What's new inTGD and EEGNote: Newest contributions are at the top! 
Year 2014 
Harmony, music, and religious mythsI have talked about the notion of harmony based on icosahedral representation of 12note scale and its connection with biology and consciousness coming from the observation that the number of faces of icosahedron is 20  the number of aminoacids. The link connecting music with biology would be via the geometry of Platonic solids: icosahedron and also tetrahedron. The 12 vertices of icosahedron correspond to the notes of the 12note scale and to some Hamilton's cycle defining a closed curved connecting nearest neighbour vertices: it is closed by octave equivalence and does not intersect itself. Quint cycle assigns to each vertex a note of the scale and thus also to every face (triangle) of the icosahedron a chord. These chords define the harmony and there are 11 cycles/harmonies allowing symmetries (6 cycles without symmetries). They fall in three types corresponding to symmetry group Z_{6}= Z_{3}^{rot}× Z_{2}^{refl}, Z_{4}=Z_{2}rot× Z_{2}^{refl} , and Z_{2}= Z_{2}^{rot} or Z_{2}=Z_{2}^{refl}, which is subgroup of icosahedral isometries A_{5}× Z_{2}^{refl} having 2× 60 elements. Just these groups appeared in the model of genetic code inspired by observations about the structure of the code table telling the numbers N(d) of aminoacids coded by d codons. These symmetries define a hierarchy of symmetry breakings. This hierarchy has amazing connections with the myths, which I believe to reflect deep facts about consciousness and biology at fundamental level. The story of genesis is a good representative in this respect.
For details see the chapter Quantum model for hearing or the article Geometric theory of harmony. 
Updated version of geometric theory of harmonyFor some time ago I introduced the notion of Hamiltonian cycle as a mathematical model for musical harmony and also proposed connection with biology: motivations came from two observations. The number of icosahedral vertices is 12 and corresponds to the number of notes in 12note system and the number of triangular faces of icosahedron is 20, the number of aminoacids and the number of basic chords for the proposed notion of harmony. This led to a group theoretical model of genetic code and replacement of icosahedron with tetraicosahedron to explain also the 21st and 22nd aminoacid and solve the problem of simplest model due to the fact that the required Hamilton's cycle does not exist. This article was meant to be a continuation to the eralier article providing a proposal for a theory of harmony and detailed calculations. It however turned out that the proposed notion of bioharmony was too restricted: all isosahedral Hamilton cycles with symmetries turned out to be possible rather than only the 3 cycles forced by the assumption that the polarity characteristics of the aminoacids correlate with the properties of the Hamiltonian cycle. This working hypothesis had to be given up. The fuel of the minirevolution was the observation the symmetries of the Hamiltonian cycles (Z_{6}, Z_{4}, Z_{2}) are nothing but the icosahedral symmetries needed to predict the basic numbers of the genetic code and its extension to include also 12st and 22nd aminoacids! Thus icosahedral Hamiltonian cycles predict genetic code without further assumptions. Mathematician cannot simply neglect this kind of connection! One also ends up with a proposal for what harmony is leading to nontrivial predictions both at DNA and aminoacid level.
The tables listing the 20 3chords of associated with a given Hamilton's cycle make it possible for anyone with needed computer facilities and music generator to test whether the proposed rules produce aesthetically appealing harmonies for the icosahedral Hamiltonian cycles. Biologist with access to DNA sequences could experiment with DNA codons to see whether their are harmonious in the sense that the distance between subsequent chords assignable to DNA codons tend to be small in quint metric. Note that DNA decomposes to pieces corresponding to different Hamiltonian cycles (harmonies) so that the comparison is not quite straightforward. For details see the chapter Quantum model for hearing or the article Geometric theory of harmony. 
Geometric theory of harmonyFor some time ago I introduced the notion of Hamiltonian cycle as a mathematical model for musical harmony and also proposed a connection with biology: motivations came from two observations (see this). The number of icosahedral vertices is 12 and corresponds to the number of notes in 12note system and the number of triangular faces of icosahedron is 20, the number of aminoacids and the number of basic chords for the proposed notion of harmony. This led to a group theoretical model of genetic code and replacement of icosahedron with tetraicosahedron to explain also the 21st and 22nd aminoacid and solve the problem of simplest model due to the fact that the required Hamilton's cycle does not exist. This led also to the notion of bioharmony. This article is a continuation to the mentioned article providing a proposal for a theory of harmony and detailed calculations.
