VSeq-Toolkit

VSeq-Toolkit analyzes short-read high-throughput sequencing data to characterize viral vectors by detecting and quantifying known contaminants, identifying intra-vector fusion breakpoints, and mapping viral–host fusion events for safety assessment in gene therapy.

Key Features:

• Contaminant Detection: Identifies and quantifies known contaminants in viral preparations and sequencing datasets.
• Intra-vector Fusion Breakpoint Analysis: Detects and reports intra-vector fusion breakpoints to characterize structural variations within vectors.
• Viral–Host Fusion Event Distribution: Maps and summarizes the distribution of viral–host fusion events to inform genotoxicity assessment.
• Multi-vector Concurrent Analysis: Analyzes multiple viral vectors concurrently for large-scale studies.
• Sequencing Input Support: Operates on short-read high-throughput sequencing data, including whole-genome and targeted sequencing.
• Modular Analysis Modes: Allows analysis modes to be executed independently or in combination.

Scientific Applications:

• Vector Safety Assessment: Assess genotoxicity and integrity of viral vectors by analyzing contaminants and fusion events.
• Quality Control of Viral Preparations: Quantify contaminant frequencies to evaluate vector purity for therapeutic use.
• Regulatory and Preclinical Evaluation: Provide data on vector composition and structural variation to support regulatory safety dossiers.
• Large-scale Comparative Studies: Enable concurrent analysis of multiple vectors across samples for population-scale evaluations.

Methodology:

Operates on short-read high-throughput sequencing data (whole-genome and targeted sequencing); analysis modes can be executed independently or combined; capable of concurrent analysis of multiple viral vectors; detects and quantifies contaminants, intra-vector fusion breakpoints, and viral–host fusion events.