Theoretical Background

This section covers the theoretical foundation and concepts behind GeneInsight.

• Theoretical Foundation
  • The Challenge of Gene Set Interpretation
  • Topic Modeling Approach
  • LLM Integration
• Topic Modeling
  • Fundamentals of Topic Modeling
  • BERTopic Implementation
  • LLM Integration for Theme Generation
  • Multi-run Convergence Strategy
  • Topic Clustering and Hierarchical Organization
  • Downstream Enrichment Analysis
• Enrichment Analysis
  • Traditional Enrichment Analysis
  • GeneInsight’s Enhanced Approach
  • Semantic Overlap Metrics
  • Top-k Semantic Similarity Analysis
  • Performance Evaluation