Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study

C. Tomas; G. Axler-DiPerte; Z.M. Budimlija; C. Børsting; M.D. Coble; A.E. Decker; A. Eisenberg; R. Fang; M. Fondevila; S. Frisk Fredslund; S. Gonzalez; A.J. Hansen; P. Hoff-Olsen; C. Haas; P. Kohler; A.K. Kriegel; B. Lindblom; F. Manohar; O. Maroñas; H.S. Mogensen; K. Neureuther; H. Nilsson; M.K. Scheible; P.M. Schneider; M.L. Sonntag; M. Stangegaard; D. Syndercombe-Court; C.R. Thacker; P.M. Vallone; A.A. Westen; N. Morling

doi:10.1016/j.fsigen.2010.06.007

Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study

C. Tomas, G. Axler-DiPerte, Z.M. Budimlija, C. Børsting, M.D. Coble, A.E. Decker, A. Eisenberg, R. Fang, M. Fondevila, S. Frisk Fredslund, S. Gonzalez, A.J. Hansen, P. Hoff-Olsen, C. Haas, P. Kohler, A.K. Kriegel, B. Lindblom, F. Manohar, O. Maroñas, H.S. MogensenK. Neureuther, H. Nilsson, M.K. Scheible, P.M. Schneider, M.L. Sonntag, M. Stangegaard, D. Syndercombe-Court, C.R. Thacker, P.M. Vallone, A.A. Westen, N. Morling

19 Citations (Scopus)

1950 Downloads (Pure)

Abstract

The GenPlex™ HID System (Applied Biosystems - AB) offers typing of 48 of the 52 SNPforID SNPs and amelogenin. Previous studies have shown a high reproducibility of the GenPlex™ HID System using 250-500 pg DNA of good quality. An international exercise was performed by 14 laboratories (9 in Europe and 5 in the US) in order to test the robustness and reliability of the GenPlex™ HID System on forensic samples. Three samples with partly degraded DNA and 10 samples with low amounts of DNA were analyzed in duplicates using various amounts of DNA. In order to compare the performance of the GenPlex™ HID System with the most commonly used STR kits, 500 pg of partly degraded DNA from three samples was typed by the laboratories using one or more STR kits. The median SNP typing success rate was 92.3% with 500 pg of partly degraded DNA. Three of the fourteen laboratories counted for more than two thirds of the locus dropouts. The median percentage of discrepant results was 0.2% with 500 pg degraded DNA. An increasing percentage of locus dropouts and discrepant results were observed when lower amounts of DNA were used. Different success rates were observed for the various SNPs. The rs763869 SNP was the least successful. With the exception of the MiniFiler™ kit (AB), GenPlex™ HID performed better than five other tested STR kits. When partly degraded DNA was analyzed, GenPlex™ HID showed a very low mean mach probability, while all STR kits except MiniFiler™ had very limited discriminatory power.

Original language	English
Journal	Forensic Science International: Genetics
Volume	5
Issue number	5
Pages (from-to)	369-375
Number of pages	7
ISSN	1872-4973
DOIs	https://doi.org/10.1016/j.fsigen.2010.06.007
Publication status	Published - 1 Nov 2011

Keywords

Degraded DNA

Access to Document

10.1016/j.fsigen.2010.06.007

Autosomal SNP typing of forensic samples with the GenPlex™ HID System

Cite this

Tomas, C., Axler-DiPerte, G., Budimlija, Z. M., Børsting, C., Coble, M. D., Decker, A. E., Eisenberg, A., Fang, R., Fondevila, M., Fredslund, S. F., Gonzalez, S., Hansen, A. J., Hoff-Olsen, P., Haas, C., Kohler, P., Kriegel, A. K., Lindblom, B., Manohar, F., Maroñas, O., ... Morling, N. (2011). Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study. Forensic Science International: Genetics, 5(5), 369-375. https://doi.org/10.1016/j.fsigen.2010.06.007

