Combined protein reports

Contents of each column in a combined_protein.tsv report are described here. Each row is a protein identified in the experiment.

Protein Group protein group as calculated by ProteinProphet

SubGroup protein sub-group as calculated by ProteinProphet

Protein protein sequence header corresponding to the identified peptide sequence inferred from combined evidence; this will be the selected razor protein if the peptide maps to multiple proteins

Protein ID protein identifier (primary accession number) for the selected protein

Entry Name entry name for the selected protein

Gene Name gene name for the selected protein

Protein Length number of amino acid sequences in the selected protein

Coverage percent of total protein length represented by the identified peptides

Organism species corresponding to the protein identification

Protein Existence type of evidence for the existence of the protein

Description name of the selected protein

Protein Probability confidence score determined by ProteinProphet from combined evidence, higher values indicate greater confidence

Top Peptide Probability highest PeptideProphet confidence score from all peptides that map to the protein

Unique Stripped Peptides number of unique peptide sequences mapping to the protein

Summarized Total Spectral Count total number of PSMs with sequences mapping to the selected protein, includes shared PSMs

Summarized Unique Spectral Count number of PSMs with sequences mapping only to the selected protein

Summarized Razor Spectral Count number of PSMs where the selected protein is the razor assignment for that PSM

<sample> Total Spectral Count total number of PSMs in the sample with sequences mapping to the selected protein, includes shared PSMs

<sample> Unique Spectral Count number of PSMs in the sample with sequences mapping only to the selected protein

<sample> Razor Spectral Count number of PSMs in the sample where the selected protein is the razor assignment for that PSM

<sample> Total Intensity summed precursor intensities from all PSMs in the sample with sequences mapping to the selected protein (including shared PSMs)

<sample> Unique Intensity summed precursor intensities from all PSMs in the sample with sequences mapping only to the selected protein

<sample> Razor Intensity summed precursor intensities from all PSMs in the sample where the selected protein is the razor assignment for that PSM

Indistinguishable Proteins proteins that cannot be distinguised from the selected protein given all sequences/evidence identified in the experiment