quantGenius: implementation of a decision support system for qPCR-based gene quantification

BMC Bioinformatics

Table 1 Comparison of selected features of quantGenius and other software tools

Analysis tool/Feature	Quantification method	Multiple reference genes	Quality control factor
Analysis tool/Feature	Quantification method	Multiple reference genes	Replicates	Extraction control	LOQ	LOD	Sample efficiency	gDNA
quantGenius	Std.curve	+	+	+	+	+	+	-
GenEx	ΔΔCq-E/Std.curve	+	+	-	-	+	-	+
qBase+	ΔΔCq-E	+	+	+	-	-	-	-
REST	ΔΔCq-E	+	+	-	-	-	-	-
DAG Expression	Std.curve	+	+	-	-	-	-	-

Quantification method, use of multiple reference genes for normalization and implementation of QC factors in quantification are compared. Std.curve – standard curve, ΔΔCq-E – efficiency corrected ΔΔCq method, replicates – replicate variability, extraction control – extraction efficiency, LOQ/LOD imputation – identification and imputation of copy numbers that are under LOQ or LOD, respectively, sample efficiency – individual sample efficiency estimate, gDNA – gDNA contamination correction

ISSN: 1471-2105