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KMID : 0357820120360010045
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Korean Journal of Legal Medicine
2012 Volume.36 No. 1 p.45 ~ p.55
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Web-based Y-STR Database for Haplotype Frequency Estimation and Kinship Index Calculation
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Yang In-Seok
Lee Hwan-Young
Park Myung-Jin
Yang Woo-Ick
Shin Kyoung-Jin
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Abstract
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We developed a web-based Y chromosomal short tandem repeat (Y-STR) database(ySTRmanager, http://ystrmanager.yonsei.ac.kr) to facilitate calculation of YSTRhaplotype frequency estimates for random matches and kinship indices for variousrelationship levels. The ySTRmanager database provides 3 functions: (i) Y-STR haplotype search, (ii) kinship index calculation, and (iii) user database configuration.The Y-STR haplotype search function allows researchers to retrieve Y-STR haplotypes that meet queried Y-STR allele, Y-haplogroup affiliation, and/or sample information from a selected population in the open database, which consists of 12-17 Y-STR loci. The number of matches in a selected population, haplotype frequency estimator, and detailed results for matched and neighbor haplotypes are displayed as a set of search results. The kinship index calculation function provides kinship indices of 2 input Y-STR haplotypes for the relationship represented by the number of meioses, with consideration of target population and mutation rate of each Y-STR. In addition, ySTRmanager allows registered users to configure their own database to store andanalyze Y-STR haplotype and/or mutation rate data. The stored Y-STR data can beused in the search function and in the analysis to obtain forensic statistical values. The ySTRmanager will be a useful system to analyze and manage Y-STR data in the practice of forensic genetics.
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KEYWORD
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Y-chromosome, STR, database, frequency estimator, kinship index, mutation rate
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