RP-HPLC peptide profiling of cheese extracts: A study of sources of variation, repeatability and reproducibility

► Sources of variation in RP-HPLC profiles of soluble cheese nitrogen were quantified. ► Conclusions on treatment effects based on PCA should be used with caution. ► PLS-Discriminant Analysis allows quantifying the relative importance of sources of variation. ► Sources of variation due to column performance were quantified using control charts.