Cross-platform Data Analysis Reveals a Generic Gene Expression Signature for Microsatellite Instability in Colorectal Cancer

Table 3

Performance of the 25-gene expression signature and the published signatures trained exclusively on microarray data sets. As the main performance index was used the AUC and 95% CIs were computed using the DeLong’s method [20]. DeLong’s test [20] was used to compare the AUCs of the published signatures and the 25-gene expression signature on a given cohort (adjusted p-value < 0.05, Benjamini-Hochberg procedure [21]). significantly better performance of the signature in comparison with the 25-gene expression signature; significantly worse performance of the signature in comparison with the 25-gene expression signature; 25-gene expr.sig. the proposed 25-gene expression signature; AUC area under the receiver operating characteristic curve; CI confidence interval.

	Colon				Gastric		Endometrial
	A1 development	A2 development	B1 validation	B2 validation	C1	C2	D1
	RNA-seq	Microarray	Microarray	Microarray	RNA-seq	Microarray	RNA-seq
25-gene expr.sig.	0.94	0.95	0.92	0.80	0.90	0.83	0.71
	CI (0.90 – 0.97)	CI (0.92 – 0.97)	CI (0.81 – 1.00)	CI (0.70 – 0.90)	CI (0.85 – 0.94)	CI (0.69 – 0.97)	CI (0.62 – 0.81)
Giacomini et al. [11]	0.67	0.56	0.55	0.69	0.63	0.53	0.47
	CI (0.58 – 0.76)	CI (0.49 – 0.64)	CI (0.35 – 0.75)	CI (0.59 – 0.79)	CI (0.56 – 0.71)	CI (0.33 – 0.73)	CI (0.36 – 0.58)
Kruhøffer et al. [12]	0.88	0.99	0.92	0.81	0.74	0.85	0.62
	CI (0.82 – 0.95)	CI (0.98 – 1.00)	CI (0.75 – 1.00)	CI (0.70 – 0.92)	CI (0.67 – 0.81)	CI (0.70 – 1.00)	CI (0.52 – 0.72)
Lanza et al. [13]	0.96	0.92	0.90	0.78	0.82	0.70	0.63
	CI (0.92 – 0.99)	CI (0.89 – 0.95)	CI (0.82 – 0.99)	CI (0.70 – 0.87)	CI (0.76 – 0.87)	CI (0.52 – 0.89)	CI (0.53 – 0.73)
Tian et al. [14]	0.97	0.96	0.95	0.82	0.89	0.88	0.71
	CI (0.95 – 1.00)	CI (0.94 – 0.98)	CI (0.86 – 1.00)	CI (0.72 – 0.92)	CI (0.84 – 0.95)	CI (0.75 – 1.00)	CI (0.61 – 0.80)