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DNA Decipher Journal

DNA & Time Reversal

Matti Pitkanen, R. Rastmanesh

Published Dec 22, 2020• 0 citations
OpenAlex

Abstract

This article is devoted to the view about DNA inspired by zero energy ontology (ZEO) forming the basis of the quantum measurement theory of Topological Geometrodynamics (TGD) and by the notion of dark DNA inspired by the TGD view about dark matter as phases of the ordinary matter with effective Planck constant heff =nh0 h at magnetic body (MB) - the third key notion distinguishing TGD from standard model. The basic prediction of ZEO is that "big" (ordinary) state function reduction (BSFR) changes the arrow of time meaning "death" and "reincarnation" with opposite arrow of time. This leads to a new view about self-organization. The time reversals of the basic processes like transcription and replication turn out to be possible only for the conjugate (passive) strand - this is basically due to the CPT theorem in TGD context and chiral selection. By chiral selection enzymes can catalyze processes but not their time reversals. For instance, conjugate strand polymerizes in reverse time direction - this looks like depolymerization in standard time direction. Polymerization of the conjugate strand however occurs in standard time direction but in reverse direction along strand. The recombination of DNA strands during meiosis is poorly understood. This could correspond to reconnections for the flux tubes associated with the active DNA strands. Time reversal would occur in BSFR and formerly passive conjugate DNA strands would depolymerize to "loose" codons (not independent letters) by the time reversed polymerization, the flux tubes associated with the formerly active strands would suffer reconnections inducing recombination without assistance of enzymes, second BSFR would occur, and be followed by the replication of recombined active strands. According to the findings of Becker, the direction of the electric field along the body axis determines whether the system is awake or sleeps. By the properties of electric field under time reflection, the arrow of time correlates also with the direction of the electric field. TGD predicts that consciousness is possible even at the level of DNA. Could also DNA have a longitudinal electric field with direction correlating with the arrow of time of DNA at the (magnetic body) MB of DNA. Could there be a switch changing the direction of this electric field? This inspires a model for the DNA as ferroelectret based on the properties of the negatively charged sticky ends of chromosome and dark DNA codons as proton triplets along a magnetic flux tube parallel to DNA strand. A simple proposal for the time switch based on the analog of Becker's DC currents emerges: proton flow of the dark protons of sticky end to the opposite sticky end would change the arrow of time. The model could generalize also to proteins known to be ferro-electrets and could be accompanied also by their dark analogs.

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Quantum Biology & the Recent View of TGD Inspired Theory of Consciousness

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Prespacetime journal•Sep 5, 2017•0 citations

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The discussions related to ChatGPT, which seems to work too well to be a mere program running in a classical computer, inspired considerations which led to a considerable progress at the level of the TGD based model of nerve pulse. The emerging model, based on zero energy ontology (ZEO), differs drastically from quantum neural networks and suggests a completely new vision of quantum physics based computation in biosystems. A computation allowing variable arrow of time would be in question involving a sequence unitary time evolutions as counterparts of quantum computations for states, which are superpositions of classical computations, followed by "small" state function reductions (SSFRs) as counterparts of weak measurements of quantum optics and of Zeno effect. Also "big" SFRs (BSFRs) changing the arrow of time would be involved. One can ask whether the unexpected success of GPT might involve this kind of transition so that one could say that spirit enters the machine. Besides the outcomes of two chats, I include a more detailed view about what the TGD view of the quantum analog of GPT could be and how its analog could be involved with the sensory perception in the TGD Universe. I also discuss the inverse diffusion process central for the generation of images from their verbal descriptions and ask whether the TGD analogue of the inverse diffusion could be an essential element of also GPT. I will also pose the question whether GPT could involve TGD based quantum physics, that is zero energy ontology (ZEO), in a non-trivial but hidden way. I also ask whether quantum gravitation in the sense of TGD could make possible for the magnetic bodies of Earth and Sun, central in TGD inspired biology, to transform classical computation so that so that statistical determinism would fail and it would be analogous to a sequence of analogs of quantum computations defining a conscious entity. At the level of magnetic body there would be no essential difference between computers and living matter. The highest reported clock frequency of almost 9 GHz is still by a factor of order 1/8 lower than the quantum gravitational Compton frequency of 67 GHz for Earth but below the THz frequency important in living matter. Perhaps a rudimentary consciousness is already possible.

