Useful autosomal STR marker sets for forensic and paternity applications in the Central Indian population

Dash, Hirak Ranjan; Rawat, Neha; Vajpayee, Kamayani; Shrivastava, Pankaj; Das, Surajit

doi:10.1080/03014460.2021.1877353

Cited by 11 publications

(2 citation statements)

References 74 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The sequencing results were analyzed using Converge™ Software (Thermo Scientific, USA). For allele and genotype calling, the recommended thresholds of various parameters were maintained for minimum allele frequency (0.1), minimum coverage (20), minimum coverage on either strand (10), maximum strand bias (1), MAF(Hom) (95), MAF(Het) (35-65), mean autosomal coverage (10), and Mean Y coverage (20). Further, using Converge module, the random match probability (RMP) of each profile was calculated and the haplogroup of each male profile was determined.…”

Section: Discussionmentioning

confidence: 99%

“…When PM and PE were calculated under the assumption of independence, the cumulative PM and PE of all studied SNP markers in the central Indian population were calculated as 4.76698 × 10 -37 and 0.99999692962281, respectively. Previous studies on the central Indian population reported the cPM and cPE values as 1.11 × 10 -23 and 0.999998 when 20 CODIS STR loci are used [20]. This signifies higher polymorphism and discriminatory power of the 90 autosomal SNPs, and they can be used in the identification and kinship analysis for forensic purposes.…”

Section: Forensic Parameters Of 124 Snps For the Central Indian Popul...mentioning

confidence: 93%

See 1 more Smart Citation

Forensic characterization of 124 SNPs in the central Indian population using precision ID Identity Panel through next-generation sequencing

et al. 2021

Self Cite

View full text Add to dashboard Cite

With the advent of next-generation sequencing technology, SNP markers are being explored as a useful alternative to conventional capillary electrophoresis-based STR typing. Low mutation rate and short-sized amplicons are added advantages of SNP markers over the STRs. However, to achieve a sufficient level of discrimination among individuals, a higher number of SNPs need to be characterized simultaneously. Hence, the NGS technique is highly useful to analyze a sufficiently higher number of SNPs simultaneously. Though the technique is in its nascent stage, an attempt has been made to assess its usability in the central Indian population by analyzing 124 SNPs (90 autosomal and 34 Y-chromosome) in 95 individuals. Various quality parameters such as locus balance, locus strand balance, heterozygosity balance, and noise level showed a good quality sequence obtained from the Ion GeneStudio S5 instrument. Obtained frequency of SNP alleles ranged from 0.001 to 0.377 in autosomal SNPs. rs9951171 was found to be the most informative SNP in the studied population with the highest PD and lowest MP value. The cumulative MP of 90 SNPs was found to be 4.76698 × 10 -37 . Analysis of 34 Y-chromosome SNPs reveals 11 unique haplogroups in 54 male samples with R1a1 as the most frequent haplogroup found in 22.22% of samples. Interpopulation comparison by FST analysis, PCA plot, and STRU CTU RE analysis showed genetic stratification of the studied population suggesting the utility of SNP markers present in the Precision ID Identity Panel for forensic demands of the Indian population.

show abstract