MiningABs: mining associated biomarkers across multi-connected gene expression datasets

BMC Bioinformatics

Table 1 Characteristics of microarray datasets used in this study

Sample types	Dataset serial numbers	GEO accession numbers	Platform types	N/T	A/D	# of distinct genes in a platform	Avg length of sequences	Source of samples	References
Sample types	Dataset serial numbers	GEO accession numbers	Platform types	N/T	A/D	# of distinct genes in a platform	(Avg ± SD)	Source of samples	References
ESCC	1-1	GSE23400	Affymetrix HG-U133A	53/53	20,133/22,283	12,633	250 ± 22^†	China	[5]
	1-2	GSE23400	Affymetrix HG-U133B	51/51	14,110/22,477	9,256	250 ± 22^†	China	[5]
	1-3	GSE20347	Affymetrix HG-U133A_2	17/17	20,133/22,277	12,633	250 ± 22^†	China	[6]
	1-4	GSE29001	Affymetrix HG-U133A_2	12/12	20,133/22,277	12,633	250 ± 22^†	China	[7]
HCC	2-1	GSE14520	Affymetrix HG-U133A_2	19/22	20,133/22,277	12,633	250 ± 22^†	China	[8]
	2-2	GSE14520	Affymetrix HT_HG-U133A	210/225	20,429/22,277	12,743	440 ± 105^†	China	[8]
	2-3	GSE17856	Agilent 014850	44/43	20,772/25,073	14,312	60 ± 0^††	Japan	[9]

ESCC: esophageal squamous cell carcinoma; HCC: hepatocellular carcinoma; N: # of normal samples; T: # of tumor samples; A: # of available probes matched with distinguishable gene IDs in a platform; D: # of downloaded probes contained in a platform; Avg: average; SD: standard deviation; ^†: Affymetrix probe set-matched target sequence; ^††: Agilent spotted sequence.

ISSN: 1471-2105