Evaluation to population genetics data

Project description

You have been given a dataset containing Identifiler® genotypes from 200 individuals. Your first task is to analyse this dataset in terms of its potential usefulness as a database for individual identification purposes. <br />

In an investigation being carried out in an Arab country, a match has been observed between a DNA profile generated from a crime scene stain and the DNA profile generated from a white Caucasian male arrested by police. The DNA profile generated is shown below:

D8S1179 8, 17<br />
D21S11 34, 34.2 <br />
D7S820 9, 9<br />
CSF1PO 8, 14<br />
D3S1358 14, 14<br />
TH01 8, 10<br />
D13S317 9, 10<br />
D16S539 14, 15<br />
D2S1338 19, 19<br />
D19S433 11, 14.2<br />
vWA 18, 18<br />
TPOX 10, 10<br />
D18S51 11, 19<br />
D5S818 8, 9<br />
FGA 18.2, 19.2<br />
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Match probability estimates using this database have been provided for the investigation but the defence team has raised the inappropriateness of the database as an issue. <br />
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Your second task is to evaluate why the defence team may have raised this issue.<br />
You must present your results in a scientific manner (take a look at published articles) detailing every analysis carried out and discussing the results obtained. <br />
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Learning outcomes<br />
This assessment will test your ability to meet the following learning outcomes described in your module booklet:<br />
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1. Apply the principles of population genetics to forensic science.<br />
2. Analyse and assess genetic data using different population genetic software.<br />
3. Critically evaluate genetic data using statistical analyses for forensic purposes.<br />
4. Present and defend the rationale of forensic DNA evidence in relation to population genetics theory. <br />
5. Discuss and evaluate critically the genetic relationships of individuals and populations.<br />
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Assessment Criteria<br />
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1. Evidence of thorough data analysis skills.<br />
2. Evidence of ability to interpret results accurately.<br />
3. Evidence of wide reading and comprehension.<br />
4. Evidence of incorporation of independent thought.<br />
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Referencing Requirements:<br />
References<br />
ABDIN, L., et al. 2003. Analysis of 15 short tandem repeats reveals significant differences between the Arabian populations from Morocco and Syria. Legal Medicine, 5, Supplement, S150-S155.<br />
AKBASAK, B. S.,et al. 2001. Turkish population data with the CODIS multiplex short tandem repeat loci. Forensic Science International, 123, 227-229.<br />
ALENIZI, M., GOODWIN, W., ISMAEL, S. & HADI, S. 2008. STR data for the AmpFlSTR® Identifiler® loci in Kuwaiti population. Legal Medicine, 10, 321-325.<br />
ALSHAMALI, F., ALKHAYAT, A. Q., BUDOWLE, B. & WATSON, N. D. 2005. STR population diversity in nine ethnic populations living in Dubai. Forensic Science International, 152, 267-279.<br />
BALDING, D. J. & NICHOLS, R. A. 1994. DNA profile match probability calculation: how to allow for population stratification, relatedness, database selection and single bands. Forensic Science International, 64, 125-140.<br />
BARNI, F. et al. 2007. Allele frequencies of 15 autosomal STR loci in the Iraq population with comparisons to other populations from the middle-eastern region. Forensic Science International, 167, 87-92.<br />
BRANDT-CASADEVALL, C., et al. 2003. Tunisian population allele frequencies for 15 PCR-based loci. International Congress Series, 1239, 113-116.<br />
BUCKLETON, J., TRIGGS, C. M. & WALSH, S. J. 2005. Forensic DNA Evidence Interpretation, CRC Press.<br />
BUCKLETON, J. S., CURRAN, J. M. & WALSH, S. J. 2006. How reliable is the sub-population model in DNA testimony? Forensic Science International, 157, 144-148.<br />
BUDOWLE, B. et al. 1999. Population data on the thirteen CODIS core short tandem repeat loci in African Americans, U.S. Caucasians, Hispanics, Bahamians, Jamaicans, and Trinidadians. J Forensic Sci, 44, 1277-1286.<br />
CARRACEDO, et al. 2013. New guidelines for the publication of genetic population data. Forensic Science International: Genetics, 7, 217-220.<br />
CHEN, J.-G., PU, H.-W., CHEN, Y., CHEN, H.-J., MA, R., XIE, S.-T. & ZHANG, L.-P. 2012. Population genetic data of 15 autosomal STR loci in Uygur ethnic group of China. Forensic Science International: Genetics, 6, e178-e179.<br />
CZARNY, J. et al 2005. Genetic variation of 15 STR loci (D3S1358, vWA, FGA, TH01, TPOX, CSF1PO, D5S818, D13S317, D7S820, D16S539, D2S1338, D8S1179, D21S11, D18S51, and D19S433) in populations of north and central Poland. Forensic Science International, 147, 97-100.<br />
ELMRGHNI, S. et al 2012. Genetic data provided by 15 autosomal STR loci in the Libyan population living in Benghazi. Forensic Science International: Genetics, 6, e93-e94.<br />
EXCOFFIER, L., LAVAL, G. & SCHNEIDER, S. 2007. Arlequin (version 3.0): An integrated software package for population genetics data analysis. Evolutionary Bioinformatics, 1, 0-0.<br />
EXCOFFIER, L. & LISCHER, H. E. L. 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10, 564-567.<br />
GOODWIN, W., LINACRE, A. & HADI, S. 2011. An Introduction to Forensic Genetics, Wiley-Blackwell.<br />
HARTL, D. L. & CLARK, A. G. 2007. Principles of Population Genetics, Sinauer Associates.<br />
HILL, C. R., DUEWER, D. L., KLINE, M. C., COBLE, M. D. & BUTLER, J. M. U.S. population data for 29 autosomal STR loci. Forensic Science International: Genetics.<br />
KOROSTISHEVSKY, M. et al. 2004. Erroneous identification in a mixed population: simulation using Israeli STR data. International Journal of Legal Medicine, 118, 111-114.<br />
LEWONTIN, R. C. 1995. The Apportionment of Human Diversity. In: DOBZHANSKY, T., HECHT, M. & STEERE, W. (eds.) Evolutionary Biology. Springer US.<br />
OMRAN, G. A., RUTTY, G. N. & JOBLING, M. A. 2009. Genetic variation of 15 autosomal STR loci in Upper (Southern) Egyptians. Forensic Science International: Genetics, 3, e39-e44.<br />
PORRAS, L., BELTRÁN, L., ORTIZ, T., SANCHEZ-DIZ, P., CARRACEDO, A. & HENAO, J. 2008. Genetic polymorphism of 15 STR loci in central western Colombia. Forensic Science International: Genetics, 2, e7-e8.<br />
RUBI-CASTELLANOS, R., ANAYA-PALAFOX, M., MENA-ROJAS, E., BAUTISTA-ESPAÑA, D., MUÑOZ-VALLE, J. F. & RANGEL-VILLALOBOS, H. 2009. Genetic data of 15 autosomal STRs (Identifiler kit) of three Mexican Mestizo population samples from the States of Jalisco (West), Puebla (Center), and Yucatan (Southeast). Forensic Science International: Genetics, 3, e71-e76.<br />
TEREBA, A. 1995. Tools for analysis of population statistics. Profiles DNA, 2, 14-16.<br />


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