STR Data for the PowerPlex® 16 System Loci for the Malays, Chinese and Indians Groups of the Malaysian Population

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STR Data for the PowerPlex® 16 System Loci for the Malays, Chinese and Indians Groups of the Malaysian Population

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   J Forensic Sci,  Sept. 2005, Vol. 50, No. 5Paper ID JFS2005170Published 3 Aug. 2005Available online at: www.astm.org FORTHERECORD  Mohd Izuan, 1  B.Sc.(Hons); Lay Hong Seah, 1  Ph.D.; S. Panneerchelvam, 2  M.Sc.;and Norazmi Mohd Nor, 2  Ph.D. STR Data for the PowerPlex R  16 System Locifor the Malays, Chinese and Indians Groupsof the Malaysian Population POPULATION:  Unrelated individuals of 212 Malays, 234 Chinese and 287 Indians in Malaysia KEYWORDS:  forensic science, short tandem repeat (STR), population genetics, Malays, Chinese, Indians, population, PowerPlex R  16 system,DNA typing A STR database for use in forensic casework was created for three major ethnic population groups in Malaysia. Blood sampleswere collected from unrelated individuals and DNA were extractedusingChelexmethod(1).PCRamplificationwasperformedfollow-ing manufactures’s instructions (PowerPlex R  16 System, PromegaCorporation). The amplified products were analyzed and detectedusing the ABIPRISM R  3100 Gene Analyzer (Applied Biosystem)with 3100 Data Collection Software (Version 1.1). The resultswere analyzed with GeneScan analysis software (Version 3.7.1)and genotypes were determined by comparison to allelic ladder (Promega Corporation) using Genotyper DNA fragment analysissoftware (Version 3.7) with the PowerTyperTM Macros (PromegaCorporation).The allele frequencies of the 15 STR loci studied are given inTables 1–3. Power Stats (2), DNA-View (3) was used to calcu-late heterozygosity (HO), power of discrimination (PD) and theprobability of excluding probability (PE). The observed heterozy-gosity (HO) ranged from 0.560 (TPOX) to 0.921 (PENTA E). ThePower of Discrimination (PD) ranged from 0.775 (TPOX) to 0.984(FGA). The Probability of Excluding Paternity (PE) ranged from0.246 (TPOX) to 0.839 (PENTA E). The combined probability of excluding paternity is about 0.99999932, 0.99999937, 0.99999971and the combined probability of identity expressed as 1 in 4.362 ×  1018, 1 in 6.268  ×  1018 and 1 in 2.327  ×  1018 for Malays,Chinese and Indians respectively. 1 Department of Chemistry of Malaysia, Jalan Sultan, 46661 Petaling Jaya,Selangor, Malaysia. 2 School of Health Sciences, Universiti Sains Malaysia, Health Campus,16150 Kubang Kerian, Kelantan, Malaysia. The exact test (4) was performed based on 2000 shuffling exper-iments which all loci meet the Hardy-Weinberg equilibrium exceptD13S317 and vWA for Malays and CSF1PO for Chinese. No de-partures were detected in the Indians population.The complete dataset is available to any interested party atwww.ppsk.usm.my.  Acknowledgments The authors would like to thank the Director General, DeputyDirector General, Director of the Forensic Division of theDepartment of Chemistry, Malaysia. The study was funded bythe “Experimental Applied Research” Grant Scheme, Ministry of Science, Technology and the Environment, Malaysia (09-02-05-3122 EA 011). References 1. Walsh BS, Petzger DA, Higuchi R. Chelex-100 as medium for simpleextraction of DNA for PCR-based typing from forensic material. Biotech-niques 1991;10:506–10. [PubMed] 2. TerebaA.Toolsforanalysisofpopulationstatistics.ProfilesinDNA1999;2:14–6.3. Brenner C. DNA-View version 25.43.4. Guo SW, Thompson EA. Performing the exact test of Hardy-Weinbergproportion for multiplex alleles. Biometrics 1992;48:361–72. [PubMed] Additional information and reprint requests:S. Panneerchelvam, M.Sc.School of Health SciencesUniversiti Sains MalaysiaHealth Campus, 16150 Kubang Kerian, Kelantan, MalaysiaCopyright  C   2005 by ASTM International, 100 Barr Harbor Drive, PO Box C700, West Conshohocken, PA 19428-2959.  