Sequence-based U.S. population data for 7 X-STR loci
The National Institute of Standards and Technology (NIST) U.S. population sample set of unrelated individuals was used to determine allele and haplotype frequencies for seven X-chromosome short tandem repeat (STR) loci in four linkage groups. DXS7132, DXS7423, DXS8378, DXS10074, DXS10103, DXS10135,...
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doaj-a550d33bbcd442d68ac28f451ff4747f2020-12-07T04:16:14ZengElsevierForensic Science International: Reports2665-91072020-12-012100160Sequence-based U.S. population data for 7 X-STR lociLisa A. Borsuk0Carolyn R. Steffen1Kevin M. Kiesler2Peter M. Vallone3Katherine B. Gettings4Corresponding author.; U.S. National Institute of Standards and Technology, Biomolecular Measurement Division, 100 Bureau Drive, Gaithersburg, MD, 20899, USAU.S. National Institute of Standards and Technology, Biomolecular Measurement Division, 100 Bureau Drive, Gaithersburg, MD, 20899, USAU.S. National Institute of Standards and Technology, Biomolecular Measurement Division, 100 Bureau Drive, Gaithersburg, MD, 20899, USAU.S. National Institute of Standards and Technology, Biomolecular Measurement Division, 100 Bureau Drive, Gaithersburg, MD, 20899, USAU.S. National Institute of Standards and Technology, Biomolecular Measurement Division, 100 Bureau Drive, Gaithersburg, MD, 20899, USAThe National Institute of Standards and Technology (NIST) U.S. population sample set of unrelated individuals was used to determine allele and haplotype frequencies for seven X-chromosome short tandem repeat (STR) loci in four linkage groups. DXS7132, DXS7423, DXS8378, DXS10074, DXS10103, DXS10135, and HPRTB were sequenced using the ForenSeq DNA Signature Prep Kit on a MiSeq FGx instrument from Verogen. Capillary electrophoresis data produced using the Qiagen Investigator Argus X-12 was compared to ForenSeq length-based alleles and found to be 99 % concordant. For three loci (DXS10103, DXS10074, and HPRTB) the length-based allele call is affected by the extent of flanking region included in the reported sequence. Six of the seven loci gained alleles by sequencing compared to length-based determinations. The increase in alleles are found in both the repeat and flanking region sequences. All sequences for which frequencies are reported in this dataset were cataloged as GenBank records in the STRSeq NCBI BioProject (https://www.ncbi.nlm.nih.gov/bioproject/380127). Frequency information for both the loci and linkage groups is reported, along with results of statistical tests including gene diversity, polymorphism information content, power of discrimination, and linkage disequilibrium. All supplemental files are available at the NIST Public Data Repository – U.S. population data for Human Identification Markers (https://doi.org/10.18434/t4/1500024).http://www.sciencedirect.com/science/article/pii/S2665910720301109X chromosomeShort tandem repeat (STR)SequencePopulation data |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Lisa A. Borsuk Carolyn R. Steffen Kevin M. Kiesler Peter M. Vallone Katherine B. Gettings |
spellingShingle |
Lisa A. Borsuk Carolyn R. Steffen Kevin M. Kiesler Peter M. Vallone Katherine B. Gettings Sequence-based U.S. population data for 7 X-STR loci Forensic Science International: Reports X chromosome Short tandem repeat (STR) Sequence Population data |
author_facet |
Lisa A. Borsuk Carolyn R. Steffen Kevin M. Kiesler Peter M. Vallone Katherine B. Gettings |
author_sort |
Lisa A. Borsuk |
title |
Sequence-based U.S. population data for 7 X-STR loci |
title_short |
Sequence-based U.S. population data for 7 X-STR loci |
title_full |
Sequence-based U.S. population data for 7 X-STR loci |
title_fullStr |
Sequence-based U.S. population data for 7 X-STR loci |
title_full_unstemmed |
Sequence-based U.S. population data for 7 X-STR loci |
title_sort |
sequence-based u.s. population data for 7 x-str loci |
publisher |
Elsevier |
series |
Forensic Science International: Reports |
issn |
2665-9107 |
publishDate |
2020-12-01 |
description |
The National Institute of Standards and Technology (NIST) U.S. population sample set of unrelated individuals was used to determine allele and haplotype frequencies for seven X-chromosome short tandem repeat (STR) loci in four linkage groups. DXS7132, DXS7423, DXS8378, DXS10074, DXS10103, DXS10135, and HPRTB were sequenced using the ForenSeq DNA Signature Prep Kit on a MiSeq FGx instrument from Verogen. Capillary electrophoresis data produced using the Qiagen Investigator Argus X-12 was compared to ForenSeq length-based alleles and found to be 99 % concordant. For three loci (DXS10103, DXS10074, and HPRTB) the length-based allele call is affected by the extent of flanking region included in the reported sequence. Six of the seven loci gained alleles by sequencing compared to length-based determinations. The increase in alleles are found in both the repeat and flanking region sequences. All sequences for which frequencies are reported in this dataset were cataloged as GenBank records in the STRSeq NCBI BioProject (https://www.ncbi.nlm.nih.gov/bioproject/380127). Frequency information for both the loci and linkage groups is reported, along with results of statistical tests including gene diversity, polymorphism information content, power of discrimination, and linkage disequilibrium. All supplemental files are available at the NIST Public Data Repository – U.S. population data for Human Identification Markers (https://doi.org/10.18434/t4/1500024). |
topic |
X chromosome Short tandem repeat (STR) Sequence Population data |
url |
http://www.sciencedirect.com/science/article/pii/S2665910720301109 |
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