Bilateral Science

This post is working towards a paper I will call Logic Driven Physics. At the moment, I believe that I am the only person in the world writing this story of how the science of the Stoics can be reverse engineered to provide a new, alternative take on physics, logic, and mathematics.

In this post, I consider physical reality as a system. I take a leaf out of system science where there is not one paradigm for understanding a system but two. I argue that the foundations of science, including physics and mathematics, must be bilateral. System science demands two takes on reality. One take is diachronic in nature, the other synchronic. In system science, the diachronic side employs ordinary calculus and studies time series whilst the synchronic side employs the operational calculus pioneered by Heaviside and sees its reality as having a “holographic” flavour nowadays in Laplace and Fourier transforms.

Heaviside photo

Heaviside pioneered
Operational Calculus

I sometimes like informally to refer to this dichotomy between the diachronic and synchronic as expressing “left side” and “right side” rationality respectively. Thus, one can imagine this bilateral architecture as two diametrically opposed but complementary hemispheres of a metaphorical epistemological brain.

Aristotle was the first to remark on the epistemological dichotomy of knowledge. He placed the traditional science on one side charactering them as all studying objects that have a determined genus. On the other side he placed an entirely different kind of science that was characterised by studying entities with completely undetermined genus. The latter science became known as metaphysics which, to Aristotle, was the science of Being, pure otology. Writing about metaphysics, Kant once bemoaned:

It seems almost ridiculous, while every other science is continually advancing, that in this, which pretends to be Wisdom incarnate, for whose oracle every one inquires, we should constantly move round the same spot, without gaining a single step. (Kant, 1781)

The same thing can be said in modern times with the plight of metaphysics now in disarray where metaphysics is often demeaned, even ridiculed by many scientists. The objective of this post is to correct the slide of metaphysics into scientific oblivion. My first step is to demystify the subject by citing the non-diachronic approach of Operational Calculus as an example of what I call weak metaphysics. According to my formulation, strong metaphysics must be strongly synchronous. This demands that all pertinent players must be simultaneously present in any whole. The Operational Calculus can represent a simple system as a whole. That is its speciality. However, these kinds of systems are made up of objects only. There are no subjects present in the synchrony. Strong metaphysics, as we shall see, demands that not only must all objects be present but also the subject.

A characteristic of weak metaphysics is that the relationship between the diachronic and the synchronic is deterministic. For example, for the relationship between calculus (diachronic) and the operational calculus (synchronic) can be actually calculated exactly by Laplace transforms. In strong metaphysics, an exact calculation is impossible—such relationships can only be known in terms of dispositions, not coordinates and determined quantities.

Despite the lack of individual subject, weak metaphysics such as Operational calculus does illustrate a number of important characteristics of a strongly metaphysical right side science. Of crucial importance is Aristotle’s original characterisation of metaphysics. Unlike the world of calculus, the objects that make up the world of Operational Calculus all have undetermined genus with respect to each other. In the diachronic domain, a simple system is made up of a conglomerate of entities of differing genus, such as inputs, outputs, and system behaviours. In the synchronic domain all such categorical distinctions vanish: all entities are represented in exactly the same way as functions of a complex variable. Using a term borrowed from Computer Science, one can say that all the entities in the synchronic domain are first class. Aristotle’s undetermined genus characterisation becomes a demand that all entities in the system must be first class. Operational Calculus also demonstrates another common characteristic of right side methodology. The first class entities form an algebra. All of the complicated operations in the diachronic domain can be expressed in this algebra providing great simplification.

