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Table 1 AR targets identified in this study

From: Identification of novel androgen receptor target genes in prostate cancer

CD Primers1 Band2 Ava II – Ava II3 Nearby Genes4 Position of CD Hit Relative to gene ChIP validation5
      C4-2B LNCaP
AT, TA 1p35.2 30,152,547 – 30,152,728 Nearest gene is 626-kb away 4 2
AA, TC 1q25.2 178,433,288 – 178,433,456 QSCN6[63, 67] exon 13 3 1
    LHX4 [68] 32.7-kb 5'   
    CEP350 84.2-kb3'   
    ACBD6 90.6-kb 3'   
AT, AT 2q37.3 241,348,804 – 241,348,990 KIF1A intron 23/exon 24 3 1
    AQP12 62.4-kb 3'   
TT, TT 3p21.1 53,169,093 – 53,169,401 PRKCD[51, 53] 0.8-kb 5' 4 nd
AT, AC 4p16.1 6,644,411 – 6,644,619 MAN2B2 intron 5 3 3
    MRFAP1 48.7-kb 5'   
AA, TC 7q11.23 72,483,118 – 72,483,317 FZD9[69] 2.7-kb 5' 4 nd
    BAZ1B 10k-b 3'   
AT, AG 7q11.23 72,922,165 – 72,922,474 WBSCR28 4-kb 3' 4 2
    WBSCR27 27.4-kb 5'   
    CLDN4 [70] 37.2-kb 3'   
AA, AG 8q24.3 143,094,298 – 143,094,518 Nearest gene is 197kb away [64] 3 2
AC, TC 10p12.1 24,584,349 – 24,584,579 KIAA1217 intron 2 4 3
AT, AG 10q26.13 126,072,189 – 126,072,473 OAT 3.4-kb 3' 2 0
    LHPP 67.9-kb 5'   
AC, TC 11p15.4 1,017,234 – 1,017,529 MUC6[58] 10-kb 5' 3 3
    AP2A2 15-kb 3'   
AT, AT 11q12.3 62,532,814 – 62,532,977 SLC22A8 intron 2 5 2
    SLC22A6 23.9-kb 5'   
    CHRM1 87.3-kb 5'   
AT, AT 11q25 134,102,859 – 134,103,167 Nearest gene is 315-kb away 2 3
AT, AT 14q31.3 86,510,091 – 86,510,360 Nearest gene is 959-kb away 3 2
AT, AC 17p13.2 3,446,846 – 3,447,080 TRPV1 exon 1/intron 1 3 1
    CARKL 11.4-kb 3'   
    TRPV3 [60, 61] 39-kb 5'   
AC, TG 17q25.3 77,480,155 – 77,480,527 MAFG 1.5-kb 5' 4 2
    PYCR1 [36, 50] 2.5-kb 3'   
    SIRT7 [71, 72] 12-kb 5'   
AA, AA 22q11.23 22,655,127 – 22,655,462 GSTT2[62] exon 4/intron 4 3 2
    DDT 3.1-kb 5'   
AG, AG 22q13.1 38,101,611 – 38,101,989 SYNGR1 intron 2 3 2
    MAP3K7IP1 25-kb 5'   
AC, TC 22q13.3 48,707,684 – 48,707,956 CRELD2 1-kb 3' 3 1
    ALG12 10-kb 5'   
  1. 1CD primers are defined based on two variable nucleotides as described in Methods.
  2. 2Cytogenetic band containing the CD hit.
  3. 3Absolute positions of the Ava II sites flanking the fragment displayed by PAGE.
  4. 4The nearest Refseq gene annotated in Ensembl [65] is shown in bolded and italicized text. Published papers suggesting relevance to cancer are referenced near the respective gene name.
  5. 5Number of independent conventional ChIP assays in which AR occupancy was confirmed. nd, not determined.