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) :

UniProt Swiss-Prot: UniprotSwP-2020_03.fasta

Metagenome (+ Swiss-Prot): MG_BG__UPSP.fasta

MS Datasets (MGF):

FASP digest: FASP_BGP_A.mgf

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)