MePPi: A complete and flexible workflow for metaproteomics data analyses

Data for an examplary metaproteomics data analysis with the MetaProteomeAnalyzer (MPA) and Prophane software tools. Data is from the PRIDE dataset PXD010550.

Files include:

• protein databases (FASTA) :
  1. UniProt Swiss-Prot: UniprotSwP-2020_03.fasta
  2. Metagenome (+ Swiss-Prot): MG_BG__UPSP.fasta
• MS Datasets (MGF):
  1. FASP digest: FASP_BGP_A.mgf
  2. In-gel digest: InGel_BGP_A.mgf
• Example results for a single experiment analysis (Sample A, based on: MS data: FASP digest, FASTA: UniProt Swiss-Prot):
  • MPA results: mpa_result-sample_a-fdr_0.05-single_exp.csv
  • Prophane results: prophane_result-sample_a.zip
• Example results for a multi-experiment analysis (Sample B, based on: MS data: FASP + in-gel digest, FASTA: Metagenome):
  • MPA results: mpa_result-sample_b-fdr_0.01-multi_exp.csv
  • Prophane results: prophane_result-sample_b.zip
• MPA data dump including preprocessed UniProt Swiss-Prot FASTA (optionally used by conda mpa-server package)