Another weak metaphysics example is Geometric Algebra (GA). which provides an operational alternative to the traditional matrix and tensor dominated approach of linear algebra. In GA all entities are first class where tensors, matrices and vectors give way to the same kind of entity. Everything in GA becomes a geometric entity. Like in OC, the geometric entities form a simple algebra where, in the case of GA, the role of Grassmann’s geometric product is paramount. The work of Hongbo Li highlights this key aspect of this operational methodology (Li, 2008). Li applies the conformal aspects of GA methodology to provide remarkably simple automated proofs of geometric theorems. A key construct in his algorithms is to privilege as much as possible multiplicative operations at the expense of the additive. To Li, more additive operations mean more algebraic clutter and leads to what he calls mid-term-swell. On the other hand, more of the multiplicative means the retention of geometric meaning and results in great simplification. Li clearly demonstrates how automated proofs and geometric computation in general can be greatly simplified using his approach. With more traditional linear algebra and brute force Clifford algebras the resulting mid-term-swell can be so enormous that solutions become, at best, purely notional. Another key term emerging from Li’s work is the purely multiplicative polynomial, the monomial. The monomial expresses pure geometric semantics based on multiplication, free of additive algebraic clutter. In many cases, Li’s methodology resulted in expressing geometric concepts that distilled down to monomials leading to spectacularly simple solutions free of the dreaded mid-term-swell phenomenon that afflicts non-operational methodology. As will be seen further on, the monomial construct will turn out to be of fundamental importance in this project.

In passing, one should note that the modern formulators of GA such as David Hestenes as well as Li consistently claim GA to be the universal algebra of physics and mathematics (Hestenes, 1988). I concur with this appreciation of GA with the proviso of introducing a number of important ingredients reported in this post.

There is one other example of a weak metaphysics methodology that I will be examining in more detail further on. It might seem surprising that I put forward Gödel’s work on the Completeness Theorem and Incompleteness Theorems as such an example. His work is important for this project as it brings into play the logical dimension of metaphysics. moreover, the dichotomy between what is true and, more fundamentally, what is the truth. Of great significance is the fact that Gödel’s work is not mere metaphysical speculation as it takes place in the full glare of an ingenious mathematical formalism. More of that later.

Contribution of the Stoics

Operational Calculus and Geometric Algebra provide clear examples of operational methodology. They illustrate an important aspect of metaphysics in the sense of the first classness of the fundamental entities. However, they do not embrace the most fundamental aspect of including not just a science of object nut also a science of subject. In order to start getting a grasp of what is meant, I turn back to the philosophical terrain of Hellenistic times. The bilateral perspective that I am trying to explain, can be seen in the schism between the Epicurean and Stoic schools of thought of that time.

The diachronic left side take was advocated by the Epicureans. The Epicureans were atomists, and believed in a materialist, deterministic world view that is not incompatible with the view of traditional modern science. The exception to absolute determinism was the famous Epicurean Swerve construct whereby, according to the Epicurean doctrine, every now and then atoms would imperceptibly deviate from a strictly deterministic trajectory. In this way, the unstructured primordial universe somehow micro-swerved to evolve to the state it is today. In the broad sweep of the history of ideas, I see the Epicureans and their atomist forebears as early exponents of the left side, diachronic take on reality.

Of central interest in this post are the much less understood early exponents of right side non-diachronic reality. Here, I am talking about the implacable foes of the Epicureans, the Stoics The alternative right side approach, exemplified by the Stoics, concentrates on studying the world in between the a priori and the a posteriori, the world that exists now relative to the organism in question. For the Stoics, only corporeal bodies with extension exist. Only what exists can act upon and be acted upon. Objective reality is sandwiched between the a priori and the a posteriori. To the Stoics, things in the past or in the future do not exist. It is only what exists now, relative to the organism in question. Heroes of the Now, the Stoics had no fear of anything in the past or the future; as such, things simply do not exist.

As Hahm remarks “For half a millennium Stoicism was very likely the most widely accepted worldview in the Western world.” (Hahm, 1977) However, it was the world view of the diametrically opposed Epicureans that best corresponds to the present day analytic, diachronic world view of our time, not that of the Stoics. Moreover, Stoic physics, according to my characterisation, is not physics as the moderns understand it but metaphysics. As such, their perspective on reality should be operational. This is indeed the case as Stoic physics ticks all the boxes in providing an operational perspective on reality. First of all, Stoic reality is articulated in terms of first class entities according to the mantra: everything that exists is a material body. For the Stoics, the property of an entity was also an entity in its own right thus guaranteeing that entities are first class. Thus in Stoic physics, properties are also material bodies. As for the entities forming an algebra, at least the Stoics identified the letters of the algebra in borrowing the four primordial letter alphabet of Empedocles. This necessarily leads to acceptance of the ancient four-element theory of matter where each primordial element corresponds to one of Empedocles’ four “root” letters.