1  2  JOURNAL OF FORENSIC SCIENCES TABLE 1  —Allele frequencies of 15 STR loci in Malaysian Malays population (n = 185). Allele D3S1358 TH01 D21S11 D18S51 Penta E D5S818 D13S317 D7S820 D16S539 CSF1PO Penta D vWA D8S1179 TPOX FGA5  ··· ··· ···  0.030  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 6  ···  0.146  ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 7  ···  0.322  ··· ···  0.014 0.024 0.005 0.011  ··· ···  0.005  ··· ··· ··· ··· 8  ···  0.073  ··· ···  0.003 0.003 0.235 0.235 0.005 0.003 0.043  ··· ···  0.562  ··· 9  ···  0.314  ··· ···  0.024 0.057 0.146 0.057 0.165 0.019 0.295  ···  0.003 0.122  ··· 9.3  ···  0.078  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 10  ···  0.062  ··· ···  0.035 0.292 0.141 0.222 0.170 0.216 0.176  ···  0.100 0.019  ··· 11  ···  0.005  ···  0.016 0.203 0.246 0.249 0.289 0.292 0.349 0.132  ···  0.081 0.268  ··· 12 0.003  ··· ···  0.073 0.084 0.208 0.170 0.159 0.224 0.343 0.189  ···  0.105 0.030  ··· 13 0.008  ··· ···  0.081 0.084 0.149 0.043 0.022 0.122 0.057 0.135 0.003 0.184  ··· ··· 14 0.057  ··· ···  0.184 0.100 0.011 0.005 0.005 0.022 0.005 0.022 0.186 0.214  ··· ··· 15 0.297  ··· ···  0.273 0.103 0.003 0.005  ··· ···  0.008 0.003 0.057 0.173  ··· ··· 16 0.346  ··· ···  0.173 0.068 0.008  ··· ··· ··· ··· ···  0.181 0.119  ··· ··· 17 0.203  ··· ···  0.073 0.070  ··· ··· ··· ··· ··· ···  0.254 0.019  ···  0.00318 0.070  ··· ···  0.032 0.059  ··· ··· ··· ··· ··· ···  0.214 0.003  ···  0.00519 0.016  ··· ···  0.027 0.051  ··· ··· ··· ··· ··· ···  0.092  ··· ···  0.05720  ··· ··· ···  0.035 0.032  ··· ··· ··· ··· ··· ···  0.014  ··· ···  0.07620.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00321  ··· ··· ···  0.008 0.022  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.17321.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00322  ··· ··· ···  0.011 0.003  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.19722.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.02223  ··· ··· ···  0.014 0.011  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.12423.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00524  ··· ··· ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.17624.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00325  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.08126  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00327  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.04928  ··· ···  0.065  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.01429  ··· ···  0.216  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00829.2  ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30  ··· ···  0.222  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30.2  ··· ···  0.046  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31  ··· ···  0.135  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31.2  ··· ···  0.081  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32  ··· ···  0.019  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32.2  ··· ···  0.159  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 33.2  ··· ···  0.046  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 34.2  ··· ···  0.008  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· HO 0.746 0.751 0.854 0.827 0.892 0.784 0.795 0.735 0.757 0.757 0.843 0.757 0.843 0.616 0.849PD 0.885 0.898 0.955 0.955 0.980 0.914 0.928 0.917 0.924 0.850 0.933 0.934 0.955 0.775 0.965PE 0.503 0.512 0.703 0.650 0.779 0.569 0.589 0.485 0.521 0.521 0.682 0.521 0.682 0.311 0.692  P  0.183 0.206 0.796 0.456 0.824 0.233 0.001 0.058 0.281 0.654 0.680 0.013 0.771 0.396 0.723 HO: Heterozygosity; PD: Power of discrimination; PE: Probability of exclusion; and  P :  P -values for the exact test.  LZUAN ET AL.  •  STR DATA OF THE MALAYSIAN POPULATION  3 TABLE 2  —Allele frequencies of 15 STR loci in Malaysian Chinese population (n =  216). Allele D3S1358 TH01 D21S11 D18S51 Penta E D5S818 D13S317 D7S820 D16S539 CSF1PO Penta D vWA D8S1179 TPOX FGA5  ··· ··· ··· ···  0.051  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 6  ···  0.109  ··· ··· ··· ··· ···  0.002  ··· ···  0.002  ··· ··· ··· ··· 7  ···  0.310  ··· ···  0.002 0.032  ···  0.005  ···  0.005 0.023  ··· ··· ··· ··· 8  ···  0.067  ··· ···  0.002 0.009 0.271 0.113 0.005 0.002 0.058  ··· ···  0.553  ··· 9  ···  0.456  ··· ···  0.007 0.086 0.134 0.074 0.222 0.056 0.363  ··· ···  0.123  ··· 9.3  ···  0.016  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 10  ···  0.039  ···  0.002 0.069 0.197 0.148 0.181 0.130 0.243 0.130  ···  0.106 0.016  ··· 11  ···  0.002  ···  0.002 0.148 0.313 0.236 0.352 0.285 0.287 0.104  ···  0.125 0.299  ··· 12 0.002  ··· ···  0.049 0.120 0.225 0.162 0.245 0.222 0.319 0.171  ···  0.150 0.009  ··· 12.2  ··· ··· ···  0.002  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 13  ··· ··· ···  0.169 0.081 0.118 0.037 0.021 0.125 0.081 0.100  ···  0.194  ··· ··· 14 0.042  ··· ···  0.155 0.058 0.014 0.012 0.007 0.009 0.005 0.037 0.264 0.181  ··· ··· 15 0.310  ··· ···  0.220 0.090 0.005  ··· ···  0.002 0.002 0.009 0.035 0.171  ··· ··· 16 0.343  ··· ···  0.118 0.081 0.002  ··· ··· ··· ··· ···  0.134 0.063  ···  0.00217 0.248  ··· ···  0.120 0.065  ··· ··· ··· ··· ···  0.002 0.252 0.009  ···  0.00218 0.051  ··· ···  0.065 0.056  ··· ··· ··· ··· ··· ···  0.213  ··· ···  0.03019 0.005  ··· ···  0.023 0.058  ··· ··· ··· ··· ··· ···  0.076  ··· ···  0.07420  ··· ··· ···  0.009 0.051  ··· ··· ··· ··· ··· ···  0.023  ··· ···  0.02821  ··· ··· ···  0.032 0.035  ··· ··· ··· ··· ··· ···  0.002  ··· ···  0.14121.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00222  ··· ··· ···  0.016 0.012  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.18523  ··· ··· ···  0.009 0.005  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.22723.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00724  ··· ··· ···  0.005 0.005  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.13924.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00925  ··· ··· ···  0.002 0.005  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.08125.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00526  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.04226.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00727  ··· ···  0.005  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.01228  ··· ···  0.060  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00728.2  ··· ···  0.002  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 29  ··· ···  0.257  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 29.2  ··· ···  0.002  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30  ··· ···  0.308  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30.2  ··· ···  0.012  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31  ··· ···  0.076  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31.2  ··· ···  0.065  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32  ··· ···  0.023  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32.2  ··· ···  0.137  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 33  ··· ···  0.002  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 33.2  ··· ···  0.044  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 34.2  ··· ···  0.007  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· HO 0.773 0.694 0.824 0.875 0.921 0.810 0.819 0.773 0.764 0.657 0.769 0.764 0.847 0.560 0.861PD 0.863 0.838 0.932 0.964 0.984 0.925 0.925 0.906 0.923 0.898 0.934 0.930 0.955 0.768 0.964PE 0.550 0.420 0.644 0.745 0.839 0.618 0.636 0.550 0.534 0.365 0.542 0.534 0.689 0.246 0.717  P  0.814 0.117 0.356 0.737 0.789 0.995 0.485 0.214 0.742 0.006 0.458 0.877 0.939 0.496 0.616 HO: Heterozygosity; PD: