Chunk #16 — METHOD AND PIPELINE — Pipeline — Plotting the GWAS3D regulatory variants

Source

GWAS3D: Detecting human regulatory variants by integrative analysis of genome-wide associations, chromosome interactions and histone modifications.

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To visualize global chromosome interactions among putative regulatory variants and their associated loci, GWAS3D also provide informative circle plots of high-dimensional chromosome interactions. We selected top significant variants (defined by the user) detected by GWAS3D and mapped them to RefGene for gene names or Cytoband for chromosome locations. We generated an intuitive circle graph using VIZ-GRAIL (38) with some modifications.