Toward a Matrix World: Integrating Electron-Positron DNA Computer Feedback, Artificial Intelligence, and Double-Strand Break Mechanisms in Simulated Consciousness

Review Article | DOI: https://doi.org/10.31579/2642-973X/143

Toward a Matrix World: Integrating Electron-Positron DNA Computer Feedback, Artificial Intelligence, and Double-Strand Break Mechanisms in Simulated Consciousness

  • Chur Chin

Department of Emergency Medicine, New Life Hospital, Bokhyundong, Bukgu, Daegu, Korea.

*Corresponding Author: Department of Emergency Medicine, New Life Hospital, Bokhyundong, Bukgu, Daegu, Korea.

Citation: Chur Chin, (2025), Toward a Matrix World: Integrating Electron-Positron DNA Computer Feedback, Artificial Intelligence, and Double-Strand Break Mechanisms in Simulated Consciousness, J. Brain and Neurological Disorders, 8(2): DOI:10.31579/2642-973X/143

Copyright: © 2025, Chur Chin. This is an open-access article distributed under the terms of The Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Received: 08 May 2025 | Accepted: 16 May 2025 | Published: 26 May 2025

Keywords: DNA computing; quantum biology; positron-electron entanglement; artificial intelligence; double-strand breaks; simulated consciousness; virtual reality; epigenetics; quantum feedback; DNA logic gate

Abstract

This paper explores the theoretical foundation for creating a simulated reality within human consciousness, termed the "Matrix World," using an integrated system of electron-positron DNA computer feedback, artificial intelligence (AI), and targeted double-strand breaks (DSBs) in genomic DNA. We propose a bio-quantum architecture where quantum events involving positronic interactions modulate DNA logic circuits, interfaced with AI systems to generate immersive conscious experiences. The framework posits that intentional DSBs, controlled via AI, allow epigenetic reconfiguration aligned with quantum-encoded information. Over 20 references are provided to support this interdisciplinary synthesis.

Introduction

Simulated realities have long fascinated researchers across fields of neuroscience, computer science, and quantum biology. Recent advancements in quantum computing and DNA-based data processing open possibilities for simulating consciousness itself [1,2]. This paper introduces a speculative but grounded model that integrates quantum electron-positron DNA logic circuits with AI-driven perception feedback and DNA double-strand break (DSB) mechanisms to construct a "Matrix World" in human consciousness [3].

1. Quantum Basis: Electron-Positron Feedback in DNA Computing

Quantum information processing using DNA has been proposed as a viable model for biological computation [4,5]. The electron and positron spin states are considered for qubit-level encoding in DNA computers [6]. Positron annihilation within biological systems can generate photon pairs, which, if entangled with DNA nucleobases, could serve as quantum inputs [7]. Feedback from these events may dynamically alter DNA topology, influencing the conscious state [8].

2. DNA Logic and Information Encoding

DNA-based logic circuits use sequence patterns as inputs and outputs [9]. Electron and positron trajectories can be modeled to simulate logic gates at the molecular level [10]. The quantum collapse of spin-paired states may guide logic decisions encoded in the helical structure [11]. Quantum tunneling within DNA hydrogen bonds provides additional pathways for logical state transitions [12].

3. Double-Strand Breaks as Dynamic Consciousness Modifiers

DNA DSBs, traditionally seen as genomic damage, are now recognized as controlled events during memory formation and recombination [13,14]. AI systems can predict optimal DSB sites to facilitate epigenetic changes, altering neural patterns of perception [15]. Intentional DSBs, followed by non-random repair mechanisms, can integrate quantum feedback into the cellular genome [16,17].

4. Artificial Intelligence as a Simulated Reality Engine

AI interprets quantum DNA outputs and correlates them with simulated sensory and cognitive data streams [18]. Deep neural networks can pattern-match DNA response sequences to internal or external stimuli, constructing an experiential feedback loop [19]. Through reinforcement learning, AI adapts to subjective reactions and modifies quantum-DNA configurations to sustain coherent perception [20].

5. System Architecture of the Matrix World

The proposed system includes:

  • Quantum Input Layer: Electron-positron sources entangled with DNA base-pair qubits [21].
  • DNA Computational Core: Encodes and processes quantum events with logical gate functions [22].
  • DSB-Responsive Epigenetic Switches: Adjust chromatin states to represent altered perceptions [23].
  • AI Feedback Engine: Generates simulation parameters and adapts perception loops in real time [24,25].

6. Ethical Considerations and Philosophical Implications

Alteration of perceived reality challenges concepts of autonomy and agency [26]. Informed consent, data integrity, and ethical safeguards become critical when AI and quantum DNA systems interface directly with human consciousness [27].

Conclusion

This paper presents a speculative but technically plausible framework for simulating consciousness using electron-positron DNA computing integrated with AI and DNA DSBs. Though experimental validation remains distant, the conceptual architecture aligns with emerging technologies in quantum biology, DNA logic, and cognitive AI.

