Table 3.

Coding variant genotypes observed in high and low toxicity prostate brachytherapy patients

GeneGenome coordinate (build 36, hg18)Amino acid changeConservation score*dbSNP accessionHigh toxicityLow toxicity
AAABBBAAABBB
ATMchr11:107,603,786S49C−1rs180005421001910
ATMchr11:107,626,842L480F0novel20102000
ATMchr11:107,629,971S707P−1rs498676121001710
ATMchr11:107,648,666P1054R−2rs180005719202000
ATMchr11:107,668,697P1526P7rs1800889310110
ATMchr11:107,669,347V1570A0novel20101900
ATMchr11:107,680,672D1853N1rs18015161120930
ATMchr11:107,680,673D1853V−3rs18016731100910
ATMchr11:107,688,377N1983S1rs65924300210020
BRCA1chr17:38,476,501M1652I1rs1799967992963
BRCA1chr17:38,476,574M1628T−1rs4986854664671
BRCA1chr17:38,476,620S1613G0rs179996611731051
BRCA1chr17:38,487,996S1436S4rs106091514339101
BRCA1chr17:38,497,526K1183R2rs169427854115
BRCA1chr17:38,497,955S1040N1rs498685220101900
BRCA1chr17:38,497,961E1038G−2rs1694119001310
BRCA1chr17:38,498,462L871P−3rs79991711901630
BRCA1chr17:38,498,553R841W−3rs180070919101600
BRCA1chr17:38,498,763L771L4rs16940400710
BRCA1chr17:38,498,992S694S4rs1799949471730
BRCA1chr17:38,498,997D693N1rs4986850400720
BRCA1chr17:38,499,587R496H0rs2889767719101810
BRCA1chr17:38,499,693F461L0rs6262530019101810
BRCA1chr17:38,500,007Q356R1rs179995015101810
ERCC2chr19:50,546,759K751Q1rs1318115501800
ERCC2chr19:50,547,364D711D6rs105255518101700
ERCC2chr19:50,559,099D312N1rs179979318001710
ERCC2chr19:50,560,149R156R5rs23840618001710
H2AFXchr11:118,471,119L66L4novel13101300
LIG4chr13:107,659,299Q773Q5novel13001310
LIG4chr13:107,659,914D568D6rs180538616001210
LIG4chr13:107,660,726Y298H2novel16001210
LIG4chr13:107,661,333E95E5novel16001210
LIG4chr13:107,661,592T9I−2rs1805388900810
LIG4chr13:107,661,610A3V−2rs1805389900810
MDC1chr6:30,779,291D1855E2rs28994874910800
MDC1chr6:30,779,567V1791E−2rs2899487316101610
MDC1chr6:30,779,705P1745R−2rs2899487114101400
MDC1chr6:30,779,968A1657A4rs2898631714101400
MDC1chr6:30,780,543T1466A−1novel14101400
MDC1chr6:30,780,702K1413E1novel14601451
MDC1chr6:30,780,736G1401G6rs2899487014101310
MDC1chr6:30,780,992M1316T−1rs6173321314101300
MDC1chr6:30,781,326T1205A−1novel14101300
MDC1chr6:30,781,604S1112F−2rs2898708517101700
MDC1chr6:30,781,641P1100A−1rs2899486919102000
MDC1chr6:30,781,660P1093P7rs2899486821001910
MDC1chr6:30,783,584R917S−1rs2898646720102000
MDC1chr6:30,783,903D811G−1novel21001710
MDC1chr6:30,783,969Q789P−1novel19202000
MDC1chr6:30,784,025T770T4rs28986466310110
MDC1chr6:30,788,541P386L−3rs2898646520101900
MDC1chr6:30,788,587E371K1rs20750151120930
MDC1chr6:30,788,777S307S4novel1100910
MDC1chr6:30,788,895R268K2rs926215200210020
MDC1chr6:30,789,456R179C−3rs28986464992963
MDC1chr6:30,789,662P138P7novel664671
MDC1chr6:30,789,910V56I3novel11731051
RAD50chr5:131,951,572V315L1rs2890309014339101
RAD50chr5:132,005,895I1293I4rs289030947854115
  • Abbreviations: A, reference allele; B, nonreference allele.

  • *Conservation score of an amino acid substitution as determined from the BLOSUM62 alignment score matrix (39, 40). We defined scores <0 as nonconservative substitutions and all others as conservative substitutions.