Genomics & variant visualizations

These are generated when EMET retrieves GWAS results, somatic mutation data, or structural variant calls. The mutation gram (lollipop plot) is especially common when you ask about hotspot mutations in a specific gene.

Manhattan Plot

Genome-wide significance across chromosomes. −log10 p-values per locus with genome-wide and suggestive thresholds.

Triggered by: GWAS Catalog queries, eQTL results

Mutation Gram (Lollipop)

Somatic mutation hotspots across protein positions with domain annotation. Bubble size = sample count; color = mutation type.

Triggered by: cBioPortal, OncoKB mutation queries on a specific gene

Circos Plot

Circular genome visualization for structural variants, gene fusions, chromosomal rearrangements, and copy number variation.

Ask: "Show the fusion landscape" or "Visualize structural variants"

Genome Browser

Interactive multi-track browser with variant annotation, gene models, conservation, and Hi-C arcs.

Ask: "Show this region in a genome browser"

Primer Amplicon Viewer

Linear diagram of forward/reverse primer binding sites and predicted PCR amplicons with genomic coordinates.

Triggered by: primer design, ePCR validation queries