The tables listing the 20 3chords of associated with a given Hamilton's cycle make it possible for anyone with needed computer facilities and music generator to test whether the proposed rules produce aesthetically appealing harmonies for the icosahedral Hamiltonian cycles. For details see the chapter Quantum model for hearing or the article Geometric theory of harmony. 
Does DNA understand speech or should you sing to it?There is an interesting popular web article about the work of Peter Gariaev with whom I have written a couple of articles. One of the findings of Gariaev's group is that the intronic portion of the DNA has a statistical resemblance to the structure of language (words of language correspond to DNA codons and Zipf's law appears to be obeyed). The question whether introns could code language at molecular level comes to mind. It is also reported that the connection with language is much more concrete. The words of spoken language generate response at the level of DNA: DNA "hears" and maybe understands language (or is it us who understand the language in this manner?). If one accepts that even water has memory and reacts to signals inducing emotions in living organisms, this would not be so surprising. In fact, in TGD framework water would be primitive life form with dark DNA consisting of protonic strings such that proton states would be in 11 correspondence with DNAs, RNAs, aminoacids and perhaps even tRNAs (see this). Vertebrate genetic code follows from natural assumptions between dark counterparts of DNAs and aminoacids. So the claim is that spoken language modulating em radiation has effect on DNA. In standard physics context it is difficult to see how this could make sense. The energies of phonons at audible frequencies are simply so low that understanding the effect in terms of phonons does not seem to be possible. Could it make sense in TGD inspired quantum biology? One can at least try and this is what is done in the sequel. The explanation relies on the basic assumptions of TGD inspired quantum biology distilled during last 10 years.
For details see the chapter Quantum model for hearing or the article Pythagoras, music, sacred geometry, and genetic code. 
Pythagoras, music, sacred geometry, and genetic codeThe idea that the 12note scale could allow mapping to a closed path covering all vertices of icosahedron having 12 vertices and not intersecting itself is attractive. Also the idea that the triangles defining the faces of the icosahedron could have interpretation as 3chords defining the notion of harmony for a given chord deserves study. The paths in question are known as Hamiltonian cycles and there are 1024 of them. There paths can be classified topologically by the numbers of triangles containing 0, 1, or 2 edges belonging to the cycle representing the scale. Each topology corresponds to a particular notion of harmony and there are several topological equivalence classes. The vision about DNA and aminoacids as analogs of notes and music piece produced by the translation machinery from mRNA is also attractive and induce the idea that the 20 aminoacids could somehow correspond to the 20 triangles of icosahedron. The combination of this idea with the idea of mapping 12tone scale to a Hamiltonian cycle at icosahedron leads to the question whether aminoacids could be assigned with a topological equivalence class of Hamiltonian cycle and whether topological characteristics could correspond to physical properties of aminoacids. It turns out that the identification of 3 basic polar aminoacids with triangles containing no edges of the scale path, 7 polar and acidic polar aminoacids with those containing 2 edges of the scale path, and 10 nonpolar aminoacids with triangles containing 1 edge on the scale path would be consistent with the constraints on the Hamiltonian cycles. One could of course criticize the lumping of acidic polar and polar aminoacids to same group. The number of DNAs coding for a given aminoacid could be also seen as such a physical property. The model for dark nucleons leads to the vertebrate genetic code with correct numbers of DNAs coding for aminoacids. It is however far from clear how to interpreted DNAs geometrically and the problem whether one cold understand genetic code geometrically remains open. For details see the chapter Quantum model for hearing or the article Pythagoras, music, sacred geometry, and genetic code. 
Gravitational Mother Gaia and lifeIn an earlier summary I have told about considerable progress in understanding TGD inspired quantum biology. The basic result is that the gravitatational Planck constant h_{gr} inspired by Nottale's observations and h_{eff} inspired by the effects of ELF radiation on vertebrate brain can be one and same thing at least in elementary particle scales where h_{gr} is defined for a pair formed by elementary particle (say) and Earth, or Sun or some massive body. It is of course possible that heavier objects than elementary particle can appear as second member in the pair. The objects are connected by gravitational flux tubes mediating gravitational interaction. The big surprise was that h_{gr} is indeed of same order of magnitude as needed for the energies of EEG photons to be in visibleUV range so that their decay products can be interpreted as biophotons. Dark cyclotron photons with universal energy spectrum in this range would control biochemical reactions by resonance mechanism in living matter. This picture generalizes to other interaction and the notion of h_{em}= Z_{1}Z_{2}e^{2}/v_{0}. Now the surprising numerical accident is that for ATP synthase which is motor with rotating shaft rotating with velocity v_{0} and generating three ATPs from ADP during single turn h_{em} seems is same order of magnitude as h_{gr}(particle,Earth) for elementary particles. These findings lead to fascinating speculations about the role of quantum gravitation in living systems. Negentropic entanglement (NE) is one of the key notions of TGD inspired quantum biology. For instance, it would seem that NE would look more natural metabolic resource than energy. Nutrients should carry it. NE is however not single particle property but between nutrient and some other system in the recent case. What can one say about this system? Can it be part of nutrient? Could it correspond to oxygen molecules? Or could it be gravittional Mother Gaia identified in some sensible manner? If one believes on the presence of gravimagnetic flux tubes and their role as generator of macroscopic quantum coherence in biology then one is forced to consider seriously also NE between its ends. If this is the case then the view of religions about life might be nearer to truth than that of hardborn materialists. To make this more concrete, let us first look what the transfer of NE could mean.
