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GenomeRunner: Functional interpretation of SNPs within regulatory/epigenomic context

GenomeRunner is a tool for functional enrichment analysis of SNP sets within regulatory/epigenomic context. The philosophy behind GenomeRunner is that SNPs are not acting in isolation and may collectively alter regulatory/epigenomic features. Finding which regulatory features are affected may help to understand mechanisms of complex diseases from a holistic perspective.


GenomeRunner performs regulatory enrichment/annotation analyses, differential regulatory analysis, and cell type-specific enrichment analysis. The downloadable results are visualized as interactive heatmaps, barplots, and tables (Example 1, single SNP set analysis), (Example 2, multiple SNP sets analysis).

Reference
GenomeRunner web server: regulatory similarity and differences define the functional impact of SNP sets. (PDF
Dozmorov MG, Cara LR, Giles CB, Wren JD

1. Select sets of SNPs of interest help

Files:

What should the data in BED format look like?

Organism:

help

Demo SNP sets (click to select):

2. Define the background: help

3. Select regulatory/epigenomic datasetshelp

CpG helpnestedRepeats helpknownAlt helpGERP helpgwasCatalog helpVMRs helpncRnas helpsuper_enhancers helptfbsEncode helpcoriellCNVs helptfbsConserved helpH3K4me3 helpUCNEs help3D_subcompartments helpDGV help
The results of GenomeRunner analyses may be used for research purposes only.

Advanced Features

help Run annotation analysishelp
help

GenomeRunner works best in Chrome (recommended) or Firefox. Mac users, use Safari.

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