Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates

BMC Genomics

Table 2 Pearson correlation coefficients across data sets

	Affymetrix	Amersham	Mergen	ABI	Illumina	MPSS (17 bp)	MPSS (20 bp)
Affymetrix	0.99	0.58	0.49	0.53	0.49	0.48	0.47
Amersham	0.56	0.99	0.51	0.60	0.52	0.45	0.45
Mergen	0.49	0.50	0.99	0.48	0.42	0.41	0.39
ABI	0.53	0.59	0.46	0.99	0.56	0.41	0.40
Illumina	0.51	0.51	0.44	0.55	0.99	0.39	0.38
MPSS (17 bp)	0.52	0.45	0.44	0.43	0.40	0.65	0.98
MPSS (20 bp)	0.51	0.46	0.44	0.44	0.40	0.98	0.65

Gene expression data after filtering (microarray intensities and MPSS tag counts) were log₁₀-transformed prior to calculating the Pearson correlations. Both microarray and MPSS measurements were mapped to UniGene clusters. The upper and lower triangle shows pair-wise correlations for data on MRP1 and MRP2, respectively. The numbers on the diagonal are the within-platform correlations between MRP1 and MRP2.

ISSN: 1471-2164