Genotyping of SNPs Associated with Dental Caries

Genomic DNA for molecular analysis was extracted from buccal cells [12 (link)]. Sixty single-nucleotide polymorphisms (SNPs) were selected and are listed in Table 2. These SNPs were chosen based on their locations relative to the genes and results of previous association studies with dental caries [1 (link),2 (link),3 (link),4 (link),13 (link),14 (link),15 (link),16 (link)]. Polymerase chain reactions with TaqMan SNP Genotyping Assays from Applied Biosystems (Valencia, CA, USA), with a total volume of 3 µl per reaction and 3.0 ng of DNA per reaction, were used for genotyping all selected markers in a Tetrad PTC225 thermocycler from MJ Research (Waltham, MA, USA). Genotype detection and analysis were performed using the ABI 7900HT with ABI SDS software (Applied Biosystems, Valencia, CA, USA) [1 (link)].

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Kelly A.M., Kallistova A., Küchler E.C., Romanos H.F., Lips A., Costa M.C., Modesto A, & Vieira A.R. (2020). Measuring the Microscopic Structures of Human Dental Enamel Can Predict Caries Experience. Journal of Personalized Medicine, 10(1), 5.

Publication 2020

TaqMan SNP Genotyping Assays ABI 7900HT ABI SDS software

Assays Cells Dental caries Genes Genomic Genotype Polymerase chain reactions

Corresponding Organization : University of Pittsburgh

Other organizations : Charles University, Institute of Geochemistry, Czech Academy of Sciences, Institute of Geology, Universidade Federal do Rio de Janeiro, Universidade Federal Fluminense

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Variable analysis

independent variables

Locations of the 60 single-nucleotide polymorphisms (SNPs) relative to the genes

dependent variables

Dental caries

control variables

Buccal cells used for DNA extraction
Total volume of 3 µl per polymerase chain reaction
3.0 ng of DNA per reaction
Tetrad PTC225 thermocycler used for genotyping
ABI 7900HT with ABI SDS software used for genotype detection and analysis

controls

No positive or negative controls were explicitly mentioned in the provided information.

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