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Table 1 Filtering steps with number of remaining SNPs

From: A SNP panel for identification of DNA and RNA specimens

Filter steps Number of SNPs
RNA DNA
Total SNPs 507,975 19,562,004
Genotype calling rate > 90% 4876
Biallelic loci contain three genotypes 4672
MAF > 0.2 1263 3,077,712
Common SNPs between DNA and RNA 1023
HW p-value > 0.01 100
LD < 0.01 and Ignore SNPs located in HLA loci 50