Next-generation text-mining mediated generation of chemical response-specific gene sets for interpretation of gene expression data

Table 1 Chemical treatment prediction ranks

	ToxProfiler		Weighted global test		GeneCodis single annotation
	CTD	TM	CTD	TM	CTD	TM
BPA	9 (2.0e-07)	92 (1.0e-01)	18 (3.9e-04)	21 (6.2e-05)	10 (9.1e-08)	-
ESThsa	38 (8.8e-02)	400 (2.4e-01)	269 (3.2e-03)	920 (5.6e-04)	4 (2.4e-02)	-
ESTmmu	18 (3.5e-05)	189 (1.3e-04)	360 (5.7e-01)	482 (4.3e-01)	-	-
TCDD	19 (8.0e-07)	89 (1.2e-03)	14 (2.9e-10)	84 (5.7e-10)	1 (5.3e-32)	89 (1.7e-05)
VitD3	9 (4.5e-02)	400 (3.0e-01)	186 (2.4e-03)	762 (6.0e-04)	1 (2.0e-26)	200 (6.0e-03)
ZnSO4	9 (3.8e-05)	6 (3.4e-04)	3 (2.6e-06)	4 (6.8e-05)	-	-

Chemical treatment prediction rank and false discovery rate-corrected p-value (within parentheses) per gene expression data set for the different gene set analysis tools. Significant results (false discovery rate-corrected p<0.05) are in bold. GeneCodis only reports results with a false discovery rate-corrected p-value smaller than 0.05. Missing values denote such non-significant results.