The Stoics also borrowed from Heraclitus. Heraclitus saw everything in terms of oppositions. Each of the four elements expressed a primordial tension between opposite poles of an opposition. These elements were called Air, Water, Earth, and Fire. Air represented an expansive tension. Water a contractive tension corresponding to the images evoked by such naming. Earth would (or should, according to me) have been seen as an unsigned tension between two different extensions. Earth would have been seen as an unsigned tension between two different (but indistinguishable) singularities. Physical reality for Heraclitus could thus be interpreted as the interplay of these four primordial tensions. Heraclitus saw these primordial tensions as four instances of one single even more primordial tension called pneuma. Thus, the four element theory became a five element theory of sorts.

Category Theory and the Five Morphisms

To modern eyes, the ancient four element theory might seem like abstract nonsense. However there is a branch of mathematics that sometimes actually prides itself on its “Abstract Nonsense,” viz. Category Theory. Category Theory, despite being encased in a diachronic axiomatic framework, also reveals operational aspirations. Its first classness is expressed in the mantra: Everything is a morphism. Morphisms can be represented by arrows and so Category Theory sees its reality in terms of dyads, not monads as does straight pure and simple Set Theory. Category Theory rediscovers Heraclitus’s four kinds of tension in terms of four distinct kinds of morphism. Instead of Air, Water, Earth, and Fire, Category comes up with four kinds of morphism, the epimorphism, monomorphism, bimorphism, and isomorphism. In Set Theory these morphisms become functions. For functions, there is no difference between bimorphisms and isomorphisms. Note also the “expansive” nature of an epi, the “contractive” nature of a mono, and that the inverse of a bi or iso is a bi or iso, much as Heraclitus would have expected.

The vocation of Category Theory is to study mathematical structures which are common to all mathematics. Thus one could say that that these four kinds are morphisms constitute the stuff that mathematics is “made of.” Note also that there is an even more primordial morphism in Category Theory than these four, the natural transformation. Saunders Mac Lane, cofounder of Category Theory, once stated that he invented Category Theory in order to study natural transformations. Natural transformations take up the fifth spot in a “five element theory of mathematics.”

Stoic Logic

The Stoics embraced Heraclitus’s theory of the five elements and the primordial tensions they convey and incorporated it as the basis for their physics. The Stoics claimed that their philosophical system included physics together with logic and ethics to make up a harmonious whole. However, as de Lacy back in 1945 commented:

One of the many paradoxes associated with Stoicism is the puzzling circumstance that although the Stoics themselves claimed that their philosophy was a perfectly unified whole – so well unified indeed that its various parts could not be separated from one another, and the change of a single item would disrupt the whole system, yet the opponents of Stoicism, even in ancient times, regarded the Stoic philosophy as a mass of inconsistent and incompatible elements. Since much of our information about Stoicism comes from hostile sources, it is much easier for the modern investigator to find the inconsistencies of Stoicism than its unity. In recent years there have been a number of studies attempting to find the unifying element, but the problem is by no means solved. (de Lacy, 1945)

The situation hasn’t advanced much since then. In this post based on previous work, I provide the unifying element for the Stoic system. For the moment, I will simply point out the structural similarities between Stoic physics and Stoic logic.

Stoic logic in its entirety covered a vast range of subject matter ranging from rhetoric to dialectics including many subjects that would not be regarded as logic from a modern perspective. However, for the purposes of this post we need only consider the core logical system. For the Stoics, rational reality was subject to the logical principles of the Logos L. The Stoic interpretation of the Logos L was in the form of their system Ls based on the five indemonstrables, considered in detail later. A simplistic interpretation of Stoic Logic Ls is to see it as the first historical example of the propositional calculus. In other words it expresses the zero order logic of particulars. In later work, I intend to show further on that Ls can be thought of as a first order logic with powerful spacetime-like geometric semantics Gs.