The quantum model for metabolism allows to understand life as a process in which negentropic entanglement of gravitational Mother Gaia with nutrients is transformed to that of molecules of biological body with personal magnetic body and further processed and enriched. At the moment of biological death this information returns to the personal magnetic body which now connects only gravitational Mother Gaia or higher levels in the hierarchy. By NMP information is not lost but increases steadily giving rise to "Akashic records". This view conforms with the core ideas of spiritual and religious teachings. For details see the chapter Quantum model for biosuperconductivity: II or the article Implications of strong gravimagnetism for TGD inspired quantum biology. 
Implications of strong gravimagnetism for TGD inspired quantum biologyPhysicists M. Tajmar and C. J. Matos and their collaborators working in ESA (European Satellite Agency) have made an amazing claim of having detected strong gravimagnetism with gravimagnetic field having a magnitude which is about 20 orders of magnitude higher than predicted by General Relativity. Tajmar et al have proposed the gravimagnetic effect as an explanation of an anomaly related to the superconductors. The measured value of the mass of the Cooper pair is slightly larger than the sum of masses whereas theory predicts that it should be smaller. The explanation would be that actual Thomson field is larger than it should be because of gravimagnetic contribution to quantization rule used to deduce the value of Thomson field. The required value of gravimagnetic Thomson field is however 28 orders of magnitude larger than General Relativity suggests. TGD inspired proposal is based on the notion of gravitational Planck constant assignable to the flux tubes connecting to massive objects. It turns out that the TGD estimate for the Thomson field has correct order of magnitude. The identification h_{eff}=h_{gr} at particle physics and atomic length scales emerges naturally. A vision about the fundamental role of quantum gravitation in living matter emerges. The earlier hypothesis that dark EEG photons decay to biophotons with energies in visible and ultraviolet range receives strong quantitative support. Also a mechanism for how magnetic bodies couple biochemistry emerges. The vision conforms with Penrose's intuitions about the role of quantum gravity in biology. For details see the chapter Quantum model for biosuperconductivity: II or the article Implications of strong gravimagnetism for TGD inspired quantum biology. 
Possible implications of Pollack's findings for prebiotic life in TGD UniverseI discussed in previous posting the fourth phase of water whose existence is convincingly demonstrated by Gerald Pollack and known with many other names: one of them is Brown's gas known for a long time  standard scientists have refused to admit its existence. In TGD framework the fourth phase of water has nice interpretation in terms of magnetic body and dark proton strings at its flux tubes giving rise to a realization of genetic code. If the fourth phase of water defines prebiotic life form then the phase transition generating fourth phase of water and its reversal are expected to be fundamental elements of the ordinary metabolism, which would have developed from the prebiotic metabolism. The following argument demonstrates that the findings of Pollack interpreted in this manner allow to understand what happens in photosynthesis and metabolism at deeper level and also shed light to the newest dramatic discovery related to metabolic pathways.
For details see the chapter Dark matter hierarchy and hierarchy of EEGs or the article What is EEG made of?. 
What is EEG made of?
The usual classification of EEG frequencies by EEG bands is more or less a convention and the definitions of various bands vary in frustratingly wide ranges. In a more ambitious approach bands should be replaced with some substructures identified on basis of their physical origin and function. In the proposed framework this is possible. This identification of substructures of course applies only to that part of EEG from which evoked potentials, noise, and possible other contributions are subtracted. The recent developments in TGD inspired quantum biology lead to a more detailed form of TGD inspired model for EEG as a communication and control tool of magnetic body.
For background and details see the chapter Quantum model for EEG or the article What is EEG made of?.
