By default (i.e. without selecting any input dataset, snpXplorer will load IGAP study (chr16).
Add your GWAS
Visualize your own GWAS data
Please make sure data has at least chromosome, position and p-value columns. A header is required. See More/Help to download sample files and More/Documentation for additional information.
Choose your reference genome
By default, GRCh37 (hg19) is used. snpXplorer uses liftOver tool to change genomic coordinates between reference genome versions.
Choose how to browse the genome
Locus: genomic location of interest. The format is chromosome:position (e.g 1:12345678)
RsID: variant of interest. The format is rsXXXX (e.g rs7412)
Gene name: gene of interest. The format is gene symbol (e.g APOE)
Customize your plot
Select population(s) to calculate LD
** If you don't select any population, by default European samples of the 1000Genome project will be used. Please refer to the Help section for additional information about the populations reported above.
** In case the top SNP is not in 1000Genome data, we take the second-most significant, then the third-most significant, etc.