Figure 4
From: A straightforward and efficient analytical pipeline for metaproteome characterization
Pipeline evaluation using 4MUM. (A) Analysis of run reproducibility at the ORF level. Left: scatter plot illustrating the correlation between the number of PSMs detected in the two runs (r = Pearson correlation coefficient); each point in the plot represents an identified ORF. Right: Venn diagrams depicting the overlap of ORF identifications between the two runs (left diagram, all identified ORFs; right diagram, ORF identified with at least two PSMs; percentage of overlap in brackets). (B) Analysis of run reproducibility at the peptide level. Left: scatter plot illustrating the correlation between the number of PSMs detected in two runs (r = Pearson correlation coefficient); each point in the plot represents an identified peptide. Right: Venn diagrams depicting the overlap of peptide identifications between the two runs (left diagram, all identified peptides; right diagram, peptide identified with at least two PSMs; percentage of overlap in brackets). (C) Scatter plot illustrating the correlation between the number of bacterial CFUs (namely, 1010 CFUs of E. faecalis, 108 CFUs of E. coli and P. multocida, respectively, and 106 CFUs of L. acidophilus) and the corresponding number of identified PSMs. For abbreviations of microbial strains, see caption of Figure 1.