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dc.contributor.authorBird, Steven ( )
dc.date.accessioned2021-08-09T13:03:17Z
dc.date.available2021-08-09T13:03:17Z
dc.date.issued2012-10-31
dc.identifier.citationBird, S. (2012). Towards Improvements in the Estimation of the Coalescent: Implications for the most effective use of Y chromosome short tandem repeat mutation rates. PLoS One, 7(10): e48638.en_US
dc.identifier.issn1932-6203
dc.identifier.urihttps://digital.library.txstate.edu/handle/10877/14236
dc.description.abstractOver the past two decades, many short tandem repeat (STR) microsatellite loci on the human Y chromosome have been identified together with mutation rate estimates for the individual loci. These have been used to estimate the coalescent age, or the time to the most recent common ancestor (TMRCA) expressed in generations, in conjunction with the average square difference measure (ASD), an unbiased point estimator of TMRCA based upon the average within-locus allele variance between haplotypes. The ASD estimator, in turn, depends on accurate mutation rate estimates to be able to produce good approximations of the coalescent age of a sample. Here, a comparison is made between three published sets of per locus mutation rate estimates as they are applied to the calculation of the coalescent age for real and simulated population samples. A novel evaluation method is developed for estimating the degree of conformity of any Y chromosome STR locus of interest to the strict stepwise mutation model and specific recommendations are made regarding the suitability of thirty-two commonly used Y-STR loci for the purpose of estimating the coalescent. The use of the geometric mean for averaging ASD and μ^ across loci is shown to improve the consistency of the resulting estimates, with decreased sensitivity to outliers and to the number of STR loci compared or the particular set of mutation rates selected.en_US
dc.formatText
dc.format.extent11 pages
dc.format.medium1 file (.pdf)
dc.language.isoenen_US
dc.publisherPublic Library of Scienceen_US
dc.sourcePLoS One, 2012, Vol. 7, No. 10, Article e48638.
dc.subjectGenetic locien_US
dc.subjectArithmeticen_US
dc.subjectHaplotypesen_US
dc.subjectY chromosomesen_US
dc.subjectMutationen_US
dc.subjectHaplogroupsen_US
dc.subjectNormal distributionen_US
dc.subjectPoint mutationen_US
dc.titleTowards Improvements in the Estimation of the Coalescent: Implications for the Most Effective Use of Y Chromosome Short Tandem Repeat Mutation Ratesen_US
dc.typepublishedVersion
txstate.documenttypeArticle
dc.rights.holder© 2012 Steven C. Bird.
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0048638
dc.rights.licenseCreative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.
dc.description.departmentBiology


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