Figure 2
The LDGIdb interface. (A) The three adjustable parameters. Users can search for LRLD-SNP pairs and LDGIs by setting the three adjustable parameters: HapMap Phase (II or III), P value of PLINK population clustering (P < 0.01 or P < 0.001), and r2 value for linkage disequilibrium (≥ 0.8, ≥ 0.9, and 1). (B) Types of queries. Users can query by selecting the genomic types of the LRLD-linked SNP loci (D) and the population of interest (E), SNP accession number, gene accession number, or the coordinates of the genomic region of interest. (C) GWAS-related LRLD-SNP pairs. (F) and (G) are results. Users can download all records by clicking on the button (F). The first 10 records are displayed (G). If the linked SNP(s) is located within alternatively spliced genomic regions or overlapping genes, a LRLD-SNP pair record appears more than once with different genomic types or gene accession numbers in the downloaded file.