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: Genome-wide association study identifies variants associated with histologic features of nonalcoholic Fatty liver disease. [PMID:20708005]
First author: Chalasani N
Journal: Gastroenterology
Date: 08/10/2010
Phenotype: Non-alcoholic fatty liver disease histology (lobular)
Study population: 236 non-Hispanic Caucasian women
Association P-value: 5 x 10-06
Odds ratio [95% confidence interval]: .75 [NR] unit increase
Gene: RPS9P3 - FAM174A
Risk allele: G
Minor allele frequency (controls): 0.30

Lead SNP

Position: chr5:99,342,047 (Open in UCSC Genome Browser)
Distance to nearest TSS: 428,385 bp
GENCODE v7 location: Intergenic region
RegulomeDB Score: 6 - Motif (Open in RegulomeDB)

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 01:19:15
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