tech-notes.html

<!DOCTYPE html>
<html lang="en">
<head>
    <meta charset="UTF-8">
    <meta name="viewport" content="width=device-width, initial-scale=1.0">
    <title>Technical Notes - Synthetic Biology QC System</title>
    <meta name="description" content="Detailed technical documentation for the synthetic biology QC system">
    <link rel="icon" type="image/x-icon" href="/static/favicon.ico">
    <link rel="stylesheet" href="style.css">
    <script src="https://cdn.tailwindcss.com"></script>
</head>
<body class="bg-gray-900 text-gray-100">
    <custom-navbar></custom-navbar>
    
    <main class="pt-16 min-h-screen">
        <div class="max-w-4xl mx-auto px-4 py-8">
            <h1 class="text-4xl font-bold text-blue-400 mb-8">Technical Notes</h1>
            
            <div class="space-y-8">
                <!-- System Architecture -->
                <section class="bg-gray-800 rounded-lg p-6">
                    <h2 class="text-2xl font-bold text-blue-400 mb-4">System Architecture</h2>
                    <div class="prose prose-invert max-w-none">
                    <h3>Core Components</h3>
                    <ul>
                        <li><strong>Dual Stress Sensors:</strong> σ32 (cytosolic) and σE/Cpx (envelope)</li>
                        <li><strong>ProductionMode Gate:</strong> (Scyt ∨ Senv) ∧ PM logic</li>
                        <li><strong>Actuator & Latch:</strong> Flp(ssrA) recombinase with FRT cassette</li>
                        <li><strong>Translation Certificate:</strong> Ribosomal re-initiation mechanism</li>
                        <li><strong>Antidote:</strong> Dual transcriptional and sRNA inhibition</li>
                    </ul>
                    
                    <h3>Partitioning Strategy</h3>
                    <p>The system is divided between genome-integrated components (sensors, gate, actuator, latch) and plasmid-based elements (target protein, certificate, ProductionMode).</p>
                    </div>
                </section>
                
                <!-- Implementation Details -->
                <section class="bg-gray-800 rounded-lg p-6">
                    <h2 class="text-2xl font-bold text-blue-400 mb-4">Implementation Details</h2>
                    <div class="prose prose-invert max-w-none">
                    <h3>Stress Pathway Integration</h3>
                    <p>The system leverages native E. coli stress response pathways without requiring genetic modifications to the host chassis.</p>
                    
                    <h3>Quality Control Metrics</h3>
                    <ul>
                        <li>Target enrichment: ≥10×</li>
                        <li>False commit risk: ≤0.001</li>
                        <li>ProductionMode threshold: tunable parameter</li>
                    </ul>
                    </div>
                </section>
                
                <!-- References -->
                <section class="bg-gray-800 rounded-lg p-6">
                    <h2 class="text-2xl font-bold text-blue-400 mb-4">References</h2>
                    <div class="prose prose-invert max-w-none">
                    <ul>
                        <li>σ32 heat shock response pathway</li>
                        <li>σE/Cpx envelope stress sensing</li>
                        <li>Flp/FRT recombination system</li>
                        <li>Ribosomal re-initiation mechanisms</li>
                    </ul>
                    </div>
                </section>
            </div>
        </div>
    </main>

    <custom-footer></custom-footer>

    <script src="components/navbar.js"></script>
    <script src="components/footer.js"></script>
    <script src="script.js"></script>
</body>
</html>