Complementarity between reads-based database and other database types. Venn diagrams indicate overlap among non-redundant peptide identifications obtained using different sequence databases (see Additional file 1: Figure S1 and Additional file 2: Figure S2 for further details). Percentage increase related to the use of a given database in addition to the counterpart is shown on the bottom, on the same side and in the same color. Peptide identifications were obtained at 5Â % FDR, using three different bioinformatic platforms (left, MetaProteomeAnalyzer; middle, MaxQuant; right, Proteome Discoverer) with the corresponding (and above indicated) search engines and peptide validation tools. (TIF 1780 KB)