🧬 Project Genesis-HIV

Advanced HIV Simulation Platform & In Silico Cure Research

Overview • Visuals • Features • Installation • Usage • Architecture

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Overview

Project Genesis-HIV is a high-fidelity digital twin of the HIV virus designed to accelerate therapy testing and cure research. This platform integrates multiple scales of HIV biology—from atomic protein interactions to population-level dynamics—to enable realistic simulation of viral behavior, immune responses, and complex therapeutic interventions like CRISPR/Cas9.

Important

Research Goal: This platform is a scientific tool aimed at accelerating the discovery of a functional HIV cure through in silico modeling and AI-driven evolution prediction.

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🚀 Visual Showcase

One of the core strengths of Project Genesis-HIV is its cinematic, scientifically accurate 3D visualization engine.

🔬 Molecular Animations	🧬 Virion Structure
Real-time 3D animation of CRISPR/Cas9 gene editing handled natively in the browser.	High-fidelity surface meshes representing the viral capsid and envelope proteins.

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Key Features

🏢 Multi-Scale Modeling ecosystem

• ⚛️ Atomic Level: Protein structure and molecular interactions with OpenMM integration.
• 🧬 Genetic Level: Genomic analysis, mutation modeling, and resistance prediction.
• 🦠 Cellular Level: Immune dynamics, viral replication, and cell-to-cell transmission.
• 👥 Population Level: Viral load dynamics and treatment responses.
• 🏥 Clinical Level: Treatment protocols and patient outcomes.

🔬 Biological Realism & "Digital Twin" Capabilities

Project Genesis-HIV acts as a computational ecosystem built on verified biological data:

• Viral Evolution: Realistic mutation rates based on RT (Reverse Transcriptase) fidelity data.
• Immune Complexity: Detailed modeling of CD4+, CD8+ T cells, B cells, and cytokine signaling.
• Pharmacokinetics: Accurate PK/PD models for standard-of-care antiretroviral drugs.
• Latent Reservoir: Advanced modeling of reservoir establishment and reactivation dynamics.

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Installation

Prerequisites

• Python 3.10+
• pip package manager

Setup Guide

1. Clone the repository

   git clone <repository-url>
   cd project_genesis_hiv

2. Create Virtual Environment

   # Linux/MacOS
   python -m venv hiv_env
   source hiv_env/bin/activate
   
   # Windows
   python -m venv hiv_env
   hiv_env\Scripts\activate

3. Install Dependencies

   pip install -r requirements.txt

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Usage

🖥️ Running the Dashboard

The main interface is accessed through the unified Streamlit dashboard:

streamlit run src/visualization/unified_dashboard.py