However, for the moment we must be content with a cursory description of how each of the five indemonstrables map to the corresponding element of the Stoic-Heraclitus physics system Ps.Thus, the question is: how does the Stoic system unite physics with logic? More precisely, how does Stoic logic Ls based on the five indemonstrables relate to the Stoic five element theory of substance Ps? The relationship Ls Ps has already been reported from several different perspectives in previous papers. The essence of the relationship is illustrated in Figure 1.

Figure 1 Illustrating the Stoics relationship Ls Ps
and the corresponding Heraclitus diagrams.

Stoic physics adopted the four element system of Empedocoles, including the gender typing. The gender construct is explained in my previous works and will be further explained further on in this work. I technically refer to it is ontological gender. Gender is the key to understanding how all of this fits together. There is a learning curve for appreciating the full extent and subtleties of the gender construct the most subtle of all distinctions. For the moment, think of the masculine as expressing pure form. The purest and most primordial expression of form is the singularity. Expressed linguistically, the masculine is pure “is-a.” On the other side of the gender divide is the feminine which, in isolation, can be thought of as pure formless extension. Linguistically, the feminine is pure “has-a.” The gender calculus (yes it does form a calculus) expresses the dialects of the is-a, and has-relationship. As I said, this is the most subtle of all distinction. It is also the most fundamental.

To be expanded upon….

References

Kant, I., 1781. The Critique of Pure Reason. s.l.:The Project Gutenberg EBook: http://www.gutenberg.org/files/4280/4280-h/4280-h.htm.

Moore, D. J. H., 2012. The First Science and the Generic Code. Parmenidean Press. 450 Pages
Moore, D. J. H., 2013a. Now Machines
Moore, D. J. H., 2013b
The Whole Thing is a (Now) Number
Moore, D. J. H., 2013d. Logic Driven Physics: How Nature’s genetic code predicts the Standard Model.
Moore, D. J. H., 2013. The Universal Geometric Algebra of Nature: Realising Leibniz’s Dream
Moore, D. J. H., 2013. Generic Model versus Standard Model Interactive Database. [Online Database Application]

Reverse Engineering the Genetic Code

The post is a slightly edited version of a submission I recently made for Challenge prize competion. I didn’t win it but he submission provides a reasonable and short overview of my project.

 

genetic code image

Reverse Engineering the Genetic Code

understanding the universal technology platform of Nature

Executive Summary

My proposed platform technology for advancing the life sciences is none other than the genetic code itself. Even though all life forms evolve over time the universal language that codes them remains virtually unchanged over billions of years. If one wants to find a fundamental platform for exploring and explaining life, the answer is already there in this universal language of Nature. The Central Dogma of biochemistry infers that the genetic code is a mere transcription language. My project challenges the dogma with the central claim that the four letters of the genetic code express logico-geometric, spacetime-like semantics. In fact, the four letters (A,T,G,C} express timelike, lightlike, spacelike, and singular-like semantics respectively. A central aim is to reverse engineer the code from first principles. In so doing, the code becomes the operational calculus for explaining the organisational principles of life.

The broad idea is not new and was envisaged by Leibniz over three centuries ago. In a famous passage, he sketched out his dream of developing a geometric algebra without number based on only a few letters that would simply and non-abstractly explain the form of the natural things of Nature. One could say that Leibniz anticipated the genetic code. However, his vision went much further than that. He claimed that the resulting algebra would have logico-geometric semantics and so his vision becomes quite revolutionary. Even more revolutionary still, he claimed that the same geometric algebra would explain, not just the animate, but also the inanimate. We now know that the organising generic material of biological organisms is distinct from the functional material of the organism. In the inanimate case of an “organism” like our universe, there appears to be no observable distinction between organising substance and the organised. Thus, if Leibniz’s vision is valid for the inanimate, then the elementary particles of Particle Physics should be directly and simply explained in terms of the four-letter algebra of the genetic code—now playing the role of a truly universal generic code. For inanimates like our universe, the organising material and the organised are the same stuff.

