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Table 2 Pair-wise correlation coefficients between the two founder BRCA1 mutations and all other SNPs among Ashkenazi Jews

From: The BRCA1 Ashkenazi founder mutations occur on common haplotypes and are not highly correlated with anonymous single nucleotide polymorphisms likely to be used in genome-wide case-control association studies

     Ashkenazim (n = 85) Correlation (r 2) with D' with D' with
SNP name rs number SNP number SNP description mafa Hetb HW P-value 185delAG 5382insC 185delAG 5382insC
C_9270420 13119 1 NBR1: UTR 0.424 0.52 0.580 0.011 0.001 1.000 1.000
C_9270421 748620 2 NBR1: UTR 0.440 0.52 0.640 0.016 0.000 1.000 1.000
C_9270454 17599948 3 NBR1: intron 0.211 0.35 0.649 0.016 0.001 1.000 1.000
C_95201 11653231 4 NBR1: intron 0.435 0.51 0.703 0.014 0.001 1.000 1.000
C_3178692 9908805 5 LBRCA1: UTR 0.000      1.000 1.000
C_11631183 2175957 6 NBR2: intron 0.447 0.52 0.665 0.013 0.001 1.000 1.000
BR1_000340 3092986 7 NBR2: intron 0.051 0.10 0.636 0.001 0.000 1.000 1.000
BR1_000392 8176072 8 NBR2:intron 0.006 c 0.01 0.957 0.000 1.000 1.000 1.000
BR1_000571 8176074 9 NBR2:UTR 0.000      1.000 1.000
C_2615164 3765640 10 BRCA1:UTR 0.440 0.52 0.640 0.015 0.000 1.000 1.000
M_185delAG NAd 11 BRCA1:exon 2 0.006 0.01 0.957 NA 0.000 NA 1.000
BR1_007918 8176090 12 BRCA1: intron 0.000      1.000 1.000
BR1_010574 1800062 13 BRCA1: P_K38K_(AAG>AAA) 0.000      1.000 1.000
BR1_010796 8176101 14 BRCA1: intron 0.000      1.000 1.000
C_2615171 8176103 15 BRCA1: intron 0.463 0.56 0.291 0.014 0.000 1.000 1.000
BR1_011340 8176104 16 BRCA1: intron 0.024 0.05 0.824 0.001 0.000 1.000 1.000
C_2615172 8176109 17 BRCA1: intron 0.441 0.53 0.497 0.011 0.000 1.000 0.000
BR1_016775 8065872 18 BRCA1: intron 0.000      1.000 1.000
BR1_017105 8176120 19 BRCA1: intron 0.424 0.49 0.913 0.015 0.001 1.000 1.000
BR1_018573 799914 20 BRCA1: intron 0.000      1.000 1.000
BR1_019408 799913 21 BRCA1: intron 0.032 0.06 0.772 0.001 0.000 1.000 1.000
BR1_019904 8176128 22 BRCA1: intron 0.000      1.000 1.000
BR1_020896 8176133 23 BRCA1: intron 0.422 0.51 0.738 0.012 0.000 1.000 1.000
C_2615180 799912 24 BRCA1: intron 0.472 0.52 0.701 0.011 0.000 1.000 0.000
BR1_026422 799923 25 BRCA1: intron 0.232 0.44 0.031 0.003 0.000 1.000 1.000
BR1_029258 8176145 26 BRCA1: intron 0.400 0.59 0.038 0.021 0.001 1.000 0.000
BR1_029448 8176146 27 BRCA1: intron 0.031 0.06 0.774 0.001 0.000 1.000 1.000
BR1_030748 7503154 28 BRCA1: intron 0.415 0.51 0.618 0.012 0.001 1.000 1.000
BR1_031875 1799950 29 BRCA1: P_Q356R_(CAG>CGG) 0.077 0.15 0.442 0.002 0.000 1.000 1.000
BR1_032885 4986850 30 BRCA1: P_D693N_(GAC>AAC) 0.133 0.19 0.096 0.001 0.000 0.000 1.000
BR1_033119 16940 31 BRCA1: P_L771L_(TTG>CTG) 0.422 0.53 0.429 0.012 0.001 1.000 1.000
BR1_033420 799917 32 BRCA1:P_P871L_(CCG>CTG) 0.429 0.51 0.766 0.015 0.001 1.000 1.000
BR1_003927 4986852 33 BRCA1: P_S1040N_(AGC>AAC) 0.012 0.02 0.912 0.000 0.000 1.000 1.000
BR1_034226 2227945 34 BRCA1: P_S1140G_(AGT>GGT) 0.000      1.000 1.000
