Table 3

Summary of potential problems encountered during analysis of SID-MRM-MS data that often require manual identification or re-integration and their effect on the precision and accuracy of quantification.

Data Issue

Impact on Quantification

Poor chromatographic peak shape

Imprecise and inaccurate area assessment

Chromatographic peak too narrow (<6 points across)

Imprecise and inaccurate area assessment

Detector saturation

Inaccurate peak area assessment

Inconsistent integration between analyte and SIS peptides

Imprecise and inaccurate peak area assessment

Interference in analyte or SIS signals

Inaccurate peak area assessment

Mani et al. BMC Bioinformatics 2012 13(Suppl 16):S9   doi:10.1186/1471-2105-13-S16-S9

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