TCR_Explore

TCR_Explore analyzes T cell receptor (TCR) repertoires, including alpha-beta and gamma-delta TCRs, to profile clonotypic diversity and support immunological research and disease-associated clonotype identification.

Key Features:

• TCR types supported: Supports analysis of both alpha-beta and gamma-delta TCR repertoires.
• Sequencing compatibility: Accepts data derived from Sanger sequencing and next-generation sequencing (NGS) platforms.
• Automated quality control: Implements automated quality control steps for datasets obtained via Sanger sequencing.
• Data conversion and standardization: Converts outputs from diverse sequencing platforms into a standardized file format compatible with TCR_Explore.
• Clonotype profiling and repertoire analysis: Profiles clonotypic signatures and assesses TCR repertoire diversity.
• Visualization: Produces flexible, publication-ready figures from standardized TCR repertoire data.
• Automation and error reduction: Automates processing steps to minimize manual handling and reduce potential data entry errors.

Scientific Applications:

• Clonotype identification and disease association: Identifies T cell clonotypes and supports analyses linking clonotypes to health conditions and diseases.
• New and legacy dataset analysis: Enables analysis of both newly generated and pre-existing TCR repertoire datasets.
• Support for immunology and therapeutic research: Provides repertoire-level insights relevant to immunological research and potential therapeutic development.

Methodology:

Performs automated quality control for Sanger sequencing, converts sequencing outputs into a standardized file format, profiles clonotypic signatures for alpha-beta and gamma-delta TCRs, and generates publication-ready visualizations.