Power of discrimination; PE: Probability of exclusion; and P  : P  -values for the exact test.  4  JOURNAL OF FORENSIC SCIENCES TABLE 3  —Allele frequencies of 15 STR loci in Malaysian Indian population (n = 195). Allele D3S1358 TH01 D21S11 D18S51 Penta E D5S818 D13S317 D7S820 D16S539 CSF1PO Penta D vWA D8S1179 TPOX FGA5  ··· ··· ··· ···  0.056  ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· 6  ···  0.267  ··· ··· ··· ··· ··· ··· ··· ···  0.005  ··· ··· ··· ··· 7  ···  0.118  ··· ···  0.069  ···  0.021 0.044  ···  0.003 0.005  ··· ··· ··· ··· 8  ···  0.118  ··· ···  0.005  ···  0.233 0.236 0.100  ···  0.026  ··· ···  0.315  ··· 9  ···  0.351  ··· ···  0.018 0.033 0.110 0.067 0.144 0.028 0.269  ···  0.005 0.174  ··· 9.3  ···  0.131  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 10  ···  0.015  ···  0.010 0.031 0.136 0.092 0.241 0.108 0.156 0.205  ···  0.187 0.077  ··· 11  ··· ··· ···  0.026 0.141 0.318 0.236 0.228 0.328 0.310 0.249  ···  0.069 0.405  ··· 12 0.005  ··· ···  0.074 0.118 0.300 0.208 0.156 0.195 0.415 0.118  ···  0.085 0.026  ··· 13 0.003  ··· ···  0.108 0.059 0.190 0.069 0.026 0.103 0.079 0.087 0.003 0.167 0.003  ··· 14 0.056  ··· ···  0.256 0.074 0.015 0.031  ···  0.023 0.005 0.026 0.131 0.200  ··· ··· 15 0.333  ··· ···  0.215 0.069 0.005  ··· ··· ···  0.003 0.010 0.113 0.192  ··· ··· 16 0.300  ··· ···  0.141 0.136 0.003  ··· ··· ··· ··· ···  0.203 0.079  ··· ··· 17 0.174  ··· ···  0.082 0.097  ··· ··· ··· ··· ··· ···  0.262 0.013  ··· ··· 18 0.126  ··· ···  0.033 0.067  ··· ··· ··· ··· ··· ···  0.172 0.003  ···  0.00519 0.003  ··· ···  0.031 0.026  ··· ··· ··· ··· ··· ···  0.110  ··· ···  0.05620  ··· ··· ···  0.021 0.013  ··· ··· ··· ··· ··· ···  0.008  ··· ···  0.14121  ··· ··· ··· ···  0.010  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.10021.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00322  ··· ··· ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ···  0.15622.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00323  ··· ··· ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.17923.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00324  ··· ··· ···  0.003 0.003  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.18225  ··· ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ···  0.11825.2  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00326  ··· ···  0.003  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.04927  ··· ···  0.013  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ···  0.00328  ··· ···  0.144  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 29  ··· ···  0.208  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 29.2  ··· ···  0.005  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30  ··· ···  0.174  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 30.2  ··· ···  0.013  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31  ··· ···  0.028  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 31.2  ··· ···  0.121  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32  ··· ···  0.010  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32.2  ··· ···  0.192  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 32.2  ··· ···  0.085  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· 34.2  ··· ···  0.005  ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· ··· HO 0.738 0.774 0.841 0.805 0.903 0.692 0.754 0.851 0.815 0.718 0.841 0.851 0.831 0.656 0.877PD 0.895 0.898 0.953 0.955 0.981 0.904 0.942 0.921 0.931 0.847 0.926 0.938 0.953 0.865 0.960PE 0.490 0.552 0.677 0.609 0.801 0.416 0.516 0.697 0.628 0.457 0.677 0.697 0.657 0.364 0.749  P  0.685 0.120 0.517 0.498 0.338 0.074 0.198 0.148 0.758 0.206 0.662 0.312 0.618 0.578 0.508 HO: Heterozygosity; PD: Power of discrimination; PE: Probability of exclusion; and  P :  P -values for the exact test.
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