Cells are chock full of information systems, not just DNA

Welcome to Code Biology:

A world of organic codes: In addition to the genetic code and the signal transduction codes, a wide variety of new organic codes have come to light in recent years. Among them: the sequence codes (Trifonov 1987, 1989, 1999), the Hox code (Paul Hunt et al. 1991; Kessel and Gruss 1991), the adhesive code (Redies and Takeichi 1996; Shapiro and Colman 1999), the splicing codes (Barbieri 2003; Fu 2004; Matlin et al. 2005; Pertea et al. 2007; Wang and Burge 2008; Barash et al. 2010; Dhir et al. 2010), the signal transduction codes (Barbieri 2003), the histone code (Strahl and Allis 2000; Jenuwein and Allis 2001; Turner 2000, 2002, 2007; Kühn and Hofmeyr 2014), the sugar code (Gabius 2000, 2009), the compartment codes (Barbieri 2003), the cytoskeleton codes (Barbieri 2003; Gimona 2008), the transcriptional code (Jessell 2000; Marquard and Pfaff 2001; Ruiz i Altaba et al. 2003; Flames et al. 2007), the neural code (Nicolelis and Ribeiro 2006; Nicolelis 2011), a neural code for taste (Di Lorenzo 2000; Hallock and Di Lorenzo 2006), an odorant receptor code (Dudai 1999; Ray et al. 2006), a space code in the hippocampus (O’Keefe and Burgess 1996, 2005; Hafting et al. 2005; Brandon and Hasselmo 2009; Papoutsi et al. 2009), the apoptosis code (Basañez and Hardwick 2008; Füllgrabe et al. 2010), the tubulin code (Verhey and Gaertig 2007), the nuclear signaling code (Maraldi 2008), the injective organic codes (De Beule et al. 2011), the molecular codes (Görlich et al. 2011; Görlich and Dittrich 2013), the ubiquitin code (Komander and Rape 2012), the bioelectric code (Tseng and Levin 2013; Levin 2014), the acoustic codes (Farina and Pieretti 2014), the glycomic code (Buckeridge and De Souza 2014; Tavares and Buckeridge 2015) and the Redox code (Jones and Sies 2015). The living world, in short, is literally teeming with organic codes, and yet so far their discoveries have only circulated in small circles and have not attracted the attention of the scientific community at large.

Of course this information can't be circulated. It is a clear refutation of the current mainstream dogma.ET

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Scientists show how to erase information without using energy - January 2011 Excerpt: Until now, scientists have thought that the process of erasing information requires energy. But a new study shows that, theoretically, information can be erased without using any energy at all.,,, "Landauer said that information is physical because it takes energy to erase it. We are saying that the reason it (information) is physical has a broader context than that.", Vaccaro explained. http://www.physorg.com/news/2011-01-scientists-erase-energy.html Information is Physical (but not how Rolf Landauer meant) - video https://www.youtube.com/watch?v=H35I83y5Uro

Moreover, besides widespread quantum effects being found on the molecular level of biological systems, there is also some fairly compelling evidence that quantum effects must be at play on the macro level of organisms as well. For instance, the following article notes that,, ‘research,, has shown that humans can detect the presence of a single photon. The researcher notes his surprise at the finding and states, “The response that the photon generates survives all the way to the level of our awareness despite the ubiquitous background noise. Any man-made detector would need to be cooled and isolated from noise to behave the same way.”,,,

Study suggests humans can detect even the smallest units of light – July 21, 2016 Excerpt: Research,, has shown that humans can detect the presence of a single photon, the smallest measurable unit of light. Previous studies had established that human subjects acclimated to the dark were capable only of reporting flashes of five to seven photons.,,, it is remarkable: a photon, the smallest physical entity with quantum properties of which light consists, is interacting with a biological system consisting of billions of cells, all in a warm and wet environment,” says Vaziri. “The response that the photon generates survives all the way to the level of our awareness despite the ubiquitous background noise. Any man-made detector would need to be cooled and isolated from noise to behave the same way.”,,, The gathered data from more than 30,000 trials demonstrated that humans can indeed detect a single photon incident on their eye with a probability significantly above chance. “What we want to know next is how does a biological system achieve such sensitivity? How does it achieve this in the presence of noise? - Per physorg

As well, in the following article it is noted that Multielectrode recordings have revealed zero time lag synchronization among remote cerebral cortical areas.

