Table 2A Top five candidate SNPs from GWAS-pool analysis on individual samples that composed the pools

From: Identification of novel alleles associated with insulin resistance in childhood obesity using pooled-DNA genome-wide association study approach

SNP

Location (GRCh38.p2)

Gene

Allele ratio (HapMap)

MAF (European 1000 Genomes)

Mean allele frequencies (our study)

rs212540

1:21266624

ECE1

A:G=0.588:0.412

A:G=0.600/0.400

A:G=0.592/0.408

rs3218888

2:102014739

IL1R2

C:T=0.108/0.892

C:T=0.116/0.884

C:T=0.113/0.887

rs252111

5:142005685

GNPDA1

C:T=0.195/0.805

C:T=0.178/0.822

C:T=0.129/0.871

rs9261108

6:30007810

HLA-J

G:A=0.960/0.040

G:A=0.949/0.051

G:A=0.931/0.069

rs2258617

20: 25274318

PYGB

C:T=0.562/0.438

C:T=0.569/0.431

C:T=0.515/0.485

  1. Abbreviations: GWAS, genome-wide association study; MAF, mean allele frequency; SNP, single-nucleotide polymorphism. In Table 2A, we show SNP chromosome location, associated gene, mean allele frequencies (MAFs) from HapMap (35), 1000 genomes from the European population (34) and from our study.
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