Gene	Validate LNCaP	Validate RWPE-1	Fwd primer	Rev primer	Purpose
EGFR			CACAGCAAACTTCTCCTCAAAACC	TGCCCCTCCCCCAACGAC	SOX4 Peak Validation
ERBB2			GATGGGAGAGTGGGAGGGAGGTGT	TCAGGCTGGCCTGCCTTCAGATC	SOX4 Peak Validation
TLE1			AATGTGTTGGCTTTGTGAGCCCTG	TTTGGCCTGGAGCTGAAACAATGG	SOX4 Peak Validation
PSMA			CTTGCCTTCTAAAATGAGTTGG	TTGGGAGGCTGAGGTGGAAGAA	ChIP negative control peak
ACVR2A	YES	YES	AGAGCCTGGACCAGAACTTGG	AGGCTGAGGCGACGAAGAG	Nimblegen Peak Validation
ANKRD15	YES	NO	GCCTGAAAGCGGGTAGAAGAAA	ACTTACAGGCTAGGTGGACACA	Nimblegen Peak Validation
BCLAF1	YES	YES	AAGGGTGGAAGAGGAAGATATGCG	GCTGTGTGGTTGCAACGGAGATAA	Nimblegen Peak Validation
BMP8A	NO	NO	ACACCACGGCGAGGCA	GCGATTCCCGCGAGTCCTT	Nimblegen Peak Validation
CHD1L	YES	YES	GTGGCAAGTGCTTGATATGGCT	AGCTTTCCTGCTTGGGTGTT	Nimblegen Peak Validation
DICER1	YES	YES	ACCACTGGAACAGTGAACACCT	GCTGCATGTAACTCACGTTGAT	Nimblegen Peak Validation
DR1	YES	YES	TGCAAACCTTCCCTGGCATCT	TCGGCCAAACCATCCTTCAGA	Nimblegen Peak Validation
ELF5	YES	YES	TGGGTGCTTGAGGGTTTGTT	TTGGATCTTCGCTGCACCTT	Nimblegen Peak Validation
ELK3	NO	NO	ACGGGTTTCCCACTCCTTCT	CCAACAATATACTCAACCCAGGCCA	Nimblegen Peak Validation
ELK4	NO	NO	GGCTGACCGCTCACCGA	CGGCCGCGGAGGG	Nimblegen Peak Validation
EPN3	YES	YES	TTGCTGGACTACCTGCTCAAGA	CCATCACCTGCTTGACCTTCT	Nimblegen Peak Validation
FLOT2	YES	YES	ATTGCAAACTCCCTGCCTCT	TGTGCCCTGGACATCTCTTT	Nimblegen Peak Validation
FOXO3	YES	YES	GTTTGAGCGATGGCCCTGTTGATT	AAGTCTGGCTCACTGACAAGCAGA	Nimblegen Peak Validation
FUBP3	YES	YES	GGAAGTAGGGCGACTTTCCTTT	TGCAGGGCATCCACGAAG	Nimblegen Peak Validation
GLIS1	YES	YES	ATACATCCCACCACAACAGCCTCA	ATACCCTCCTGCAACGTTCTGTGT	Nimblegen Peak Validation
GSN	YES	YES	GCCTCCTTCCTCAAGTCAGGG	TGGGCAAGTCACTGTACCTTTCTG	Nimblegen Peak Validation
HSP90	YES	YES	TCAGTCACCAAAGAAGGCCTGGAA	ACCAATCGGTTTGACACAACCACC	Nimblegen Peak Validation
MYCN	YES	YES	ACACTTCCGAGAACACCCAT	CGGGTTTCTTTAACCAAGAGGC	Nimblegen Peak Validation
PDK1	NO	NO	AACAGTCAGTGTGGGAGAACTGCT	ACACTAAGAGGCGAGGCGGTAT	Nimblegen Peak Validation