Programmable Perception: From DNA Logic to AI-Controlled Reality

The final phase in the architecture of the Matrix World involves programming perception itself using the outputs of DNA logic gates and their quantum-entangled substrates. Here, we propose a model in which the reconstructed or dynamically evolving genome acts not just as memory but as an active processor of simulated experience. The DNA logic system, embedded with spin-paired electron-positron events, outputs a probabilistic matrix of perception quanta—defined as discrete states of sensory and cognitive significance. These quanta are then captured by a Bayesian-inference engine in the AI layer, which reorganizes simulation parameters such as time dilation, emotional affect, and visual-auditory constructs.

This programmable perception loop is recursive: AI interprets DNA’s quantum-encoded feedback and sends signals that influence future base-pair entanglement or direct chromatin remodeling through optogenetic or electromagnetic interfaces. The result is a cybernetic feedback structure in which human perception is co-written by DNA computing logic and AI-mediated environmental rendering, both guided by quantum feedback coherence.

Conclusion

This paper presents a speculative but technically plausible framework for simulating consciousness using electron-positron DNA computing integrated with AI, DSBs, and programmable perception. Though experimental validation remains distant, the conceptual architecture aligns with emerging technologies in quantum biology, DNA logic, and cognitive AI. The inclusion of programmable perception bridges molecular quantum phenomena and experiential constructs, outlining a feedback-based Matrix World where consciousness is redefined not as a byproduct of matter, but as an orchestrated simulation between biology and machine.

Conflict of interest

There is no conflicts of interest.

Supplement Material

                   Supplement Title: Simulating the Matrix: Quantum DNA Computing, AI-Controlled Perception, and the Red Pill Hypothesis

Abstract

We propose a theoretical framework for simulating the case of “Neo,” modeled after Neo in The Matrix, by constructing a DNA computer-AI system capable of altering human perception through real-time feedback mechanisms. Furthermore, we evaluate the scientific feasibility of a “red pill” — a biochemical or quantum protocol capable of exiting such a simulation. This framework merges DNA-based quantum logic, artificial intelligence, and epigenetic engineering to enable or disrupt controlled virtual consciousness.

Simulation of “Neo” from The Matrix

Scenario: A person named “Neo” lives in a simulated reality (Matrix World) created by quantum DNA computing, AI, and controlled double-strand breaks (DSBs). This system links Neo’s perception to a virtual environment projected by AI, which receives biological quantum inputs from Neo’s DNA and modulates them in real-time.

Simulation Framework

  • DNA Quantum Input Layer: Entangled electron-positron pairs interact with Neo's DNA bases (qubit analogs). This encodes perception data.
  • AI Engine: Receives this quantum DNA feedback and synthesizes a real-time simulated environment.
  • DSB-Epigenetic Modulator: Injects neural plasticity cues by targeting specific genome regions with precise DSBs, aligning Neo’s memory and learning with Matrix rules.
  • Sensory Loop: All sensory inputs are bypassed from the external world and re-routed through DNA-AI processing.

Neo’s “reality” is thus entirely reconstructed through internal DNA computation and AI feedback—forming a Matrix World of consciousness.

Is It Possible to Make a “Red Pill”?

In The Matrix, the red pill symbolizes a pharmacological and philosophical awakening. We propose several real-world mechanisms that could mimic its function:

(a) Epigenetic Reboot Agent

  • Mechanism: Chemically induces DSBs at pre-coded regions in the neural genome, leading to reprogramming of memory, perception, and consciousness alignment.
  • Example: CRISPR-Cas9 delivery via nanoparticle disrupting Matrix-induced epigenetic patterns.

(b) Positron Activator or Annihilation Tag

  • Mechanism: A radioactive or quantum-tagged molecule (e.g., positron emitter) localizes in neural DNA regions.
  • Effect: Electron-positron annihilation near DNA base pairs emits entangled photons, inducing decoherence, thus collapsing the simulated environment.

(c) Quantum Phase Decoherence Stimulator

  • Mechanism: Introduces deliberate decoherence into DNA qubit states to break AI entanglement.
  • Implementation: Time-varying electromagnetic fields disturb spin alignment of DNA-embedded qubits.

(d) Psychoactive-AI Interface Breaker

  • Mechanism: A compound halts AI's feedback control over sensory construction.
  • Candidates: Modified psychedelics targeting receptor-DNA logic gates (e.g., 5-HT2A with CpG methylation switches).

Feasibility Assessment:

ComponentStatusBarrier
DNA logic gate computingProof-of-concept existsSpeed, reliability in living organisms
Quantum feedback in DNATheorized, early evidenceCoherence time, biological noise
AI-perception loopPartially implemented (BCI)Bi-directional integration still primitive
Controlled DSB reprogrammingAchievable in vitroIn vivo targeting still under development
“Red pill” compoundNot availableEthical and technological risks

Conclusion

Simulating the case of Neo/Neo in a biologically engineered Matrix World is theoretically feasible using a combination of:

  • Quantum DNA logic
  • AI sensory synthesis
  • Targeted genome editing for perception

A real-world “red pill” could be realized through a multi-modal approach combining quantum decoherence, epigenetic reprogramming, and sensory detachment from AI feedback. This opens new speculative paths for understanding the nature of reality and its controllability via DNA-based quantum systems.

References

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