My project involves making Leibniz’s vision tractable in developing his Analysis Situs geometry without number in order to provide the logico-geometric semantics of the genetic code. My ideas have rapidly matured over the past year resulting in the publication of one book and the drafts of four long papers on the subject. The third “Leibniz paper” is the most pivotal. The rough draft of the fourth paper shows how the same genetic code organisation predicts the Standard Model of Particle Physics and even surpassing it. Because of its non-empirical nature, my Leibniz style methodology can predict not only the explicitly measurable particles but also the implicit, which may be impossible to observe empirically.

The Big Picture

This project takes a leaf from nature and provides a bilateral approach to science. There are two takes on Nature, requiring two “hemispheres” of knowledge. I refer to present day sciences as left side sciences. Left side sciences specialise in explaining the a posteriori in terms of the a priori. The empirical sciences harvest data and develop compatible theories to predict future outcomes. Axiomatic mathematics works deductively from a priori axioms to prove a posterior theorems.

The alternative right side approach, exemplified by the Stoics, concentrates on studying the world in between the a priori and the a posteriori, the world that exists now¾relative to the organism in question. For the Stoics, only corporeal bodies with extension exist. Only what exists can act upon and be acted upon. Thus, the Stoic perspective is that objective reality is sandwiched between the a priori and the a posteriori. The perspective is comparable to Leibniz, albeit more materialist.

Objective reality of an organism is anchored in the immediacy of its Nowness. I call machines based upon this principle Now Machines. I claim that all animates and inanimates are based on the Now Machine principle. The underlying principle is that the organism must not be subject to any extrinsic a priori principle. Borrowing a term from Computer Science, I call the principle First Classness (FC). The dominating principle of Now Machines is the non-violation of FC. The logic involved is similar to the Liar Paradox construct that Gödel used to prove that (left side) mathematics is incomplete. In right side mathematics, it becomes the organisational, self-justifying principle of Now Machines.

The mathematics of corporeal bodies acting and being acted upon leads to a particular kind of geometry with direct historic roots to Leibniz. As succinctly explained by Hongbo Li:

Co-inventor of calculus, the great mathematician G. Leibniz, once dreamed of having a geometric calculus dealing directly with geometric objects rather than with sequences of numbers. His dream is to have an algebra that is so close to geometry that every expression in it has a clear geometric meaning of being either a geometric object or a geometric relation between geometric objects, that the algebraic manipulations among the expressions, such as addition, subtraction, multiplication and division, correspond to geometric transformations. Such an algebra, if exists, is rightly called geometric algebra, and its elements called geometric numbers. (Li, 2008)

Li together with David Hestenes and other exponents claim that Geometric Algebra (GA) is the universal language of mathematics and science and so realises Leibniz’s dream. I consider their claim premature as it ignores two vital aspects of Leibniz’s vision. The claim ignores the truly universal genetic code of Nature “based only on a few letters.” In addition, although GA is not based on coordinates, it is still relies on ordinary numbers under the hood. Such a number scheme imposes absolute extrinsic ordering relationships from outside the system and so violates FC. I propose a solution founded on the ancient construct of ontological gender. The pure feminine gender entity is considered to have an attribute, albeit undetermined. The pure masculine gender type is that attribute as an entity in its own right. Thus two entities, the feminine has an attribute, the masculine is that attribute. The feminine corresponds to pure geometric extension, the masculine to geometric singularity. These are the two building blocks of Now Machines. With gender, the genetic code letters {A,T,G,C} can be expressed by the four binary genders {MF,FF,FM,MM}. Viewed from outside the system, genders are indistinguishable and so appear to be in superposition opening the way to Quantum Mechanics interpretations. Like Doctor Who’s Tardis on TV, a Now Machine appears bigger on the highly tuned and coded inside than the amorphous mass of superposition seen from the outside. The algebra of gender can replace the algebra of ordered numbers to provide a true “geometry without number.” The gendered version of GA articulates the dynamic geometric semantics of the genetic code and provides the final realisation of Leibniz’s dream.

