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Gene Query

🔹 Gene Query

VarXOmics supports single-gene queries by simply entering the official gene symbol.

1. Input Gene

  • From the Home page, choose “Gene”.
  • Enter the official gene symbol (e.g., BRCA1).
  • Click Run to proceed.


2. View Results

Results are automatically displayed after data loading. Annotations and analyses are organized into four sections:

🧪 Clinical Evidence

This section displays gene-related clinical evidence from ClinVar, ClinGen, and GenCC databases in separated subpanels.

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🍭 ClinVar Lollipop

  • Visualizes all ClinVar-recorded variants for the queried gene as a lollipop plot.
  • Supports zooming and detailed inspection of protein alterations.
  • Plots can be exported in PNG and PDF formats.

🔗 Network

  • Illustrates biological interactions involving the queried gene, including:
  • ClinVar-associated variants
  • Protein–protein interactions (PPIs)
  • The network is interactive: users can zoom or adjust edge weight to explore relationships.

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💊 xQTL & Gene–Drug Interactions

  • Provides structured tables containing:
  • eQTL and pQTL associations
  • Mendelian Randomization (MR) evidence
  • Gene–drug interactions

Access external resources for deeper investigation: - 🧫 Human Protein Atlas — explore tissue-specific gene expression.
- 🧬 GTEx — view gene expression across tissues.
- 📚 PubMed — browse publications related to the queried gene.

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