Cell Behavior Science (CBS): A Physically Grounded Framework Integrating Non-Equilibrium Thermodynamics, Active Matter Theory, Mechanobiology, Gene Regulatory Networks, Metabolic Fluxes, and Extracellular Matrix Remodeling

Cell Behavior Science (CBS) introduces a unified, physically grounded framework for predicting cellular dynamics, integrating non-equilibrium thermodynamics, active matter hydrodynamics, cytoskeletal mechanobiology, gene regulatory networks, dynamic flux balance analysis, and extracellular matrix remodeling with durotactic feedback. The cell is modeled as an open dissipative system driven by ATP hydrolysis, enabling quantitative simulations from femtosecond vibrational coherences to organotypic scales. Core hypotheses include the Coherent Vibrational Network (CVN), with ultrafast oscillations (10 fs–1.2 ps) enhancing catalysis (coherence integrals >0.35 ps, τ_c >0.8 ps), and Mechano-Geometric Memory (MGM), encoding deformations in eigenmodes (<10 Hz) to modulate epigenetics (r>0.88, τ_v~100 s). The Entropic Flux Model (EFM) quantifies entropy production while incorporating mechanotransduction, metabolic shifts (e.g., Warburg: v_gly ≥2 v_OXPHOS +0.5 M_MGM), and durotaxis (v_duro = v_0 ∇E / ||∇E|| tanh(||∇E|| / E_c)). Implementation combines agent-based modeling, graph neural networks (AUROC>0.94), and proximal policy optimization for therapeutic optimization (45% acceleration). Benchmarks across invasion (RMSE 1.35±0.06 μm/h), organoids (AUC 0.948±0.008), resistance (91.2±0.8%), contractility (R²=0.89±0.02), and fibrosis (RMSE 0.85±0.04) outperform baselines by 18–52% (p<10^{-5}). Sensitivity analyses (Sobol S_i<0.05) confirm robustness. CBS is falsifiable via spectroscopic, genomic, calorimetric, fluxomic, and migratory assays, advancing precision therapeutics (e.g., 32% AAV enhancement, 40% fibrosis reduction).