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README.md

@@ -85,23 +85,21 @@ First specialized application: visualizing biochemical processes like DNA replic
 The Programming Framework has been applied across multiple scientific disciplines. Explore interactive flowchart collections organized by domain:
 
 ### 🧬 Biology
-- [Biology Processes Collection](https://huggingface.co/spaces/garywelz/programming_framework/blob/main/biology_processes.html) - Links to the Genome Logic Modeling Project (GLMP)
+- [Biology Processes Database](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/biology-processes-database/biology-database-table.html) - Interactive database with 52 higher-level organismal processes across 8 categories (reproduction, development, behavior, defense, nutrition, sensory, transport, coordination)
+- [GLMP Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/glmp-database-table.html) - Genome Logic Modeling Project: Biochemical/molecular processes database (50+ processes)
+- **Note:** Biology Processes Database focuses on organismal, developmental, behavioral, and ecological processes. GLMP focuses on molecular-level biochemical processes. Together they provide comprehensive biological process coverage.
 
 ### ⚗️ Chemistry
 - [Chemistry Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/chemistry-processes-database/chemistry-database-table.html) - Interactive database with 56 processes across 14 subcategories
-- [Chemistry Index](https://huggingface.co/spaces/garywelz/programming_framework/blob/main/chemistry_index.html) - Main index for chemistry processes with links to all chemistry batches
 
 ### 🔢 Mathematics
 - [Mathematics Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/mathematics-processes-database/mathematics-database-table.html) - Interactive database with 20 processes across 7 subcategories
-- [Mathematics Index](https://huggingface.co/spaces/garywelz/programming_framework/blob/main/mathematics_index.html) - Main index for mathematics processes with links to all mathematics batches
 
 ### ⚛️ Physics
 - [Physics Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/physics-processes-database/physics-database-table.html) - Interactive database with 21 processes across 7 subcategories
-- [Physics Index](https://huggingface.co/spaces/garywelz/programming_framework/blob/main/physics_index.html) - Main index for physics processes with links to all physics batches
 
 ### 💻 Computer Science
 - [Computer Science Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/computer-science-processes-database/computer-science-database-table.html) - Interactive database with 21 processes across 7 subcategories
-- [Computer Science Index](https://huggingface.co/spaces/garywelz/programming_framework/blob/main/computer_science_index.html) - Main index for computer science processes
 
 ## 🔧 Technical Architecture
 

index.html

@@ -287,20 +287,23 @@
                         <span class="text-2xl mr-2">🧬</span> Biology
                     </h3>
                     <p class="text-gray-600 text-sm mb-3">
-                        Biological process visualizations from the Genome Logic Modeling Project (GLMP) - the first application of the Programming Framework.
+                        Biological process visualizations: GLMP covers biochemical/molecular processes; Biology Database covers higher-level organismal processes.
                     </p>
                     <div class="space-y-2">
-                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/glmp-database-table.html" 
+                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/biology-processes-database/biology-database-table.html" 
                            class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block mr-4"
                            target="_blank" rel="noopener noreferrer">
-                            🗄️ GLMP Database Table →
+                            🗄️ Biology Processes Database →
                         </a>
-                        <a href="biology_processes.html" 
+                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/glmp-database-table.html" 
                            class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
                            target="_blank" rel="noopener noreferrer">
-                            📚 Biology Processes Collection →
+                            🗄️ GLMP Database Table →
                         </a>
                     </div>
+                    <p class="text-xs text-gray-500 mt-2">
+                        Biology Database: 52 processes (organismal/ecological) | GLMP: 50+ processes (biochemical/molecular)
+                    </p>
                 </div>
 
                 <!-- Chemistry -->
@@ -311,18 +314,11 @@
                     <p class="text-gray-600 text-sm mb-3">
                         Comprehensive chemistry process diagrams across all major branches.
                     </p>
-                    <div class="space-y-2">
-                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/chemistry-processes-database/chemistry-database-table.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block mr-4"
-                           target="_blank" rel="noopener noreferrer">
-                            🗄️ Chemistry Database Table →
-                        </a>
-                        <a href="chemistry_index.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
-                           target="_blank" rel="noopener noreferrer">
-                            📚 Chemistry Index →
-                        </a>
-                    </div>
+                    <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/chemistry-processes-database/chemistry-database-table.html" 
+                       class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
+                       target="_blank" rel="noopener noreferrer">
+                        🗄️ Chemistry Database Table →
+                    </a>
                     <p class="text-xs text-gray-500 mt-2">
                         56 processes across 14 subcategories
                     </p>
@@ -336,18 +332,11 @@
                     <p class="text-gray-600 text-sm mb-3">
                         Mathematical algorithms, proof methods, and computational processes.
                     </p>
-                    <div class="space-y-2">
-                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/mathematics-processes-database/mathematics-database-table.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block mr-4"
-                           target="_blank" rel="noopener noreferrer">
-                            🗄️ Mathematics Database Table →
-                        </a>
-                        <a href="mathematics_index.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
-                           target="_blank" rel="noopener noreferrer">
-                            📚 Mathematics Index →
-                        </a>
-                    </div>
+                    <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/mathematics-processes-database/mathematics-database-table.html" 
+                       class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
+                       target="_blank" rel="noopener noreferrer">
+                        🗄️ Mathematics Database Table →
+                    </a>
                     <p class="text-xs text-gray-500 mt-2">
                         20 processes across 7 subcategories
                     </p>
@@ -361,18 +350,11 @@
                     <p class="text-gray-600 text-sm mb-3">
                         Physical processes including quantum mechanics, thermodynamics, and particle physics.
                     </p>
-                    <div class="space-y-2">
-                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/physics-processes-database/physics-database-table.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block mr-4"
-                           target="_blank" rel="noopener noreferrer">
-                            🗄️ Physics Database Table →
-                        </a>
-                        <a href="physics_index.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
-                           target="_blank" rel="noopener noreferrer">
-                            📚 Physics Index →
-                        </a>
-                    </div>
+                    <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/physics-processes-database/physics-database-table.html" 
+                       class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
+                       target="_blank" rel="noopener noreferrer">
+                        🗄️ Physics Database Table →
+                    </a>
                     <p class="text-xs text-gray-500 mt-2">
                         21 processes across 7 subcategories
                     </p>
@@ -386,18 +368,11 @@
                     <p class="text-gray-600 text-sm mb-3">
                         Algorithms, software engineering workflows, and computational processes.
                     </p>
-                    <div class="space-y-2">
-                        <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/computer-science-processes-database/computer-science-database-table.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block mr-4"
-                           target="_blank" rel="noopener noreferrer">
-                            🗄️ Computer Science Database Table →
-                        </a>
-                        <a href="computer_science_index.html" 
-                           class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
-                           target="_blank" rel="noopener noreferrer">
-                            📚 Computer Science Index →
-                        </a>
-                    </div>
+                    <a href="https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/computer-science-processes-database/computer-science-database-table.html" 
+                       class="text-orange-600 hover:text-orange-700 font-medium text-sm inline-block"
+                       target="_blank" rel="noopener noreferrer">
+                        🗄️ Computer Science Database Table →
+                    </a>
                     <p class="text-xs text-gray-500 mt-2">
                         21 processes across 7 subcategories
                     </p>