circMine

circMine integrates and analyzes human disease-related circular RNA (circRNA) transcriptomes to standardize heterogeneous public datasets, provide visualization, and support discovery of circRNA associations with clinical parameters, circRNA–miRNA interactions, and circRNA translatability.

Key Features:

• Extensive Database: Contains 1,821,448 entries derived from 136,871 circRNAs across 120 transcriptome datasets, 1,107 samples, 31 human body sites, and 87 diseases.
• Standardization and Annotation: Datasets are standardized and annotated with relevant clinical information to enable correlation of circRNA expression with clinical parameters.
• Integration, Analysis, and Visualization: Integrates circRNA data from public repositories and provides computational analysis and visualization of circRNA transcriptomes.
• Analytical Functions: Offers 13 online analytical functions that allow grouping of samples based on clinical data and customization of analysis parameters.
• Specialized Tools: Includes three tools for discovery of circRNA–miRNA interactions and assessment of circRNA translatability, enabling identification of potential translatable circRNAs linked to disease processes such as prostate cancer progression.

Scientific Applications:

• Clinical association studies: Correlates circRNA expression with clinical variables across diverse diseases and body sites.
• Interaction discovery: Identifies putative circRNA–miRNA interactions to inform regulatory network analyses.
• Translatability assessment: Detects candidate translatable circRNAs and links them to disease-related processes, exemplified by findings in prostate cancer progression.

Methodology:

Computational steps explicitly include integration of circRNA datasets from public repositories, dataset standardization and clinical annotation, provision of 13 online analytical functions for sample grouping and parameter customization, visualization, and three specialized tools for circRNA–miRNA interaction discovery and circRNA translatability assessment.