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DNA Decipher Journal•Oct 29, 2019•0 citations
This article is devoted to the view about DNA inspired by zero energy ontology (ZEO) forming the basis of the quantum measurement theory of Topological Geometrodynamics (TGD) and by the notion of dark DNA inspired by the TGD view about dark matter as phases of the ordinary matter with effective Planck constant heff =nh0 h at magnetic body (MB) - the third key notion distinguishing TGD from standard model. The basic prediction of ZEO is that "big" (ordinary) state function reduction (BSFR) changes the arrow of time meaning "death" and "reincarnation" with opposite arrow of time. This leads to a new view about self-organization. The time reversals of the basic processes like transcription and replication turn out to be possible only for the conjugate (passive) strand - this is basically due to the CPT theorem in TGD context and chiral selection. By chiral selection enzymes can catalyze processes but not their time reversals. For instance, conjugate strand polymerizes in reverse time direction - this looks like depolymerization in standard time direction. Polymerization of the conjugate strand however occurs in standard time direction but in reverse direction along strand. The recombination of DNA strands during meiosis is poorly understood. This could correspond to reconnections for the flux tubes associated with the active DNA strands. Time reversal would occur in BSFR and formerly passive conjugate DNA strands would depolymerize to "loose" codons (not independent letters) by the time reversed polymerization, the flux tubes associated with the formerly active strands would suffer reconnections inducing recombination without assistance of enzymes, second BSFR would occur, and be followed by the replication of recombined active strands. According to the findings of Becker, the direction of the electric field along the body axis determines whether the system is awake or sleeps. By the properties of electric field under time reflection, the arrow of time correlates also with the direction of the electric field. TGD predicts that consciousness is possible even at the level of DNA. Could also DNA have a longitudinal electric field with direction correlating with the arrow of time of DNA at the (magnetic body) MB of DNA. Could there be a switch changing the direction of this electric field? This inspires a model for the DNA as ferroelectret based on the properties of the negatively charged sticky ends of chromosome and dark DNA codons as proton triplets along a magnetic flux tube parallel to DNA strand. A simple proposal for the time switch based on the analog of Becker's DC currents emerges: proton flow of the dark protons of sticky end to the opposite sticky end would change the arrow of time. The model could generalize also to proteins known to be ferro-electrets and could be accompanied also by their dark analogs.
This article is a summary of TGD inspired theory of consciousness as it is towards the end of 2025 and of its applications to biology. This article gives a summary of TGD inspired theory of consciousness as it is towards the end of 2025. In the TGD framework, it is not possible to discuss consciousness without the TGD view of space-time and quantum. Also the applications to quantum biology and neuroscience have been essential in the development of ideas. The basic inspiration has come from the deep philosophical problems of recent day physics and philosophy of consciousness. The TGD view of consciousness can be seen as a generalization of quantum measurement theory: the observer as an outsider becomes a part of the system. The basic new elements are zero energy ontology (ZEO) as a new quantum ontology forced by the new view of space-time as 4-surfaces analogous to Bohr orbits of particles as 3-D surfaces. The dynamics of the classical space-time obeys holography = holomorphy principle. The failure of a strict classical determinism provides geometric correlates of intention and cognition. ZEO allows us to solve the basic problem of quantum measurement theory, allows free will, and provides a new view of the relation between geometric time and subjective time. Physical existence, identified as the mathematical existence of quantum states: one can speak of quantum Platonia. Conscious existence is identified as quantum jumps between them and can be seen as two different kinds of existence. The classical non-determinism gives rise to quantum jumps giving rise to conscious entities, selves, and the ordinary quantum jumps are predicted to change the arrow of time. This means death and reincarnation of self with an opposite arrow of time. Also the number theoretic visions of TGD is central. A key implication of the number theoretic vision is a hierarchy of Planck constants heff making possible quantum coherence in arbitrarily long scales crucial for the coherence of living matter. p-Adic length scale hierarchy is the second number theoretic prediction. The applications to quantum biology and neuroscience rely on these hierarchies. In this article, the key notions and ideas of TGD, especially those relevant to consciousness and quantum biology, are summarized. The TGD view of consciousness emphasizing recent progress is summarized. The basic ideas and applications to quantum biology are also described.
