TABLE 2.

Anti-HIF-2α chromatin immunoprecipitation (top 25 gene loci)

The table gives the chromosomal coordinates of each anti-HIF-2α immunoprecipitated locus meeting criteria of an MA Z-score of >4, a width of >100 bp or >5 probes, and a false discovery rate of <5%, together with the maximum Z-score for anti-HIF-1α and anti-HIF-2α at that gene locus. The presence or absence, and position of any HRE core motif RCGTG within these sequences is given. The table also specifies whether the nearest gene to the immunoprecipitated locus was significantly regulated by exposure of cells to 1% hypoxia or 2 mm DMOG or by transfection of siRNAs directed against HIF-1α, HIF-2α, or both siRNAs in the Affymetrix expression arrays. Note that at a number of loci several sequences were immunoprecipitated that shared proximity to a common transcriptional start site. These loci are listed in order with the most strongly enriched site indicated in bold type and others in normal type.

HIF-2	Gene Annotation	Gene name	RefSEQ number	Regulated in array	Chromosome	Start	End	Strand	Max Z-score		RCGTG
									HIF-2	HIF-1
1	ASMT	Acetylserotonin o-methyltransferase	NM_004043	No	chrX	1,842,483	1,844,249	+	21.9	17.9	Yes
2	PLS3	Plastin 3 (t isoform)	NM_005032	No	chrX	114,898,432	114,899,202	+	17.4	15.8	Yes
3	ZMYND8	Protein kinase C-binding protein 1	NM_012408	Yes	chr20	45,422,559	45,423,470	−	15.2	12.1	Yes
					chr20	45,421,078	45,421,975	−	12.5		Yes
4	FAM139A	Hypothetical protein flj40722	NM_173678	Yes	chr7	143,028,228	143,029,153	+	14.0	11.8	Yes
5	TF	Transferrin	NM_001063	No	chr3	134944,026	134,944,856	+	13.6	10.7	Yes
6	DHX35	Deah (Asp-Glu-Ala-His) box polypeptide 35	NM_021931	No	chr20	37022,195	37,022,900	+	12.7	5.6	No
7	SEC61G	Sec61 γ-subunit	NM_001012456	No	chr7	54794,671	54,794,993	−	12.2	13.4	No
8	HIG2	Hypoxia-inducible protein 2	NM_013332	Yes	chr7	127,882,554	127,883,114	+	12.1	9.5	Yes
9	CITED2	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxyl-terminal domain, 2	NM_006079	Yes	chr6	139,738,163	139,739,480	−	12.1	8.1	Yes
10	RAPGEF1	Rap guanine nucleotide exchange factor (gef) 1	NM_005312	No	chr9	133,609,690	133,610,065	−	12.0	6.2	Yes
11	CHD1L	Chromodomain helicase DNA-binding protein 1-like	NM_004284	No	chr1	145,181,416	145,181,919	+	11.9	7.5	Yes
12	UPK1B	Uroplakin 1b	NM_006952	No	chr3	120,386,306	120,387,057	+	11.7	8.6	Yes
13	KIAA0195	Kiaa0195	NM_014738	No	chr17	70,960,840	70,961,202	+	11.6	9.7	Yes
14	BACE2	β-Site app-cleaving enzyme 2	NM_138992	Yes	chr21	41,458,829	41,460,026	+	11.4	8.7	Yes
15	C1ORF161	Chromosome 1 open reading frame 161	NM_152367	No	chr1	116,455,368	116,456,452	+	11.2	6.9	Yes
16	GPRC5A	G protein-coupled receptor, family c, group 5, member a	NM_003979	Yes	chr12	12,916,200	12,917,123	+	11.2	6.1	Yes
17	UBC	Ubiquitin c	NM_021009	No	chr12	123,966,902	123,967,854	−	11.2	7.4	No
18	S100A4	S100 calcium-binding protein a4 (calcium protein, calvasculin, metastasin, murine placental homolog)	NM_002961	Yes	chr1	151,784,245	151,784,831	−	11.1	4.7	Yes
19	FLJ16641	Flj16641 protein	NM_001004316	No	chr3	158,017,688	158,018,251	+	10.8	9.3	Yes
					chr3	158,012,829	158,013,289	+	8.9		Yes
					chr3	158,027,265	158,027,560	+	7.4		Yes
20	ARRDC3	Arrestin domain containing 3	NM_020801	No	chr5	90,612,390	90,613,364	−	10.6	9.4	Yes
21	CYP27C1	Flj16008 protein	NM_001001665	No	chr2	127,700,812	127,701,131	−	10.5	8.3	Yes
22	DARS	Aspartyl-tRNA synthetase	NM_001349	Yes	chr2	136,458,799	136,459,291	−	9.8	15.5	Yes
23	PLAC8	Placenta-specific 8	NM_016619	Yes	chr4	84,253,030	84,253,558	−	9.8	4.8	Yes
24	C9ORF30	Chromosome 9 open reading frame 30	NM_080655	No	chr9	102,228,622	102,228,871	+	9.7	10.3	Yes
25	FLJ39743	Hypothetical protein flj39743	NM_182562	No	chr15	96,875,764	96,876,378	−	9.7	5.9	Yes