Published November 14, 2024 | Version v3
Dataset Open

LC-MS/MS, PSM and BLG properties data from "Benchmarking the identification of a single degraded protein to explore optimal search strategies for ancient proteins"

Creators

  • 1. ROR icon University of Cambridge
  • 2. ROR icon University of Copenhagen

Description

This dataset contains the data analyzed in:

Rodriguez Palomo I, Nair B, Chang Y, Dartigues B, Dekker K, Mackie M, Evans M, Macleod R, Olsen JV, Collins MJ. (2023)  "Benchmarking the identification of a single degraded protein to explore optimal search strategies for ancient proteins"

It contains the following data:

  • raw_files.zip Thermo RAW files for the 0, 4 and 128 days samples
  • benchmark_results.zip PSMs data from the analysis of the RAW files
    • Data from runs in Mascot, Fragpipe, pFind, Metamorpheus, MaxQuant and DeNovoGUI
    • Parameters and workflow files for MaxQuant and Fragpipe
  • bovin_blg_prop.zip BLG properties files: amyloid formation, 3D structure and solvent accessibility
  • benchmark_table.csv Table with runs settings for benchmarking
  • parameters_table.xlsx Spreadsheet with software parameters, derived from files used to run each software

 

Files

benchmark_results.zip

Files (1.3 GB)

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Additional details

Funding

European Commission
PlaCe - Training the next generation of archaeological scientists: Interdisciplinary studies of pre-modern Plasters and Ceramics from the eastern Mediterranean 956410
European Commission
TALENT - TALENT Doctoral Fellowship Programme 801199
European Commission
B2C - Beasts to Craft: BioCodicology as a new approach to the study of parchment manuscripts 787282
European Commission
ChemArch - ChemArch: The organic chemistry and molecular biology of archaeological artefacts 956351