HIVseqDB

HIVseqDB analyzes HIV-1 next-generation sequencing (NGS) data to detect and characterize low-abundance drug resistance mutations (LA-DRMs) and to integrate these genetic findings with clinical and demographic metadata for resistance and prevalence analyses.

Key Features:

• NGS and metadata integration: Integrates NGS data with clinical and demographic metadata to enable combined genetic and contextual analyses of drug resistance.
• Sensitive LA-DRM detection: Enables sensitive detection and characterization of low-abundance drug resistance mutations (LA-DRMs) from NGS datasets.
• Modular Django architecture: Implements each functionality as an individual Django application to support modular updates and extension.
• Deployment flexibility: Supports deployment on on-premises high-performance computing facilities and cloud-based platforms.
• Data management and visualization: Supports uploading NGS data with associated sample information, browsing uploaded datasets, and visualizing analysis results.

Scientific Applications:

• Drug resistance surveillance: Characterizes HIV-1 drug resistance patterns and assesses prevalence of resistance mutations.
• Correlation analyses: Correlates LA-DRMs with clinical outcomes and demographic factors to contextualize resistance findings.
• Treatment impact assessment: Assesses potential impact of identified resistance mutations on treatment response to inform research and clinical evaluation.

Methodology:

Collects and integrates NGS data with clinical and demographic metadata and applies advanced bioinformatics algorithms to identify drug resistance mutations and assess their prevalence and impact; implemented as modular Django applications.