,,, zero time lag neuronal synchrony despite long conduction delays - 2008 Excerpt: Multielectrode recordings have revealed zero time lag synchronization among remote cerebral cortical areas. However, the axonal conduction delays among such distant regions can amount to several tens of milliseconds. It is still unclear which mechanism is giving rise to isochronous discharge of widely distributed neurons, despite such latencies,,, Remarkably, synchrony of neuronal activity is not limited to short-range interactions within a cortical patch. Interareal synchronization across cortical regions including interhemispheric areas has been observed in several tasks (7, 9, 11–14).,,, http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2575223/ The Puzzling Role Of Biophotons In The Brain - Dec. 17, 2010 Excerpt: It’s certainly true that electrical activity in the brain is synchronised over distances that cannot be easily explained. Electrical signals travel too slowly to do this job, so something else must be at work.,,, ,,, It’s a big jump to assume that photons do this job. http://www.technologyreview.com/view/422069/the-puzzling-role-of-biophotons-in-the-brain/

Moreover, further evidence suggesting that quantum mechanisms are at play on the macro level of the human body is also revealed in the following article where it is revealed that a ‘subject perceives a sensory stimulus on the skin at the moment the skin is touched, before the stimulus reaches the brain and before full deliberative consciousness occurs.’

Do Perceptions Happen in Your Brain? - Michael Egnor - December 1, 2015 Excerpt: The sensory experiments of Benjamin Libet, a neuroscientist at U.C. San Francisco in the mid 20th century, demonstrated that a subject perceives a sensory stimulus on the skin at the moment the skin is touched, before the stimulus reaches the brain and before full deliberative consciousness occurs. Libet was flabbergasted by this result,,, http://www.evolutionnews.org/2015/12/do_perceptions101261.html

Of final note, besides quantum information providing direct empirical falsification of neo-Darwinian claims that say information is emergent from a material basis, the implication of finding 'non-local', beyond space and time, and ‘conserved’, quantum information in molecular biology on such a massive scale, is fairly, and pleasantly, obvious. That pleasant implication, or course, being the fact that we now have direct physical evidence strongly indicating that we do indeed have an eternal soul that is capable of living beyond the death of our material bodies. As Stuart Hameroff notes in this following video, “the quantum information,, isn’t destroyed. It can’t be destroyed.,,, it's possible that this quantum information can exist outside the body. Perhaps indefinitely as a soul.”

“Let’s say the heart stops beating. The blood stops flowing. The microtubules lose their quantum state. But the quantum information, which is in the microtubules, isn’t destroyed. It can’t be destroyed. It just distributes and dissipates to the universe at large. If a patient is resuscitated, revived, this quantum information can go back into the microtubules and the patient says, “I had a near death experience. I saw a white light. I saw a tunnel. I saw my dead relatives.,,” Now if they’re not revived and the patient dies, then it's possible that this quantum information can exist outside the body. Perhaps indefinitely as a soul.” - Stuart Hameroff - Quantum Entangled Consciousness - Life After Death - video (5:00 minute mark) https://youtu.be/jjpEc98o_Oo?t=300

Verses:

James 2:26 As the body without the spirit is dead, so faith without deeds is dead. Matthew 16:26 For what is a man profited, if he shall gain the whole world and lose his own soul? Or what shall a man give in exchange for his soul?

Thus in conclusion, the reductive materialistic framework of Darwinian evolution is found to be grossly inadequate for explaining how any particular organism might achieve its basic form.

Darwinism vs Biological Form - video https://www.youtube.com/watch?v=JyNzNPgjM4w

Moreover, to state what should be glaringly obvious, since neo-Darwinian explanations are grossly inadequate for explaining how any particular organism might achieve its basic form, then neo-Darwinian speculations for how one type of organism might transform into another type of organism are based on pure fantasy and have no discernible experimental basis in reality. Whereas, on the other hand, Theism, especially with these recent breakthroughs in quantum biology,,,

Darwinian Materialism vs Quantum Biology - video https://www.youtube.com/watch?v=LHdD2Am1g5Y

,,,is found to be very well supported in its claim that God has formed each of us in our mother’s womb. Verses and music:

Jeremiah 1:5 “Before I formed you in the womb I knew you, before you were born I set you apart; I appointed you as a prophet to the nations.” Psalm 139:13 For you created my inmost being; you knit me together in my mother's womb. Evanescence - The Other Side (Lyric Video) https://www.youtube.com/watch?v=HiIvtRg7-Lc

bornagain77

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And yet these quantum correlations which somehow arise from outside spacetime, are now found in molecular biology on a massive scale. In every DNA and Protein molecule,,,

Quantum criticality in a wide range of important biomolecules – Mar. 6, 2015 Excerpt: “Most of the molecules taking part actively in biochemical processes are tuned exactly to the transition point and are critical conductors,” they say. That’s a discovery that is as important as it is unexpected. “These findings suggest an entirely new and universal mechanism of conductance in biology very different from the one used in electrical circuits.” The permutations of possible energy levels of biomolecules is huge so the possibility of finding even one (biomolecule) that is in the quantum critical state by accident is mind-bogglingly small and, to all intents and purposes, impossible.,, of the order of 10^-50 of possible small biomolecules and even less for proteins,”,,, “what exactly is the advantage that criticality confers?” https://medium.com/the-physics-arxiv-blog/the-origin-of-life-and-the-hidden-role-of-quantum-criticality-ca4707924552

Moreover, the following article points out that the unresolved enigma of protein folding, that is to say, the unresolved enigma for how a protein might achieve its basic 3-dimensional form, can be easily explained if the process of folding is a quantum affair.