Tomas, C, Axler-DiPerte, G, Budimlija, ZM, Børsting, C, Coble, MD, Decker, AE, Eisenberg, A, Fang, R, Fondevila, M, Fredslund, SF, Gonzalez, S, Hansen, AJ, Hoff-Olsen, P, Haas, C, Kohler, P, Kriegel, AK, Lindblom, B, Manohar, F, Maroñas, O, Mogensen, HS, Neureuther, K, Nilsson, H, Scheible, MK, Schneider, PM, Sonntag, ML, Stangegaard, M, Syndercombe-Court, D, Thacker, CR, Vallone, PM, Westen, AA & Morling, N 2011, 'Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study', Forensic Science International: Genetics, vol. 5, no. 5, pp. 369-375. https://doi.org/10.1016/j.fsigen.2010.06.007

@article{9211c20d0b7242299791251a6de73fce,

title = "Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study",

abstract = "The GenPlex{\texttrademark} HID System (Applied Biosystems - AB) offers typing of 48 of the 52 SNPforID SNPs and amelogenin. Previous studies have shown a high reproducibility of the GenPlex{\texttrademark} HID System using 250-500 pg DNA of good quality. An international exercise was performed by 14 laboratories (9 in Europe and 5 in the US) in order to test the robustness and reliability of the GenPlex{\texttrademark} HID System on forensic samples. Three samples with partly degraded DNA and 10 samples with low amounts of DNA were analyzed in duplicates using various amounts of DNA. In order to compare the performance of the GenPlex{\texttrademark} HID System with the most commonly used STR kits, 500 pg of partly degraded DNA from three samples was typed by the laboratories using one or more STR kits. The median SNP typing success rate was 92.3% with 500 pg of partly degraded DNA. Three of the fourteen laboratories counted for more than two thirds of the locus dropouts. The median percentage of discrepant results was 0.2% with 500 pg degraded DNA. An increasing percentage of locus dropouts and discrepant results were observed when lower amounts of DNA were used. Different success rates were observed for the various SNPs. The rs763869 SNP was the least successful. With the exception of the MiniFiler{\texttrademark} kit (AB), GenPlex{\texttrademark} HID performed better than five other tested STR kits. When partly degraded DNA was analyzed, GenPlex{\texttrademark} HID showed a very low mean mach probability, while all STR kits except MiniFiler{\texttrademark} had very limited discriminatory power.",

keywords = "Degraded DNA",

author = "C. Tomas and G. Axler-DiPerte and Z.M. Budimlija and C. B{\o}rsting and M.D. Coble and A.E. Decker and A. Eisenberg and R. Fang and M. Fondevila and Fredslund, {S. Frisk} and S. Gonzalez and A.J. Hansen and P. Hoff-Olsen and C. Haas and P. Kohler and A.K. Kriegel and B. Lindblom and F. Manohar and O. Maro{\~n}as and H.S. Mogensen and K. Neureuther and H. Nilsson and M.K. Scheible and P.M. Schneider and M.L. Sonntag and M. Stangegaard and D. Syndercombe-Court and C.R. Thacker and P.M. Vallone and A.A. Westen and N. Morling",

note = "Udgivelsesdato: 2010-Jul-21",

year = "2011",

month = nov,

day = "1",

doi = "10.1016/j.fsigen.2010.06.007",

language = "English",

volume = "5",

pages = "369--375",

journal = "Forensic Science International: Genetics",

issn = "1872-4973",

publisher = "Elsevier",

number = "5",

}

TY - JOUR

T1 - Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study

AU - Tomas, C.

AU - Axler-DiPerte, G.

AU - Budimlija, Z.M.

AU - Børsting, C.

AU - Coble, M.D.

AU - Decker, A.E.

AU - Eisenberg, A.

AU - Fang, R.

AU - Fondevila, M.

AU - Fredslund, S. Frisk

AU - Gonzalez, S.

AU - Hansen, A.J.

AU - Hoff-Olsen, P.

