Table 3 Quantitative Validation.

From: A merged microarray meta-dataset for transcriptionally profiling colorectal neoplasm formation and progression

Study

Platform

Samples (n)

Common Genes

Correlation of LogFC to Meta-dataset

Normal

Adenoma

Cancer

AvN

CvA

CvN

TCGA-COAD

Illumina Hi-Seq

41

0

478

7,856

 -

 -

0.90

GSE41657

Agilent 4 × 44K

12

51

25

7,578

0.72

0.60

0.74

GSE50114

Agilent 4 × 44K

9

37

0

5,979

0.88

 -

 -

GSE68468

Affymetrix HG U133A

0

13

374

5,912

 -

0.78

 -

GSE100179

Affymetrix HT Array 2.0

20

20

20

7,989

0.83

0.69

0.79

GSE117606

Affymetrix HT HG-U133+

65

69

74

7,752

0.79

0.73

0.84

  1. Quantitative validation of the Meta-dataset was carried out by comparing the LogFC values of common genes across each pairwise comparison, including adenoma vs. normal (AvN), CRC vs. adenoma (CvA), and CRC vs. normal (CvN), between the Meta-dataset and six external datasets via Spearman correlation. In addition to the spearman correlation coefficient (Rs) given for each comparison, the instrument platform, the number of samples for each tissue type, and the number of common genes is provided. “-” indicates that no comparison was made due to the lack of tissue type representation. All Rs values are significant at P < 0.0001.
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