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🧬 VarXOmics

A free-access, versatile web platform for genomic data querying, analyzing, and variant prioritization with multi-omics insights

📍 Access VarXOmics: https://www.phenomeportal.org/varxomics

🌟 Key Features

1. Comprehensive Variant Support
   Analyze both small variants (SNVs, INDELs) and structural variants (SVs, CNVs) within a unified interface.

2. Detailed Functional Annotation Provide comprehensive variant annotation, including HGVSc, HGVSp, consequences on proteins, clinical evidence, global allele frequency, prediction scores.

3. Integrated Multi-Omics Evidence
   Consolidates diverse omics datasets — eQTL, pQTL, GWAS, Mendelian Randomization (MR), and Pharmacogenomics (PGx) providing a holistic view of variant function and disease relevance.

4. Functional and Network Interpretation
   Supports gene set enrichment analysis (GO/KEGG) and interactive biological network visualization to uncover variant–gene–drug–phenotype relationships across omics layers.

5. Variant Prioritization Systems
   Implements an evidence-weighted scoring system integrating multi-omics and clinical data to highlight potentially disease-causing variants.

6. Downloadable Visualizations and Data
   All tables and plots are exportable (PNG, PDF, TSV) for seamless downstream analysis and reporting.

📘 Tutorials

The step-by-step tutorial video could be found here.

Each module of VarXOmics is documented with explicit Markdown guides:

Module	Description	Tutorial
Single Variant Query	Query and annotate individual SNPs or INDELs.	View Tutorial ›
CNV/SV Query	Annotate and visualize structural variants (CNVs, SVs).	View Tutorial ›
Gene Query	Explore clinical and omics evidence for a given gene.	View Tutorial ›
Multi-Variant Analysis	Upload and filter VCF files for cohort-wide analysis.	View Tutorial ›
Multi SV/CNV Analysis	Visualize and interpret multi-sample CNV/SV datasets.	View Tutorial ›

📂 Data Access:

Data Access Documentation ›