Linking Disease Associations with Regulatory Information in the Human Genome - Companion website
Marc A. Schaub, Alan P. Boyle, Anshul Kundaje, Serafim Batzoglou, Michael Snyder, Stanford University

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Study: Powerful bivariate genome-wide association analyses suggest the SOX6 gene influencing both obesity and osteoporosis phenotypes in males. [PMID:19714249]
First author: Liu YZ
Journal: PLoS One
Date: 08/28/2009
Phenotype: Obesity and osteoporosis
Study population: 499 Caucasian males, 501 Caucasian females
Replication population: 1,370 Caucasian males, 1,985 Caucasian females
Association P-value: 5 x 10-07
Gene: SOX6
Risk allele: C
Minor allele frequency (controls): 0.12

Lead SNP

Position: chr11:16,403,511 (Open in UCSC Genome Browser)
Distance to nearest TSS: 40,716 bp
GENCODE v7 location: Intron
No regulatory annotation found

Linkage disequilibrium region

Linkage disequilibrium threshold:
 - In all HapMap 2 populations: r2≥0.8 r2≥0.9 r2=1.0 
 - In the HapMap 2 CEU population r2≥0.8 r2≥0.9 r2=1.0 

No SNPs found for this LD threshold.

This resource uses data from:
 - The NHGRI GWAS catalog (accessed August 10, 2011)
 - The ENCODE project
 - RegulomeDB
 - The HapMap project

Contact: marc.schaub AT
Last modified: 2011-12-15 01:19:20
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