Dose-dependent effects of small-molecule antagonists on the genomic landscape of androgen receptor binding

BMC Genomics

Table 1 Real-time quantitative PCR (qPCR) validation of AR binding sites

Genomic coordinates			Binding score (MACS)	Fold enrichment (MACS)	Fold enrichment over negative control (qPCR)	Primer sequence (forward)	Primer sequence (reverse)
chr	start	end	Binding score (MACS)	Fold enrichment (MACS)	Fold enrichment over negative control (qPCR)	Primer sequence (forward)	Primer sequence (reverse)
negative control						TGGACCTTTACCTGCTTTATCA	AGCAAGGACTAGGATGACAGAA
1	228856976	228857630	864.12	56.08	3.48	GAGGACACAACCCCATGACT	AGAGCGAAACTCCGTCTCAA
2	8808594	8809289	886.86	40.25	5.60	GATGGATGGATGGATGTCTT	CTGGTTTTCCAAGCTCACAA
2	237457017	237457622	633.63	26.93	8.63	GCAGGGAGGTCTTTGATCTG	TCCTGAATTGGTTTGCTCAT
3	187946846	187947612	665.42	25.52	8.93	CCCATTTGGCTTCTTACTTTGT	TTCCTTCCTGACTCCCACTG
4	175441647	175442310	986.29	39.85	23.03	CCAAAATATCATGTGCAATCAA	AAACACAATGCAAGAGGAACA
6	35699525	35700397	855.76	36.81	8.01	CGCATAGAAGCTAAGGGGAAAT	GATGTGAATGCAAGCCTGTC
6	43721200	43721909	1211.19	40.99	20.88	TGGCCTCTGTCTTTTGTGTT	CACAGCTTCCAACTAGCTTTACA
9	82188374	82188956	532.18	26.96	9.22	GTTGCGGGAGGAGAGTTTTA	GAAGCAGGGAGACGGAGAAA
10	3852210	3852832	500.44	29.26	12.13	CACCAGCTCCCAACTTTCAG	CAGCTTCCACTCCCTGTACC
19	51353679	51354605	3100	94.82	42.11	GTGTTGCTGTCTTTGCTCAG	CAGTGTTGGGAGGCAATTCT
20	35888865	35889525	511.25	27.54	3.10	GCAAGACCCCATCTCAAAGA	GGCTCGGCTACACTTCATTC
20	56260437	56261119	1605.03	60.05	35.60	CTGGCTGCTCCAGAGAACTA	CGGCCACGTACAGTCCTATT

12 AR binding sites identified from ChIP-Seq were tested for enrichment by real-time quantitative PCR. Reactions were carried out in triplicate. Negative control refers to a non-enriched region (a region in gene desert on chromosome 12).

ISSN: 1471-2164