In-Silico Library of Hydro-Optimized Peptide Constructs via Ontological Metrics (TCDS Genesis Dataset)

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Authors: Genaro Carrasco Ozuna
Cited by: 0

Abstract

Current computational biology paradigms rely heavily on evolutionary homology to predict protein stability, limiting design space to structures with natural antecedents. This work introduces the Synchronous Chromodynamic Theory (TCDS), a deterministic framework that models protein stability as a vector equilibrium between Internal Pressure ($Q$) and Substrate Density ($\Sigma$).We present a unified dataset of 100 de novo peptide sequences generated by the OmniKernel Genesis engine. These constructs are optimized for hydrodynamic locking in aqueous environments ($\Sigma=1.0$) but possess internal density metrics ($Q > 25.0$) that suggest hyper-stability in high-energy environments where biological matter typically fails. Crucially, these sequences have zero Multiple Sequence Alignment (MSA) matches, yet are predicted by AlphaFold to fold with high confidence (pLDDT > 90), validating the TCDS hypothesis that physical geometry, not just evolutionary history, dictates structural viability.This dataset serves as the foundational proof-of-concept for "Solid-State Biology," a new class of programmable matter designed for extreme substrates including vacuum and stellar plasma.

Fields of Study & Subjects

Protein Structure and Dynamics Chemical Synthesis and Analysis RNA and protein synthesis mechanisms

Publication details

Journal / source
Zenodo (CERN European Organization for Nuclear Research)
Publication date
29 January 2026
Document type
Preprint