This article is a summary of TGD inspired theory of consciousness as it is towards the end of 2025 and of its applications to biology. This article gives a summary of TGD inspired theory of consciousness as it is towards the end of 2025. In the TGD framework, it is not possible to discuss consciousness without the TGD view of space-time and quantum. Also the applications to quantum biology and neuroscience have been essential in the development of ideas. The basic inspiration has come from the deep philosophical problems of recent day physics and philosophy of consciousness. The TGD view of consciousness can be seen as a generalization of quantum measurement theory: the observer as an outsider becomes a part of the system. The basic new elements are zero energy ontology (ZEO) as a new quantum ontology forced by the new view of space-time as 4-surfaces analogous to Bohr orbits of particles as 3-D surfaces. The dynamics of the classical space-time obeys holography = holomorphy principle. The failure of a strict classical determinism provides geometric correlates of intention and cognition. ZEO allows us to solve the basic problem of quantum measurement theory, allows free will, and provides a new view of the relation between geometric time and subjective time. Physical existence, identified as the mathematical existence of quantum states: one can speak of quantum Platonia. Conscious existence is identified as quantum jumps between them and can be seen as two different kinds of existence. The classical non-determinism gives rise to quantum jumps giving rise to conscious entities, selves, and the ordinary quantum jumps are predicted to change the arrow of time. This means death and reincarnation of self with an opposite arrow of time. Also the number theoretic visions of TGD is central. A key implication of the number theoretic vision is a hierarchy of Planck constants heff making possible quantum coherence in arbitrarily long scales crucial for the coherence of living matter. p-Adic length scale hierarchy is the second number theoretic prediction. The applications to quantum biology and neuroscience rely on these hierarchies. In this article, the key notions and ideas of TGD, especially those relevant to consciousness and quantum biology, are summarized. The TGD view of consciousness emphasizing recent progress is summarized. The basic ideas and applications to quantum biology are also described.
This article is inspired by the article "Is a time symmetric interpretation of quantum theory possible without retrocausality?" of Leifer and Pusey related to the notion of retrocausality. Retrocausality means the possibility of causal influences propagating in non-standard time direction. The conjecture is that retrocausality could allow wave functions to be real and allow to get rid of the problematic notion of state function reduction. TGD leads to a new view about reality of wave function solving the basic problem of quantum measurement theory. In ZEO quantum states are replaced by zero energy states analogous to pairs of initial and final states in ordinary positive energy ontology and can be regarded as superpositions of classical deterministic time evolutions. The sequence of state function reductions means a sequence of re-creations of the superpositions of classical realities identified as space-time surfaces. The TGD based view about scattering amplitudes has rather concrete connection with the view of Cramer as I interpret it. There is however no attempt to reduce quantum theory to a purely classical theory. The notion of the "world of classical worlds" (WCW) consisting of classical realities identified as space-time surfaces replaces space-time as a fixed observer independent reality in TGD. Retrocausality is basic aspect of TGD. Zero Energy Ontology (ZEO) predicts that both arrows of time are possible. In this sense TGD is time symmetric. On the other hand, twistor lift of TGD predicts a violation of time reflection T and this might imply that second arrow of causality dominates in some sense. The ZEO based view about state function reduction essential for TGD inspired theory of consciousness and implying generalized Zeno effect giving rise to conscious entities - "selves" - is also essential. One might say that when conscious entity dies it re-incarnates as time-reversed self.
