Table 1 Description of methods to infer self-reported ethnicity or genetic ancestry using HM450K data
From: Accurate ethnicity prediction from placental DNA methylation data
Name of method | Statistical approach | Input HM450K sites | Output | Sample characteristics | ||
|---|---|---|---|---|---|---|
Tissue | Populationsa | Cohort location | ||||
Barfield et al. [8] | PCA | 7703 DNAme sites with a 1000 genomes project SNP at the CpG site | Genetic ancestry as PC scores | Blood | Caucasian-Americans, African–Americans | USA |
EPISTRUCTURE [9] | PCA | 4913 DNAme sites associated with local genetic variation (mQTLs) | Genetic ancestry as PC scores | Blood | Europeans, Puerto Ricans, Mexicans | Southern Germany; USA |
Zhou et al. [10] | Predictive-modeling | 59/65 SNP sites | Ethnicity | Multiple | White, Black or African American, Asian | Many |
PlaNET; this study | Predictive-modeling | 15 SNPs; 1845 DNAme sites | Ethnicity and genetic ancestry | Placenta | Caucasians, Asians, Africans | Canada, USA |