Novel caries loci in children and adults implicated by genome-wide analysis of families

BMC Oral Health

Table 2 Sample for data cleaning

Procedure	Data
Low genotype rate filtering (PLINK)	3591 genotyped individuals
HWE testing (PLINK)	1839 genotyped (founders^a + unrelated)^b
LD-based pruning (PLINK)	1839 genotyped (founders^a + unrelated)^b
LD-based clustering and super-marker creation (Merlin)	1022 families (trios + non-trio pedigrees)^c
Super-marker and SNP allele frequency estimation (Merlin)	1022 families (trios + non-trio pedigrees)^c

Note: ^aFounders: Individuals in a pedigree or trio whose parents are not included in the study. For example, both parents in a trio are founders. Also note that some of the larger multigenerational pedigrees may have more than two founders
^bThe counts of individuals differs from totals provided in Table 1 since not all founders and unrelated individuals were genotyped for this study
^cTrios: Family structure of two parents and one child; non-trio pedigrees: families with four or more members

ISSN: 1472-6831