Fix stale process counts, paper count, and Prior Work framing in README

- GLMP: 50+/100+ -> 217 biological processes
- Biology 52->55, Chemistry 56->123, Mathematics 20->226, Computer Science 21->50
- Research papers: 12,000+ -> 63,186 (verified live total)
- "Prior Work & Research Contributions" -> "Role & Contributions"
- Reframe from past-tense demonstration/proof-of-concept to present-tense operational methodology

README.md

@@ -16,12 +16,12 @@ A Universal Method for Process Analysis
 
 The **Programming Framework** is a universal meta-tool for analyzing complex processes across any discipline by combining Large Language Models (LLMs) with visual flowchart representation. The Framework transforms textual process descriptions into structured, interactive Mermaid flowcharts stored as JSON, enabling systematic analysis, visualization, and integration with knowledge systems.
 
-Successfully demonstrated through GLMP (Genome Logic Modeling Project) with 50+ biological processes, and applied across Chemistry, Mathematics, Physics, and Computer Science. The Framework serves as the foundational methodology for the CopernicusAI Knowledge Engine, enabling domain-specific process visualization and analysis.
+Successfully demonstrated through GLMP (Genome Logic Modeling Project) with 217 biological processes, and applied across Chemistry, Mathematics, Physics, and Computer Science. The Framework serves as the foundational methodology for the CopernicusAI Knowledge Engine, enabling domain-specific process visualization and analysis.
 
-## 📚 Prior Work & Research Contributions
+## 📚 Role & Contributions
 
 ### Overview
-The Programming Framework represents **prior work** that demonstrates a novel methodology for analyzing complex processes by combining Large Language Models (LLMs) with visual flowchart representation. This research establishes a universal, domain-agnostic approach to process analysis that transforms textual descriptions into structured, interactive visualizations.
+The Programming Framework is the domain-agnostic methodology behind CopernicusAI's process analysis — combining Large Language Models (LLMs) with visual flowchart representation to transform textual process descriptions into structured, interactive visualizations across any discipline.
 
 ### 🔬 Research Contributions
 - **Universal Process Analysis:** Domain-agnostic methodology applicable across biology, chemistry, software engineering, business processes, and more
@@ -42,10 +42,10 @@ The Programming Framework serves as the **foundational meta-tool** of the Copern
 - **CopernicusAI** - Main knowledge engine integrating Framework outputs with AI podcasts and research synthesis
 - **Research Tools Dashboard** (✅ Implemented December 2025) - Fully operational web interface with knowledge graph visualization, vector search, RAG queries, and content browsing. Processes from Chemistry, Physics, Mathematics, and Computer Science are accessible through the unified dashboard. Live at: https://copernicus-frontend-phzp4ie2sq-uc.a.run.app/knowledge-engine
 - **Public Project Interface** (✅ Implemented January 2025) - Comprehensive public-facing page providing access to all CopernicusAI Knowledge Engine components. Live at: https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/copernicusai-public-reviewer.html
-- **Research Papers Metadata Database** - Integration for linking processes to source literature (12,000+ papers indexed)
+- **Research Papers Metadata Database** - Integration for linking processes to source literature (63,186 papers indexed)
 - **Science Video Database** - Potential integration for multi-modal process explanations
 
-This work establishes a proof-of-concept for AI-assisted process analysis, demonstrating how LLMs can systematically extract and visualize complex logic from textual sources across diverse domains. The Knowledge Engine now provides a unified interface for exploring processes alongside research papers, podcasts, and other content types.
+This is the foundational methodology for AI-assisted process analysis — LLMs systematically extract and visualize complex logic from textual sources across diverse domains. The Knowledge Engine provides a unified interface for exploring processes alongside research papers, podcasts, and other content types.
 
 ## 🎯 Overview
 
@@ -86,21 +86,21 @@ 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 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)
+- [Biology Processes Database](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/biology-processes-database/biology-database-table.html) - Interactive database with 55 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 (217 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?v=20260429) - Interactive database with 56 processes across 14 subcategories
+- [Chemistry Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/chemistry-processes-database/chemistry-database-table.html?v=20260429) - Interactive database with 123 processes across 14 subcategories
 
 ### 🔢 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 Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/mathematics-processes-database/mathematics-database-table.html) - Interactive database with 226 processes across 7 subcategories
 
 ### ⚛️ Physics
 - [Physics Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/physics-processes-database/physics-database-table.html?v=20260429) - Interactive database with 21 processes across 7 subcategories
 
 ### 💻 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?v=20260429) - Interactive database with 21 processes across 7 subcategories
+- [Computer Science Database Table](https://storage.googleapis.com/regal-scholar-453620-r7-podcast-storage/computer-science-processes-database/computer-science-database-table.html?v=20260429) - Interactive database with 50 processes across 7 subcategories
 
 ## 🔧 Technical Architecture
 
@@ -143,7 +143,7 @@ The Programming Framework is designed as infrastructure for AI-assisted science,
 ## 🔗 Related Projects
 
 ### 🧬 GLMP - Genome Logic Modeling
-First specialized application of the Programming Framework to biochemical processes. 100+ biological pathways visualized.
+First specialized application of the Programming Framework to biochemical processes. 217 biological pathways visualized.
 - [Visit GLMP →](https://huggingface.co/spaces/garywelz/glmp)
 
 ### 🔬 CopernicusAI