OASIS

OASIS facilitates analysis, search, and visualization of associations among genotypes, phenotypes, transcriptomics, and metabolomics to support mining and follow-up of GWAS and other association studies.

Key Features:

• Association mining: Mining and exploration of results from genome-wide association studies (GWAS) and other association studies across genotypes, phenotypes, transcriptomics, and metabolomics.
• Real-time analyses: Linkage disequilibrium calculations, conditional analysis, and direct variant comparison for rapid follow-up of association signals.
• On-demand visualizations: Generation of boxplots, histograms, LocusZoom plots, Haploview plots, and pedigree charts for interpreting association results.
• Comprehensive annotation and links: Search reports include annotations from Annovar and WGSA and provide links to gnomAD, GTEx, HaploReg, Roadmap, UCSC, and NCBI.

Scientific Applications:

• Multi-omics association studies: Analysis of whole-exome, whole-genome, metabolome, transcriptome, and methylome association datasets.
• GWAS follow-up: Exploration and prioritization of GWAS signals and variant-level hypotheses.
• Population-specific genetic studies: Application to cohort-based research including analyses of Old Order Amish datasets at the University of Maryland School of Medicine.

Methodology:

Performs linkage disequilibrium calculations, conditional analysis, direct variant comparison, generates boxplots, histograms, LocusZoom and Haploview plots and pedigree charts, and annotates variants using Annovar and WGSA with links to gnomAD, GTEx, HaploReg, Roadmap, UCSC, and NCBI.