Fig. 7.

Assessing statistical versus biological relevance. A, volcano plot of all 1,172 quantified proteins from the 10 versus 30 °C data set displaying the relationship between statistical significance and FC of each protein. The log₂ FC (x axis) was plotted against the −log₁₀ q value (y axis). A q value threshold of 0.2 (dashed horizontal line) and >1.5-FC (vertical dashed lines) are shown where open circles are differentially abundant proteins with small q values and large FCs. B–D, normalized FC values of three representative proteins were plotted across all 10 versus 30 °C experiments (A–F) to illustrate experimental variance. B, a representative protein with statistically significant differential abundance (q < 0.2) and a large FC value (i.e. the protein satisfies both statistical and FC criteria). C, a representative protein with a large FC that is not significantly differentially abundant (q > 0.2). D, a representative protein with statistically significant differential abundance (q < 0.2) and small FC.