AU - Haas, C.

AU - Kohler, P.

AU - Kriegel, A.K.

AU - Lindblom, B.

AU - Manohar, F.

AU - Maroñas, O.

AU - Mogensen, H.S.

AU - Neureuther, K.

AU - Nilsson, H.

AU - Scheible, M.K.

AU - Schneider, P.M.

AU - Sonntag, M.L.

AU - Stangegaard, M.

AU - Syndercombe-Court, D.

AU - Thacker, C.R.

AU - Vallone, P.M.

AU - Westen, A.A.

AU - Morling, N.

N1 - Udgivelsesdato: 2010-Jul-21

PY - 2011/11/1

Y1 - 2011/11/1

N2 - The GenPlex™ HID System (Applied Biosystems - AB) offers typing of 48 of the 52 SNPforID SNPs and amelogenin. Previous studies have shown a high reproducibility of the GenPlex™ HID System using 250-500 pg DNA of good quality. An international exercise was performed by 14 laboratories (9 in Europe and 5 in the US) in order to test the robustness and reliability of the GenPlex™ HID System on forensic samples. Three samples with partly degraded DNA and 10 samples with low amounts of DNA were analyzed in duplicates using various amounts of DNA. In order to compare the performance of the GenPlex™ HID System with the most commonly used STR kits, 500 pg of partly degraded DNA from three samples was typed by the laboratories using one or more STR kits. The median SNP typing success rate was 92.3% with 500 pg of partly degraded DNA. Three of the fourteen laboratories counted for more than two thirds of the locus dropouts. The median percentage of discrepant results was 0.2% with 500 pg degraded DNA. An increasing percentage of locus dropouts and discrepant results were observed when lower amounts of DNA were used. Different success rates were observed for the various SNPs. The rs763869 SNP was the least successful. With the exception of the MiniFiler™ kit (AB), GenPlex™ HID performed better than five other tested STR kits. When partly degraded DNA was analyzed, GenPlex™ HID showed a very low mean mach probability, while all STR kits except MiniFiler™ had very limited discriminatory power.

AB - The GenPlex™ HID System (Applied Biosystems - AB) offers typing of 48 of the 52 SNPforID SNPs and amelogenin. Previous studies have shown a high reproducibility of the GenPlex™ HID System using 250-500 pg DNA of good quality. An international exercise was performed by 14 laboratories (9 in Europe and 5 in the US) in order to test the robustness and reliability of the GenPlex™ HID System on forensic samples. Three samples with partly degraded DNA and 10 samples with low amounts of DNA were analyzed in duplicates using various amounts of DNA. In order to compare the performance of the GenPlex™ HID System with the most commonly used STR kits, 500 pg of partly degraded DNA from three samples was typed by the laboratories using one or more STR kits. The median SNP typing success rate was 92.3% with 500 pg of partly degraded DNA. Three of the fourteen laboratories counted for more than two thirds of the locus dropouts. The median percentage of discrepant results was 0.2% with 500 pg degraded DNA. An increasing percentage of locus dropouts and discrepant results were observed when lower amounts of DNA were used. Different success rates were observed for the various SNPs. The rs763869 SNP was the least successful. With the exception of the MiniFiler™ kit (AB), GenPlex™ HID performed better than five other tested STR kits. When partly degraded DNA was analyzed, GenPlex™ HID showed a very low mean mach probability, while all STR kits except MiniFiler™ had very limited discriminatory power.

KW - Degraded DNA

U2 - 10.1016/j.fsigen.2010.06.007

DO - 10.1016/j.fsigen.2010.06.007

M3 - Journal article

SN - 1872-4973

VL - 5

SP - 369

EP - 375

JO - Forensic Science International: Genetics

JF - Forensic Science International: Genetics

IS - 5

ER -

Autosomal SNP typing of forensic samples with the GenPlex(TM) HID System: Results of a collaborative study

Abstract

Keywords

Access to Document

Fingerprint

Cite this