|
Selected candidate SNPs |
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| SNP |
Chromosome |
Gene |
Alleles* |
Risk Allele |
Phenotype |
TEDS Allele Frequencies |
|
|
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| rs1801282 |
3 p25.2 |
PPARG |
C/G (Pro → Ala) |
G |
Body Mass Index [33] |
C = .88; G = .12 |
| rs5082 |
1 q23.3 |
APOA2 |
C/T (5' near gene) |
T |
Waist circumference [34] |
C = .39; T = .61 |
| rs1042714 |
5 q32 |
ADRB2 |
C/G (Gln → Glu) |
C |
Body Mass Index [35] |
C = .56; G = .44 |
| rs1800206 |
22 q13.31 |
PPARA |
C/G (Val → Leu) |
G |
Body Mass Index [36] |
C = .93; G = .07 |
| rs6659176 |
1 p36.11 |
NROB2 |
C/G (Ala → Gly) |
C |
Body Mass Index and waist circumference [37] |
C = .92; G = .08 |
| rs5443 |
12 p13.31 |
GNB3 |
C/T (Ser → Ser) |
T |
Body Mass Index [38] |
C = .71; T = .29 |
| rs7754561 |
6 q23.2 |
ENPP1 |
A/G (3' near gene) |
G |
Body Mass Index [39] |
A = .77; G = .23 |
| rs1042713 |
5 q32 |
ADRB2 |
A/G (Arg → Gly) |
A |
Body Mass Index [35] |
A = .36; G = .64 |
| rs4994 |
8 p12 |
ADRB3 |
C/T (Arg → Trp) |
C |
Body Mass Index [40] |
C = .08; T = .92 |
| rs7566605 † |
2 q14.1 |
INSIG2 |
C/G (intronic) |
C |
Body Mass Index [21] |
C = .33; G = .67 |
|
Candidate SNPs were selected based on "The human obesity gene map: the 2005 update" [8]. Nine SNPs were selected based on the following criteria: (1) Association must have been shown in a sample with at least 500 participants. (2) Measured phenotype had to be BMI/obesity or waist circumference. (3) SNP had to have a minor allele frequency greater than 0.1. Genotyping of these nine SNPs was performed by Kbiosciences, UK http://www.kbioscience.co.uk using the competitive allele specific PCR (KASPar) method, on a sample of 5000 children. * Information about the SNP function class is presented in parentheses; in the case of non-synonymous SNPs the amino acid alteration is given. † SNP rs7566605 was genotyped in an attempt to replicate a recent report of an association [21]; genotyping for rs7566605 was performed in-house using Taqman on a subsample of 3000 children. Full gene names: PPARG/PPARA: Peroxisome Proliferator-Activated Receptors (PPARs). APOA2: Apolipoprotein A-II. ADRB2/ADRB3: Beta-2-Adrenergic Receptor/Beta-3-Adrenergic Receptor. NROB2: Nuclear receptor subfamily 0, group B, member 2. GNB3: Guanine nucleotide-binding protein, Beta-3. ENPP1: Ectonucleotide pyrophosphatase/phosphodiesterase 1. INSIG2: Insulin induced gene 2. | ||||||
Haworth et al. BMC Medical Genetics 2008 9:12 doi:10.1186/1471-2350-9-12 |
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