BR1_034356 16942 35 BRCA1: P_K1183R_(AAA>AGA) 0.433 0.50 0.868 0.015 0.001 1.000 1.000
C_7530109 799916 36 BRCA1: intron 0.438 0.53 0.482 0.015 0.000 1.000 1.000
BR1_035507 2070833 37 BRCA1: intron 0.031 0.04 0.001 0.001 0.000 1.000 1.000
BR1_036077 2070834 38 BRCA1: intron 0.435 0.52 0.626 0.014 0.001 1.000 1.000
BR1_036793 8176158 39 BRCA1: intron 0.418 0.54 0.393 0.012 0.000 1.000 1.000
BR1_036859 8176160 40 BRCA1: intron 0.435 0.52 0.626 0.014 0.001 1.000 1.000
BR1_038085 8176166 41 BRCA1: intron 0.196 0.35 0.391 0.018 0.000 0.388 1.000
BR1_040350 8176174 42 BRCA1: intron 0.000      1.000 1.000
C_3178696 3950989 43 BRCA1: intron 0.441 0.52 0.566 0.007 0.000 1.000 1.000
BR1_040669 8176175 44 BRCA1: intron 0.006 0.01 0.956 0.000 0.000 1.000 1.000
BR1_041288 8176177 45 BRCA1: intron 0.000      1.000 1.000
BR1_041721 8176178 46 BRCA1: intron 0.000      1.000 1.000
C_3178676 1060915 47 BRCA1: P_S1436S_(TCT>TCC) 0.380 0.56 0.105 0.018 0.001 1.000 0.000
C_3178677 3737559 48 BRCA1: intron 0.124 0.20 0.481 0.001 0.001 0.462 1.000
BR1_045154 8176187 49 BRCA1: intron 0.000      1.000 1.000
BR1_045505 8176188 50 BRCA1: intron 0.000      1.000 1.000
BR1_0046019 6416927 51 BRCA1: intron 0.000      1.000 1.000
BR1_047826 8176198 52 BRCA1: intron 0.422 0.53 0.429 0.016 0.001 1.000 1.000
BR1_0477839 8176199 53 BRCA1: intron 0.341 0.42 0.594 0.016 0.000 1.000 1.000
BR1_048551 4239147 54 BRCA1: intron 0.440 0.52 0.640 0.011 0.001 1.000 1.000
BR1_050244 8176206 55 BRCA1: intron 0.000      1.000 1.000
C_11621042 2236762 56 BRCA1: intron 0.435 0.52 0.626 0.016 0.001 1.000 1.000
C_2615208 1799966 57 BRCA1: intron 0.456 0.54 0.456 0.008 0.000 1.000 0.185
BR1_055669 3092987 58 BRCA1: intron 0.416 0.52 0.545 0.013 0.002 1.000 1.000
BR1_056796 8176225 59 BRCA1: intron 0.000      1.000 1.000
BR1_058369 8176232 60 BRCA1: intron 0.013 0.03 0.936 0.000 0.000 1.000 1.000
BR1_058614 8176234 61 BRCA1: intron 0.437 0.54 0.345 0.016 0.000 1.000 1.000
BR1_058834 8176235 62 BRCA1: intron 0.339 0.44 0.872 0.017 0.000 1.000 1.000
BR1_059589 8176236 63 BRCA1: intron 0.000      1.000 1.000
BR1_060022 8176240 64 BRCA1: intron 0.000      1.000 1.000
BR1_060520 8176242 65 BRCA1: intron 0.433 0.52 0.538 0.011 0.001 1.000 1.000
BR1_061014 8176245 66 BRCA1: intron 0.000      1.000 1.000
C_2615220 3092994 67 BRCA1: intron 0.434 0.53 0.471 0.012 0.000 1.000 0.000
BR1_062588 8176259 68 BRCA1: intron 0.000      1.000 1.000
BR1_0064398 8176265 69 BRCA1: intron 0.417 0.52 0.477 0.012 0.001 1.000 1.000
BR1_064501 2187603 70 BRCA1: intron 0.422 0.53 0.429 0.009 0.001 1.000 1.000
BR1_066741 8176273 71 BRCA1: intron 0.424 0.52 0.580 0.011 0.001 1.000 1.000
BR1_067978 8176278 72 BRCA1: intron 0.000      1.000 1.000
BR1_068063 8066171 73 BRCA1: intron 0.000      1.000 1.000
M_5382insC NA 74 BRCA1:exon 20 0.006 0.01 0.957 0.000 NA 1.000 NA
C_2615230 8176289 75 BRCA1: intron 0.441 0.52 0.566 0.014 0.000 1.000 1.000
BR1_073023 8176293 76 BRCA1: intron 0.000      1.000 1.000
