EndoDB

EndoDB aggregates and pre-analyzes publicly available endothelial cell transcriptomics datasets from gene expression microarrays and single-cell RNA sequencing to support comparative and functional analyses of endothelial cell biology.

Key Features:

• Extensive Data Collection: Aggregates 360 datasets comprising 4,741 bulk and 5,847 single-cell endothelial transcriptomes from six organisms.
• Supported Technologies: Contains data generated by gene expression microarrays and single-cell RNA sequencing.
• Expert Curation and Quality Assurance: Applies expert curation and quality assurance to included datasets.
• Analytical Methods: Provides precomputed analyses including Principal Component Analysis (PCA), differential gene expression analysis, Gene Set Enrichment Analysis (GSEA), heatmaps, metabolic analyses, and transcription factor analyses.
• Single-Cell Visualization: Includes t-SNE plots color-coded by gene expression for single-cell transcriptomics visualization.

Scientific Applications:

• Endothelial cell homeostasis and function: Enables analysis of molecular mechanisms underlying endothelial roles in blood flow regulation and immune cell trafficking.
• Endothelial dysfunction and disease: Facilitates identification of genes and pathways deregulated in endothelial cells across prevalent diseases to support studies of EC dysfunction.

Methodology:

Integration of publicly available gene expression microarray and single-cell RNA sequencing datasets, expert curation and quality assurance, and application of advanced bioinformatics tools to pre-analyze the data.