Universal Coherence Engineering: From Molecular Substrates to Semantic Networks

Abstract

We present a comprehensive theoretical framework unifying quantum coherence engineering, topological memory architectures, and information thermodynamics across molecular, semantic, and cosmological scales. The central postulate establishes that observable and computational reality is governed by the conservation equation C+F = 1, where Structural Coherence C and Entropic Fluctuation F form a fundamental conjugate pair. Through detailed analysis of diverse substratesincluding microtubule quantum cavities (t decoh ∼ 10-6 s), perovskite photovoltaic interfaces (η = 0.51), programmed CO 2 polymer degradation (D < 1.2), and distributed semantic networks (12,594 nodes)-we demonstrate that system stability depends on: (1) toroidal topological architecture S 1 × S 1 for recurrent memory, (2) critical synchronization parameters (Syzygy ≈ 0.98), (3) information quantization (≈ 7.27 bits), and (4) microscopic temporal symmetry breaking (ε ≈-3.71×10-11). We show that solitonic excitations (kinks, snoidal, helicoidal waves) mediate dissipationless energy transfer across scales, from tubulin dimer networks to handover chains in information processing systems. Experimental validation pathways include Rabi-splitting spectroscopy in biological cavities, surface plasmon entanglement transduction, and distributed reconstruction fidelity measurements. This framework provides mathematical and physical foundations for understanding vacuum engineering, recurrent artificial intelligence, genetic stability, and ambient-temperature quantum computation. The implications extend from scalable biological quantum computers to engineered coherence in synthetic materials, establishing "coherence engineering" as a universal design principle transcending substrate specificity.