PDPK1	YES	YES	TGGTTGTCCCAGCTGGTGTAGATT	AGCACTGAACACGGTGCCTAGAAA	Nimblegen Peak Validation
PXN	YES	YES	AGAAATGCTGGGTCCACAGA	AGCACCACGGAGAGGATTT	Nimblegen Peak Validation
RBL1	YES	YES	GGCGCCAAACATAATCTGAGCTGT	TGCAGAAAGCAACCAATCAGAGGC	Nimblegen Peak Validation
SNFT	YES	YES	TCCTTCCCGTCCCACGTCT	TTTCAGAGCCACCACGTGACTTC	Nimblegen Peak Validation
SOX11	YES	YES	TTGCGGTAGGAGCCACGA	TTCCTGGGCAAGTTGCAAAGTC	Nimblegen Peak Validation
VAC14	YES	YES	ACAGCCAGTCAGGAGTAAAGCA	AGCGCTGGAGATCGAGAAGTAA	Nimblegen Peak Validation
ZHX2	YES	YES	GCGCTCGAAGCTTCTAAACTAGC	AGGAATTCGGGATCTGGGTACA	Nimblegen Peak Validation
ZNF281	YES	YES	AGCCGCTACCACCGCTACT	CGACTGGGCTGGGAATTAGTGC	Nimblegen Peak Validation
ZNF297B	YES	YES	TCGTTTCTGTCCCACCATCTGT	TCAGTATGCCTGGCGGAGATTA	Nimblegen Peak Validation
Bactin			ATGGCCCAGTCCTCTCCCAAGTCC	CCCCCAACCCAGCCACACCACAAA	QRT-PCR
SOX4			CCGAGCTGGTGCAAGACC	CCACACCATGAAGGCGTTC	QRT-PCR
FZD3			TGGCAGCATGTCACGACTAACA	TCATGCTGGTGCCATGTGTGAT	QRT-PCR
FZD5			AGGCTGGCTACCTGTGAACAAA	GCAACGTCTTGCTGCTCTTGGAAT	QRT-PCR
FZD8			TGGCTGGGTTTGCAGTCAGAT	TACCCAAACCGTGCAATCCCAT	QRT-PCR
MLL			ACGGTTTCAGCTGCCTCTAGACAA	AGGTCAGGGATGTCGTTTCTTGGT	QRT-PCR
DHX9			TGGCCAATTTCTGGCCAAAGCA	TTAGCCAGGATTCGTCCCAAAGGA	QRT-PCR
AGO1			TGAGCTACTGGCCATTCGTGAT	TGATGGCGTTTCTGCACCACAA	QRT-PCR
ADAM10			TGGGAAACAGTGCAGTCCAAGT	TCCTTCCCTTGCACAGTCTGAA	QRT-PCR
DICER1			ACTTGATGCTTCGTGGAATGCTGC	AGGCATTTCTCTGTGGGTGGATGA	QRT-PCR
DLL1			TGCTGCTGAGAAACCGAGTTCAGA	ACTCAGGCAGTGCATGCTTCTT	QRT-PCR
HES2			AGGCAAACACCCGTCATTTCATGG	GGCTTGTGTGGCACAGTCAGATTT	QRT-PCR
SOX4 EMSA specific oligo	CGTGACCGCTACAAACAAAGGCCAGCGCCCTAGCA				"oligo used for EMSA, SOX4 binding site in red"
SOX4 EMSA specific oligo reverse complement	TGCTAGGGCGCTGGCCTTTGTTTGTAGCGGTCACG				"oligo used for EMSA, SOX4 binding site in red"
SOX4 EMSA control oligo	CGTGACCGCTACACCTGGCAGCCAGCGCCCTAGCA				"oligo used for EMSA, SOX4 binding site in red"
SOX4 EMSA control oligo reverse complement	TGCTAGGGCGCTGGCTGCCAGGTGTAGCGGTCACG				"oligo used for EMSA, SOX4 binding site in red"