TY - JOUR
T1 - STRSeq
T2 - A catalog of sequence diversity at human identification Short Tandem Repeat loci
AU - Gettings, Katherine Butler
AU - Borsuk, Lisa A.
AU - Ballard, David
AU - Bodner, Martin
AU - Budowle, Bruce
AU - Devesse, Laurence
AU - King, Jonathan
AU - Parson, Walther
AU - Phillips, Christopher
AU - Vallone, Peter M.
N1 - Funding Information:
NIST funding sources and disclaimers: This work was funded in part by the National Institute of Justice (NIJ) interagency agreement 1609-602-18NIJ: “Forensic DNA Applications of Next Generation Sequencing”. Points of view in this document are those of the authors and do not necessarily represent the official position or policies of the U.S. Departments of Commerce or Justice. Certain commercial equipment, instruments and materials are identified in order to specify experimental procedures as completely as possible. In no case does such identification imply a recommendation or endorsement by the National Institute of Standards and Technology nor does it imply that any of the materials, instruments or equipment identified are necessarily the best available for the purpose.
Funding Information:
UNT funding sources and disclaimers: This work was supported in part by award no. 2015-DN-BX- K067, awarded by the National Institute of Justice, Office of Justice Programs, U.S. Department of Justice. The opinions, findings, and conclusions or recommendations expressed in this publication are those of the authors and do not necessarily reflect those of the U.S. Department of Justice.
Funding Information:
The authors express gratitude to the NCBI staff who have facilitated development of the BioProject: Drs. Lori Black, Melissa Landrum, Ilene Mizrachi, Kim Pruitt, George Riley, and Steven Sherry. The authors also acknowledge the input of the European Commission project DNASEQEX (HOME/2014/ISFP/AG/LAWX/4000007135) and the support of the ENFSI DNA Working Group and thank the many practitioners and researchers who provided valuable feedback.
Publisher Copyright:
© 2017
PY - 2017/11
Y1 - 2017/11
N2 - The STR Sequencing Project (STRSeq) was initiated to facilitate the description of sequence-based alleles at the Short Tandem Repeat (STR) loci targeted in human identification assays. This international collaborative effort, which has been endorsed by the ISFG DNA Commission, provides a framework for communication among laboratories. The initial data used to populate the project are the aggregate alleles observed in targeted sequencing studies across four laboratories: National Institute of Standards and Technology (N = 1786), Kings College London (N = 1043), University of North Texas Health Sciences Center (N = 839), and University of Santiago de Compostela (N = 944), for a total of 4612 individuals. STRSeq data are maintained as GenBank records at the U.S. National Center for Biotechnology Information (NCBI), which participates in a daily data exchange with the DNA DataBank of Japan (DDBJ) and the European Nucleotide Archive (ENA). Each GenBank record contains the observed sequence of a STR region, annotation (“bracketing”) of the repeat region and flanking region polymorphisms, information regarding the sequencing assay and data quality, and backward compatible length-based allele designation. STRSeq GenBank records are organized within a BioProject at NCBI (https://www.ncbi.nlm.nih.gov/bioproject/380127), which is sub-divided into: commonly used autosomal STRs, alternate autosomal STRs, Y-chromosomal STRs, and X-chromosomal STRs. Each of these categories is further divided into locus-specific BioProjects. The BioProject hierarchy facilitates access to the GenBank records by browsing, BLAST searching, or ftp download. Future plans include user interface tools at strseq.nist.gov, a pathway for submission of additional allele records by laboratories performing population sample sequencing and interaction with the STRidER web portal for quality control (http://strider.online).
AB - The STR Sequencing Project (STRSeq) was initiated to facilitate the description of sequence-based alleles at the Short Tandem Repeat (STR) loci targeted in human identification assays. This international collaborative effort, which has been endorsed by the ISFG DNA Commission, provides a framework for communication among laboratories. The initial data used to populate the project are the aggregate alleles observed in targeted sequencing studies across four laboratories: National Institute of Standards and Technology (N = 1786), Kings College London (N = 1043), University of North Texas Health Sciences Center (N = 839), and University of Santiago de Compostela (N = 944), for a total of 4612 individuals. STRSeq data are maintained as GenBank records at the U.S. National Center for Biotechnology Information (NCBI), which participates in a daily data exchange with the DNA DataBank of Japan (DDBJ) and the European Nucleotide Archive (ENA). Each GenBank record contains the observed sequence of a STR region, annotation (“bracketing”) of the repeat region and flanking region polymorphisms, information regarding the sequencing assay and data quality, and backward compatible length-based allele designation. STRSeq GenBank records are organized within a BioProject at NCBI (https://www.ncbi.nlm.nih.gov/bioproject/380127), which is sub-divided into: commonly used autosomal STRs, alternate autosomal STRs, Y-chromosomal STRs, and X-chromosomal STRs. Each of these categories is further divided into locus-specific BioProjects. The BioProject hierarchy facilitates access to the GenBank records by browsing, BLAST searching, or ftp download. Future plans include user interface tools at strseq.nist.gov, a pathway for submission of additional allele records by laboratories performing population sample sequencing and interaction with the STRidER web portal for quality control (http://strider.online).
KW - DNA sequencing
KW - Forensic STR
KW - MPS
KW - NGS
KW - Nomenclature
UR - http://www.scopus.com/inward/record.url?scp=85028714671&partnerID=8YFLogxK
U2 - 10.1016/j.fsigen.2017.08.017
DO - 10.1016/j.fsigen.2017.08.017
M3 - Article
C2 - 28888135
AN - SCOPUS:85028714671
SN - 1872-4973
VL - 31
SP - 111
EP - 117
JO - Forensic Science International: Genetics
JF - Forensic Science International: Genetics
ER -