Comparing cDNA and oligonucleotide array data: concordance of gene expression across platforms for the NCI-60 cancer cells

Table 2 Gene-by-gene summary of correlation statistics between UniGene-matched cDNA- and oligo-array genes

UniGene cluster	Gene name	Chromosome location	cDNA clone ID	Oligo gene accession number	Pearson correlation coefficient	Spearman correlation coefficient	Pearson 95% bootstrap CI
Hs.2053*	TYR	11q14-q21	271985	M27160	0.961	0.427	(0.936, 0.985)
Hs.621	LGALS3	14q21-q22	510003	M57710	0.951	0.955	(0.929, 0.969)
Hs.76118	UCHL1	4p14	512355	X04741	0.944	0.895	(0.883, 0.975)
Hs.289114	HXB	9q33	487887	X78565	0.943	0.893	(0.921, 0.966)
Hs.286124	CD24	6q21	21822	L33930	0.943	0.924	(0.925, 0.962)
Hs.75621	SERPINA1	14q32.1	358836	K01396	0.943	0.691	(0.808, 0.973)
Hs.82772	COL11A1	1p21	287205	J04177	0.941	0.575	(0.865, 0.969)
Hs.76669	NNMT	11q23.1	429145	U08021	0.938	0.909	(0.909, 0.965)
Hs.256290	S100A11	1q21	510059	D38583	0.937	0.834	(0.849, 0.970)
Hs.1244	CD9	12p13	306170	M38690	0.937	0.922	(0.901, 0.964)
Hs.180255	HLA-DRB1	6p21.3	235903	M33600	0.936	0.651	(0.871, 0.973)
Hs.313	SPP1	4q21-q25	363981	U20758	0.935	0.828	(0.906, 0.959)
Hs.82985	COL5A2	2q14-q32	429203	M11718	0.931	0.806	(0.870, 0.963)
Hs.77274	PLAU	10q24	486215	X02419	0.931	0.897	(0.895, 0.963)
Hs.287820	FN1	2q34	512287	X02761	0.930	0.898	(0.901, 0.954)

Because of limitations of space, only the pairs with the 15 highest Pearson correlation coefficients are listed. The full table for 2,344 UniGene cluster pairs can be found at our website [22], along with descriptions of gene function. CI, confidence interval. *Hs.2053 represents an anomalous case in which the data points fell into two groups that were not well distinguished by ranks.

ISSN: 1474-760X