Overview

IDAllelesLocationGenome BuildSource
rs3792109G/Achr2: 23327577138dbsnp146
rs3792109G/A chr2: 234184417 37dbsnp146_grch37

Jbrowse

Historical Ids

Old Marker IDNew Marker IDCurrent Marker IDdbSNP Build
rs17607778rs3792109rs3792109123
rs58837508rs3792109rs3792109130

Criteria

rs3792109 meets the following criteria:

Criteria Name
Details
Disease Tags
Marker is GW-Significant in a Study 
Marker is in r2>0.8 with an index SNP 
Marker is an index SNP in a Region 

Functional Information

Gene function properties for rs3792109 as derived from dbSNP:
  • in intron
Gene(s) at location of variation:  ATG16L1  SCARNA5 

Study

Studies containing regions of association that span this marker are shown below. Please note that when making comparisons across studies, that they may vary in terms of size, genotyping platform, and exclusion criteria. If the 'Odds Ratio' is less than 1 then the region is protective (alleles are marked as blue) otherwise it is susceptible (alleles marked as red).

StudyPublicationDiseaseRegionMarkerAllelesP-valueORMAFGene(s)

Populations

Populations data from Ensembl 1000 Genome data release May 2013:

Linkage Disequilibrium Statistics

LD Search Options

Linkage disequilibrium (LD) statistics are calculated for rs3792109, using the 1000 genomes data release May 2013. Calculations are performed with the snpStats R library, covering 1Mb either side of the marker; and with the following filters applied: MAF > 0.01, call rate < 0.9, and chi-squared test for deviation from HWE > 25.