityInstability indexAliphatic indexThese features provide a unified, feature-rich representation suitable for mass-spectrometry analysis, biomarker discovery, and computational proteomics workflows.Methods SummaryThe Degradome Atlas was generated using a reproducible Python workflow consisting of the following steps:Definition of cleavage sitesExperimentally reported and computationally defined cleavage positions were specified along the SNAP-25 amino-acid sequence.Fragment enumerationAll pairwise subsequences between cleavage boundaries were generated, producing the complete theoretical fragment space of the protein.Peptide property calculationPhysicochemical properties were calculated using the peptides Python library.Structured data exportAll peptide information was exported as structured CSV tables.Dataset consolidationOutput files were merged and compressed into a single FAIR-compliant archive (TAR.XZ format) to facilitate efficient distribution and reproducibility.The complete Python workflow is included in the repository, enabling transparent re-execution and extension to additional proteins, cleavage definitions, or sequence variants.Data Format and AccessPrimary fileSNAP25_Degradome_Foundation_Atlas_v1.tar.xzContentsCSV tables containing all predicted peptide fragments and calculated propertiesPython scripts used to generate the degradome datasetDocumentation describing the workflow and dataset structureFile TypeASCII comma-separated values (CSV)Compressionxz -9 -T0 (maximum parallel compression for efficient distribution)CompatibilityThe dataset can be used directly in:Python (pandas, NumPy)RMATLABSASExcel / LibreOfficeIt can also be integrated into proteomics workflows, including:SkylineMaxQuant preprocessingMS/MS spectral library constructioncomputational peptide modelling pipelinesFAIR PrinciplesThis dataset follows FAIR data principles.FindableRich metadata, persistent DOI, and a search-optimized dataset description.AccessiblePublicly available through the open-access Figshare repository.InteroperableStandard CSV format and widely used physicochemical descriptors enable integration with common computational and proteomics tools.ReusableThe dataset includes a fully reproducible Python workflow and transparent data generation pipeline.ApplicationsThe SNAP-25 Degradome Foundation Atlas enables research across several biomedical and computational domains:Biomarker discovery in neurodegenerative diseaseMass-spectrometry assay developmentComputational proteomics and peptide modellingNeo-epitope discovery and immunological studiesProteolytic pathway analysisSystems-level degradomicsThe dataset may also serve as a reference framework for interpreting peptide-level signals detected in cerebrospinal fluid or blood proteomic studies of neurological disease.Versioning and Future WorkThis release represents Version 1 of the SNAP-25 Degradome Foundation Atlas.Future updates will incorporate:additional experimentally validated cleavage sitesdisease-associated sequence variants of SNAP-25experimentally detected peptide fragmentsintegration with other degradome atlases to support systems-level biomarker researchThese developments will progressively refine modelling of SNAP-25 proteolysis in health and neurodegenerative disease.CitationIf you use this dataset, please cite the associated Figshare record: Doi:10.5522/04/32111917