The discussions related to ChatGPT, which seems to work too well to be a mere program running in a classical computer, inspired considerations which led to a considerable progress at the level of the TGD based model of nerve pulse. The emerging model, based on zero energy ontology (ZEO), differs drastically from quantum neural networks and suggests a completely new vision of quantum physics based computation in biosystems. A computation allowing variable arrow of time would be in question involving a sequence unitary time evolutions as counterparts of quantum computations for states, which are superpositions of classical computations, followed by "small" state function reductions (SSFRs) as counterparts of weak measurements of quantum optics and of Zeno effect. Also "big" SFRs (BSFRs) changing the arrow of time would be involved. One can ask whether the unexpected success of GPT might involve this kind of transition so that one could say that spirit enters the machine. Besides the outcomes of two chats, I include a more detailed view about what the TGD view of the quantum analog of GPT could be and how its analog could be involved with the sensory perception in the TGD Universe. I also discuss the inverse diffusion process central for the generation of images from their verbal descriptions and ask whether the TGD analogue of the inverse diffusion could be an essential element of also GPT. I will also pose the question whether GPT could involve TGD based quantum physics, that is zero energy ontology (ZEO), in a non-trivial but hidden way. I also ask whether quantum gravitation in the sense of TGD could make possible for the magnetic bodies of Earth and Sun, central in TGD inspired biology, to transform classical computation so that so that statistical determinism would fail and it would be analogous to a sequence of analogs of quantum computations defining a conscious entity. At the level of magnetic body there would be no essential difference between computers and living matter. The highest reported clock frequency of almost 9 GHz is still by a factor of order 1/8 lower than the quantum gravitational Compton frequency of 67 GHz for Earth but below the THz frequency important in living matter. Perhaps a rudimentary consciousness is already possible.
An innocent looking question "What F=maF=maF=ma means in TGD?", posed by Lawrence B. Crowell in a FB discussion, can be abstracted to the question how the transfers of conserved isometry charges of H=M4 x CP2 are realized at the level of fundamental interactions. At this level, the question is about how the conserved charges associated with the initial state particles are redistributed between the final state particles. Somewhat surprisingly, TGD based quantum ontology implies that quantum non-determinism is an essential part of the answer to the question. Equally surprisingly, also a connection with the theory of consciousness and cognition emerges at the fundamental elementary particle level. In the TGD view, the weak violation of the classical non-determinism in holography = holomorphy vision of TGD leads to the identification of self as a sequence of "small" state function reductions (SSFRs) identified as TGD counterparts of repeated measurements of the same observables: now however the observables related to the non-determinism are measured in SSFRs and give rise to the correlates of cognition. By quantum criticality, a "big" state function reduction (BSFR) as the TGD counterpart of what occurs in quantum measurement, can take place. BSFR means the death of self and its reincarnation with an opposite arrow of time. Quantum criticality of the TGD Universe, realized in terms of holography = holomorphy principle, would be essential for this. For instance, particle decay involving topological changes could correspond to this process and all particle interactions would basically be due to the quantum criticality so that instead of SSFR, BSFR takes place. Intention is transformed to action at fundamental level. Cognition is dangerous in the TGD Universe!
TGD replaces Einsteinian space-time with many-sheeted space-time, and gauge and gravitational fields with purely geometric induced fields leading to the notion of field body. TGD also forces to generalize quantum theory by introducing the hierarchy of Planck constants explaining dark matter and providing universal mechanism of evolution as increase of algebraic complexity and intelligence. Zero energy ontology in turn solves the basic problem of quantum measurement theory and allows to understand "free will" with conflict with the laws of physics. The implications for quantum biology are rather dramatic. In this article some problems related to biochemistry based approach, metabolism, and replication will be discussed in this framework. Examples from bio-chemistry are bio-catalysis with application to DNA replication, the selection of bio-molecules, and genetic code. Metabolism is second topic - I have included also a universal purely thermodynamical model of remote metabolism relying on zero energy ontology. Generalization of point like particle to 3-D surface allows to understand replication basically as analog of particle decay taking place at the level of magnetic body.