TMExplorer

TMExplorer provides a curated repository of 21 single-cell RNA sequencing (scRNA-seq) datasets from 12 cancer types to enable analysis of tumour microenvironment (TME) gene expression at single-cell resolution.

Key Features:

• Comprehensive Database: Consolidates 21 curated TME scRNA-seq datasets spanning 12 distinct cancer types for cross-study analysis.
• Dataset search and retrieval: Supports searching and retrieval of datasets together with their associated metadata.
• Multiple expression formats: Offers datasets in multiple expression data formats to support diverse analytical workflows.
• Metadata accessibility and filtering: Provides detailed metadata tables enabling selection and filtering of datasets by characteristics such as cancer type.
• Data export options: Enables exporting data in multiple formats for integration with external analysis tools and pipelines.
• Standardized curation: Maintains standardized data and metadata formats across entries to support reproducibility and comparative analyses.

Scientific Applications:

• TME composition analysis: Enables analysis of cellular composition and gene expression for cell types including stromal fibroblasts, endothelial cells, immune cells, malignant cells, and tissue-origin cells.
• Comparative heterogeneity studies: Supports comparative analysis of tumour microenvironment heterogeneity across different cancer types using the curated scRNA-seq datasets.
• Biomarker and target discovery: Facilitates identification of candidate biomarkers or therapeutic targets within specific cellular subpopulations.

Methodology:

Systematic collection and curation of scRNA-seq datasets with standardized data and metadata formats.