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Table 1 Performance comparison of analysis order-based normalization methods using QC runs and the number of statistically significant ions between cases and controls

From: Gaussian process regression model for normalization of LC-MS data using scan-level information

Batch Raw LOESS LOESS-CV GPRM GPRM-EIC 2D-GPRM-EIC
1 Positive 5.0 5.2 4.6 2.9 2.5 2.1
2 Positive 7.0 4.3 3.7 2.5 2.2 1.8
1 Negative 5.0 3.8 3.6 3.0 2.6 2.2
2 Negative 20 12 10.9 6.8 5.7 4.4
(A) Percentage of the number of ions with significant QC variation (q ΞΆ < 0.1)
Mode Raw LOESS LOESS-CV GPRM GPRM-EIC 2D-GPRM-EIC
Positive 23 27 30 37 39 42
Negative 11 19 21 28 31 33
(B) Number of statistically significant ions between cases and controls, overlapping in batch B1 and B2