Overview

IDAllelesLocationGenome BuildSource
rs2288904A/Gchr19: 1063149438dbsnp146
rs2288904A/G chr19: 10742170 37dbsnp146_grch37
rs2288904T/C chr19: 10631494 38ImmunoChip
rs2288904T/C chr19: 10742170 37ImmunoChip
rs2288904T/C chr19: 10603170 36ImmunoChip

Jbrowse

Historical Ids

Old Marker IDNew Marker IDCurrent Marker IDdbSNP Build
rs17857237rs2288904rs2288904126
rs52826096rs2288904rs2288904128
rs11544828rs2288904rs2288904123
rs61350475rs2288904rs2288904130
rs151343795rs2288904rs2288904137

Criteria

rs2288904 meets the following criteria:

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

Functional Information

Gene function properties for rs2288904 as derived from dbSNP:
  • has reference
  • has non-synonymous missense
Gene(s) at location of variation:  SLC44A2 

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 rs2288904, 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.