2026-05-07T13:56:21Z https://api.figshare.com/v2/oai
oai:figshare.com:article/30579419 2025-11-10T11:30:03Z category_24178 category_24136 category_24208 category_25270 portal_549 item_type_3 month_year_11_2025
10.5522/04/30579419.v1 https://figshare.com/articles/dataset/_b_Myelin_Basic_Protein_MBP_Degradome_Foundation_Atlas_b_/30579419 https://ndownloader.figshare.com/files/59432651 https://ndownloader.figshare.com/files/59434091 https://ndownloader.figshare.com/files/59434367 https://ndownloader.figshare.com/files/59434370 https://ndownloader.figshare.com/files/59436029 Petzold, Axel Axel Petzold 0000-0002-0344-9749 <![CDATA[<b>Myelin Basic Protein (MBP) Degradome Foundation Atlas</b>]]> Biochemistry and cell biology not elsewhere classified Analytical biochemistry Bioinformatics and computational biology not elsewhere classified Theoretical and computational chemistry not elsewhere classified MBP MYELIN BASIC-PROTEIN myelin basic protein antigen myelin basic protein (MBP) 2025-11-10 2025-11-10 Dataset 2025 University College London The MBP Degradome Foundation Atlas (Version 1) is an open-access, fully reproducible dataset that provides the first comprehensive representation of the complete proteolytic degradome of Myelin Basic Protein (MBP). MBP is a key structural component of central nervous system myelin, and a central antigen in demyelinating diseases, including multiple sclerosis (MS) and other inflammatory neurological disorders.

This atlas systematically enumerates and characterizes all possible proteolytic MBP peptide fragments defined by a curated set of experimentally and literature-supported cleavage sites. The degradome concept captures the dynamic pool of MBP fragments that arise through proteolysis in vivo full-length MBP. This dataset therefore aims to support biomarker discovery, mechanistic proteomics, and translational research in neuroimmunology and neurodegeneration.

Scientific Rationale

Instead of treating MBP as a single, static protein species, the degradome model reflects a biologically realistic landscape of coexisting proteolytic fragments. This is particularly relevant because:

  • MBP undergoes extensive physiologic and pathologic proteolysis.
  • Specific MBP fragments act as antigens and immunomodulatory signals.
  • Fragment composition may vary with disease activity, genotype, or therapeutic intervention.

Dataset Contents

The compressed archive includes:

  • MBP_WT.csv — full degradome of wild-type MBP
  • MBP_R159K.csv — full degradome of the R159K MBP variant
  • MBP_Degradome_All.csv — merged and unified dataset combining all included MBP variants
  • Python source code used to generate all peptide fragments and compute peptide features
  • README.txt — structured technical documentation
  • requirements.txt — software dependency list for reproducibility

Data Format

All files are provided in CSV (comma-separated values) format and include the following annotated fields:

  • id — structured peptide identifier (e.g., MBP_WT_10_42)
  • peptide — amino acid sequence
  • start, stop — cleavage positions
  • mz — mass-to-charge ratio
  • Da — molecular weight
  • Boman — Boman index
  • charge — net charge
  • pI — isoelectric point
  • hydrophobicity
  • instability_index
  • aliphatic_index

These properties enable integration into R, Python, SAS, Matlab, and machine learning workflows.

Software and Reproducibility

The dataset is built using open-source tools:

  • Python 3
  • pandas for data handling
  • peptides library for physicochemical property computation
  • sqlite3 for intermediate in-memory processing
  • psutil for optional resource monitoring

All scripts are fully documented in the repository, ensuring full reproducibility.

Applications

This dataset is intended for use in:

  • Biomarker discovery and validation in demyelinating diseases
  • Computational proteomics, including cleavage pattern modeling
  • Characterisation of MBP variants and SNP-associated degradome changes
  • Machine-learning feature engineering for immunoproteomics
  • Structural, immunological, and functional analysis of MBP fragments

Keywords (for discoverability)

Myelin basic protein, MBP, degradome, proteolysis, neuroimmunology, neurodegeneration, multiple sclerosis, demyelinating diseases, proteomics, peptide atlas, biomarker discovery, R159K, CNS autoimmunity, bioinformatics, mass spectrometry, immunoproteomics.

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