Identifying differential correlation in gene/pathway combinations

BMC Bioinformatics

Table 3 High S_GPC pairs, lung

Affy HGU95 ID	Gene symbol	KEGG ID	Pathway description	S _GPC	p
38835_at	TM9SF1	00900	Terpenoid biosynthesis	0.621	5e-04
41129_at	TMEM41B	00900	Terpenoid biosynthesis	0.603	0.0017
39405_at	UTP14C	00900	Terpenoid biosynthesis	0.58	0.0015
32150_at	GOLGA4	00900	Terpenoid biosynthesis	0.558	0.0049
1394_at	RHOA	00900	Terpenoid biosynthesis	0.534	0.0039
326_i_at	RPS20*	03010	Ribosome	0.507	0.0015
39009_at	LSM3	03050	Proteasome	0.484	0.0053
37748_at	KIAA0232	00900	Terpenoid biosynthesis	0.477	0.0022
33859_at	SAP18	00900	Terpenoid biosynthesis	0.463	0.0072
31853_at	EED	03050	Proteasome	0.462	0.0105
38668_at	GPATCH8	00900	Terpenoid biosynthesis	0.461	0.0064
40140_at	RNF103	00900	Terpenoid biosynthesis	0.456	0.0077
34326_at	COPB1	00900	Terpenoid biosynthesis	0.45	0.0083
33880_at	ACSL3	00900	Terpenoid biosynthesis	0.441	0.0119
40623_at	UBE3B	00900	Terpenoid biosynthesis	0.422	0.0093
33423_g_at	SEC13	03050	Proteasome	0.411	0.0089
37891_at	YIPF6	00900	Terpenoid biosynthesis	0.408	0.0105
41159_at	CLTC	00900	Terpenoid biosynthesis	0.408	0.0193
35845_at	SEC24B	00900	Terpenoid biosynthesis	0.405	0.0179
32051_at	ALG8	00900	Terpenoid biosynthesis	0.397	0.0139
39336_at	ARF3	00900	Terpenoid biosynthesis	0.385	0.0131
40115_at	ATP5C1	03050	Proteasome	0.384	0.0138
38811_at	ATIC	03050	Proteasome	0.378	0.0188
40411_at	NCOA6	00900	Terpenoid biosynthesis	0.377	0.0117
1985_s_at	NME1	03050	Proteasome	0.369	0.0073
35760_at	ATP5H	03050	Proteasome	0.356	0.0178
35290_at	YTHDF3	00900	Terpenoid biosynthesis	0.348	0.0033
40605_at	SNX4	00900	Terpenoid biosynthesis	0.348	0.0163

High-ranking gene-pathway pairs in lung data, sorted by descending S_GPC. Affymetrix ID, gene symbol, KEGG pathway ID, and pathway description are given, along with the GPC-scores; p values are based on a permutation test with 10⁴ resamplings. *The 326_i_at-Ribosome pair was included in the analysis due to the absence of annotation data for 326_i_at, but is correcly identified by the analysis as related; see the Results section.

ISSN: 1471-2105