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 |