Impact

New Science: Nature abounds with bilateral structures and asymmetries that remain unexplained by present day science. For example, why are all biologically produced L-amino acids left handed? In the inanimate realm, why are there no right-handed neutrinos? In order to address these kinds of question, a new kind of science is necessary. Not only must science explain bilateralism in Nature, but also the science must itself take on a bilateral epistemological architecture. Like the biological brain, science must develop two distinct but complementary takes on reality. In modern times, there has only been one “left side” science. This project unearths the complementary “right side.”

Overcoming Barriers: Nature herself has technological differences but no ontological barriers. The new right side science I propose unifies the science of the inanimate with the animate. “Life is everywhere,” so to speak.

Public Impact: Left side science got off the ground with Leibniz and Newton’s discovery of calculus, the ultimate public impact of which is incalculable. Right side science starts with the discovery of how the genetic code harbours the geometric calculus and semantics of life systems ranging from the animate to the inanimate. The public impact would surely be comparable.

Science Deficits: Psychologists have discovered that a patient with only a fully functional left-brain may exhibit bizarre behaviour like only eating food on the right side of the plate. They call it hemineglect. I claim that left side mathematics also suffers the same “cognitive deficit. The phenomenon can be traced to left side geometry, which only needs timelike and spacelike lines to work. In other words, the geometry only uses the two-letter alphabet {A,G}. It only fires on two cylinders! The right side geometry is based on the genetic code letters {A,T,G,C} and so, like its right side hemisphere biological counterpart, is cognizant of both sides of a bilateral world. Thus in some cases better instrument technology in left side science will be pointless because of the hemineglect blind spot of left side mathematics—and the mathematician will never know.

Both right side science and its right brain counterpart suffer a different kind of deficit. They are mute. However, although communication to outside the system is impossible, the right side can communicate with itself. That is what the universal language of Nature is for.

Novelty

Present orthodoxy sees living organisms as results of evolution. Thus, man is the product of millions of years of genetic accidents. He is a genetic freak. The alternative right side science view is that the very essence of life is present from the very beginning. As foreseen by Leibniz, there is a universal algebra articulating the same life essence shared by all beings, ranging from the neutrino, the quark, the amoeba, through to man. In this context, man emerges from a universal principle, a much more noble scenario than being a genetic freak.

Some novel points:

  • Science should be bilateral like the two brain hemispheres.
  • Everything from the ground up can be explained in terms of gender
  • The letters{A,T,G,C} of the genetic code correspond to the binary genders {MF,FF,FM,MM}
  • The organisational principle of life is based on a form of the Liars Paradox
  • Leibniz was right on the money. The Stoics also had the right mind set.

Risk and Challenges

If this kind of science were to be fundamentally intractable, as many claim, then the project would be doomed to failure. After many decades of effort, my four draft papers demonstrate tractability and hence remove that risk.

The challenge of developing the new mathematics required is quite daunting and I need help. One sub-project, possibly even Nobel Prize material, is to explain the so-called degeneracy of the genetic code at least in the biological realm. My approach is that each codon codes an elementary geometric form. According to my theory, the start codon ATG expresses the Lorentz semantics of Special Relativity where the codon is made up of a single timelike A, lightlike T, and spacelike G form. Such a composite geometric form can be considered homogeneous and so satisfy FC. Hence, no need for degeneracy. The only other non-degenerate codon is TGG. TGG codes the semantics of a de Sitter space, which has known General Relativity interpretations and is homogenous. I claim that, for homogeneity compliance, all other elementary forms must be appended with extra dimensions. Hence the degeneracy for all codons

 

References

Li, H., 2008. Invariant Algebras and Geometric Reasoning. Singapore: World Scientific Publishing.
Moore, D. J. H., 2012. The First Science and the Generic Code. Parmenidean Press. 450 Pages
Moore, D. J. H., 2013a. Now Machines
Moore, D. J. H., 2013b The Whole Thing is a (Now) Number
Moore, D. J. H., 2013d. Logic Driven Physics: How Nature’s genetic code predicts the Standard Model.
Moore, D. J. H., 2013. The Universal Geometric Algebra of Nature: Realising Leibniz’s Dream
Moore, D. J. H., 2013. Generic Model versus Standard Model Interactive Database. [Online Database Application]