BR1_074008 4793192 77 BRCA1: intron 0.435 0.52 0.626 0.016 0.001 1.000 1.000
BR1_074807 8176296 78 BRCA1: intron 0.435 0.51 0.703 0.015 0.000 1.000 1.000
C_2615238 3092988 79 BRCA1: intron 0.424 0.52 0.580 0.015 0.001 1.000 1.000
BR1_076933 8176303 80 BRCA1: intron 0.000      1.000 1.000
BR1_077034 8176305 81 BRCA1: intron 0.094 0.16 0.753 0.002 0.001 1.000 1.000
BR1_077328 8176307 82 BRCA1: intron 0.000      1.000 1.000
BR1_079220 8068463 83 BRCA1: intron 0.000      1.000 1.000
BR1_079396 8176313 84 BRCA1: intron 0.006 0.01 0.957 0.000 0.000 1.000 1.000
BR1_080570 8176316 85 BRCA1: intron 0.000      1.000 1.000
BR1_081125 8176318 86 BRCA1: UTR 0.435 0.49 0.963 0.009 0.001 1.000 1.000
BR1_081990 12516 87 BRCA1: UTR 0.435 0.52 0.626 0.014 0.001 1.000 1.000
BR1_082035 8176320 88 BRCA1: UTR 0.006 0.01 0.957 0.000 0.000 1.000 1.000
BR1_082199 8176321 89 Intergenic 0.000      1.000 1.000
BR1_082687 8176323 90 Intergenic 0.429 0.51 0.766 0.015 0.001 1.000 1.000
C_11621012 7223952 91 Intergenic 0.441 0.52 0.566 0.014 0.000 1.000 1.000
C_3178665 9911630 92 Intergenic 0.422 0.53 0.429 0.016 0.001 1.000 1.000
C_2615245 11460963 93 Intergenic 0.441 0.53 0.497 0.014 0.001 1.000 1.000
C_3178699 2298861 94 ARHN: locus 0.441 0.55 0.309 0.011 0.001 0.000 1.000
C_3178698 2298862 95 ARHN: locus 0.447 0.54 0.383 0.011 0.001 1.000 1.000
C_2287905 443759 96 IFI35:intron 0.229 0.41 0.129 0.040 0.002 1.000 1.000
C_11617231 11871636 97 RPL27: intron 0.235 0.40 0.304 0.036 0.002 1.000 1.000
C_1588447 2271539 98 RPL27: intron 0.388 0.47 0.932 0.023 0.003 1.000 1.000
C_765227 690971 99 MGC2744: intron 0.000      1.000 1.000
C_1588417 528854 100 MGC2744: intergenic 0.106 0.16 0.230 0.000 0.001 1.000 1.000
C_1588405 323495 101 G6PC: intergenic 0.316 0.37 0.182 0.004 0.000 0.205 1.000
C_3256885 2593595 102 G6PC: intron 0.124 0.15 0.007 0.000 0.001 1.000 1.000
C_3256881 324075 103 Intergenic 0.171 0.29 0.717 0.000 0.000 0.266 1.000
C_15883310 2290041 104 PRKWNK4: mis-sense 0.012 0.02 0.913 0.005 0.000 1.000 1.000
C_2160077 4321242 105 RAMP2: intron 0.480 0.58 0.158 0.003 0.000 1.000 1.000
C_1075621 752313 106 EZH1: intergenic 0.363 0.40 0.314 0.005 0.000 1.000 1.000
C_3256867 7359598 107 EZH1: intergenic 0.386 0.57 0.073 0.005 0.001 1.000 0.000
C_15959277 2271027 108 EZH1: intron 0.000      1.000 1.000
C_1441435 7214055 109 CNTNAP1: UTR 0.149 0.30 0.109 0.001 0.001 1.000 1.000
C_1441436 9766 110 CNTNAP1: UTR 0.353 0.52 0.219 0.007 0.000 0.173 1.000
C_7529639 1553469 111 CNTNAP1: silent 0.065 0.11 0.248 0.002 0.000 0.463 1.000
C_1125369 2271029 112 CNTNAP1: silent 0.405 0.62 0.009 0.000 0.001 0.040 1.000
C_1441438 3760384 113 CNTNAP1: intron 0.359 0.58 0.020 0.005 0.000 1.000 1.000
C_1441444 2292749 114 TUBG2: intron 0.217 0.39 0.219 0.006 0.001 1.000 1.000
  1. a maf = Minor allele frequency
  2. bHet = Heterozygosity
  3. cPopulation private SNPs are shown underlined
  4. dNA= Not Applicable
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BMC Genomic Data

ISSN: 2730-6844

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