DiVenn

DiVenn visualizes and compares gene expression datasets using force-directed graphs and integrates KEGG pathway and GO term annotations for pathway enrichment and functional analysis.

Key Features:

• Force-Directed Graph Visualization: Visualizes multiple datasets with a force-directed graph that represents gene expression and regulation levels for comparison across experimental conditions.
• KEGG and GO Annotation Integration: Integrates KEGG pathway and Gene Ontology (GO) annotations to subset or highlight gene nodes based on pathway or GO term membership.
• Pathway and GO Enrichment Analysis: Performs enrichment analysis on selected genes or subsets to identify significant pathways and GO terms associated with the data.
• High-Resolution Export: Exports high-resolution images containing detailed gene-associated information for sharing and record-keeping.

Scientific Applications:

• Comparative RNA-Seq and gene expression analysis: Compares gene expression patterns across biological conditions and multiple RNA-Seq experiments to identify overlapping and condition-specific genes.
• Pathway and functional contextualization: Contextualizes gene lists within KEGG pathways and GO terms to support insights into gene regulation and functional genomics.
• Comparative genomics studies: Aids comparative genomic analyses by enabling cross-experiment comparisons of gene expression and pathway involvement.

Methodology:

Uses a force-directed graph to dynamically represent gene expression levels and overlapping genes, integrates KEGG pathway and GO term annotations into the visualization, and conducts pathway and GO enrichment analysis on selected gene subsets.