Integration of Genome-Wide Computation DRE Search, AhR ChIP-chip and Gene Expression Analyses of TCDD-Elicited Responses in the Mouse Liver

Table 3 Significantly over-represent transcription factor module families in TCDD-induced AhR enriched regions^a.

TF Module Family	Module Description	2 hr AhR enriched regions				24 hr AhR enriched regions
		# of matches	Expected # of matches	Over-representaion^b	Z-Score	# of matches	Expected # of matches	Over-representaion^b	Z-Score
AHR	AhR-ARNT heterodimer	9,447	4,278.30	2.21	79.03	851	297.44	2.86	32.07
SP1	GC-Box factors SP1/GC	19,356	12,839.04	1.51	57.54	1,346	892.61	1.51	15.17
HIF	Hypoxia inducible factor, bHLH/PAS protein family	8,763	4,841.13	1.81	56.37	569	336.57	1.69	12.64
E2F	E2F-Myc activator/cell cycle regulator	18,247	12,444.88	1.47	52.04	1,266	865.21	1.46	13.62
ZBP	Zinc binding protein factors	25,542	18,518.20	1.38	51.65	1,739	1,287.45	1.35	12.58
NRF1	Nuclear respiratory factor 1	3.475	1,494.81	2.32	51.21	252	103.92	2.42	14.48
ZF5	ZF5 POZ domain zinc finger	3,156	1,442.92	2.19	45.09	205	100.32	2.04	10.40
NF1	Nuclear factor 1	13,047	8,876.90	1.47	44.27	886	617.15	1.44	10.81
NR2F	Nuclear receptor subfamily 2 factors	44,774	36,390.64	1.23	44.02	3,180	2,530.00	1.26	12.93
EGR	EGR/nerve growth factor included protein c	22,224	16,794.62	1.32	41.92	1,541	1,167.62	1.32	11.
PPAR	Peroxisome proliferator-activated receptor	24,808	19,035.70	1.30	41.87	1,752	1,323.43	1.32	11.78
RXR	RXR heterodimer binding sites	41,027	33,441.00	1.23	41.54	2,932	2,324.93	1.26	12.60
WHN	Winged helix binding sites	3,030	1,477.23	2.05	40.39	206	102.70	2.01	10.14

^a AhR enriched regions with a FDR < 0.01
^b total number of matches in enriched regions/expected number of matches in genome
Complete list of over-represented TF module families are provided in Additional Files 6 and 7

ISSN: 1471-2164