Physicists Discover Quantum Law of Protein Folding – February 22, 2011 Quantum mechanics finally explains why protein folding depends on temperature in such a strange way. Excerpt: First, a little background on protein folding. Proteins are long chains of amino acids that become biologically active only when they fold into specific, highly complex shapes. The puzzle is how proteins do this so quickly when they have so many possible configurations to choose from. To put this in perspective, a relatively small protein of only 100 amino acids can take some 10^100 different configurations. If it tried these shapes at the rate of 100 billion a second, it would take longer than the age of the universe to find the correct one. Just how these molecules do the job in nanoseconds, nobody knows.,,, Today, Luo and Lo say these curves can be easily explained if the process of folding is a quantum affair. By conventional thinking, a chain of amino acids can only change from one shape to another by mechanically passing through various shapes in between. But Luo and Lo say that if this process were a quantum one, the shape could change by quantum transition, meaning that the protein could ‘jump’ from one shape to another without necessarily forming the shapes in between.,,, Their astonishing result is that this quantum transition model fits the folding curves of 15 different proteins and even explains the difference in folding and unfolding rates of the same proteins. That's a significant breakthrough. Luo and Lo's equations amount to the first universal laws of protein folding. That’s the equivalent in biology to something like the thermodynamic laws in physics. http://www.technologyreview.com/view/423087/physicists-discover-quantum-law-of-protein/

In fact, in direct contradiction to Darwinian claims that held information was merely a metaphor, information is now shown to be a physically real entity that is separate from matter and energy. A physical real entity that has, of all things, a quote unquote ‘thermodynamic content’

Demonic device converts information to energy – 2010 Excerpt: “This is a beautiful experimental demonstration that information has a thermodynamic content,” says Christopher Jarzynski, a statistical chemist at the University of Maryland in College Park. In 1997, Jarzynski formulated an equation to define the amount of energy that could theoretically be converted from a unit of information2; the work by Sano and his team has now confirmed this equation. “This tells us something new about how the laws of thermodynamics work on the microscopic scale,” says Jarzynski. http://www.scientificamerican.com/article.cfm?id=demonic-device-converts-inform Information engine operates with nearly perfect efficiency - Lisa Zyga - January 19, 2018 Excerpt: Physicists have experimentally demonstrated an information engine—a device that converts information into work—with an efficiency that exceeds the conventional second law of thermodynamics. Instead, the engine's efficiency is bounded by a recently proposed generalized second law of thermodynamics, and it is the first information engine to approach this new bound.,,, The generalized second law of thermodynamics states that the work extracted from an information engine is limited by the sum of two components: the first is the free energy difference between the final and initial states (this is the sole limit placed on conventional engines by the conventional second law), and the other is the amount of available information (this part sets an upper bound on the extra work that can be extracted from information). To achieve the maximum efficiency set by the generalized second law, the researchers in the new study designed and implemented an information engine made of a particle trapped by light at room temperature. Random thermal fluctuations cause the tiny particle to move slightly due to Brownian motion, and a photodiode tracks the particle's changing position with a spatial accuracy of 1 nanometer. If the particle moves more than a certain distance away from its starting point in a certain direction, the light trap quickly shifts in the direction of the particle. This process repeats, so that over time the engine transports the particle in a desired direction simply by extracting work from the information it obtains from the system's random thermal fluctuations (the free energy component here is zero, so it does not contribute to the work extracted). One of the most important features of this system is its nearly instantaneous feedback response: the trap shifts in just a fraction of a millisecond, giving the particle no time to move further and dissipate energy. As a result, almost none of the energy gained by the shift is lost to heat, but rather nearly all of it is converted into work. By avoiding practically any information loss, the information-to-energy conversion of this process reaches approximately 98.5% of the bound set by the generalized second law. The results lend support for this bound, and illustrate the possibility of extracting the maximum amount of work possible from information. https://phys.org/news/2018-01-efficiency.html

Of related note to information now being shown to have a ‘thermodynamic content’, in the following paper, Dr Andy C. McIntosh, who is professor of thermodynamics and combustion theory at the University of Leeds, holds that it must be non-material information that is constraining biological life to be so far out of thermodynamic equilibrium. Moreover, Dr. McIntosh holds that regarding information as independent of energy and matter ‘resolves the thermodynamic issues and invokes the correct paradigm for understanding the vital area of thermodynamic/organisational interactions’.

Information and Thermodynamics in Living Systems – Andy C. McIntosh – 2013 Excerpt: ,,, information is in fact non-material and that the coded information systems (such as, but not restricted to the coding of DNA in all living systems) is not defined at all by the biochemistry or physics of the molecules used to store the data. Rather than matter and energy defining the information sitting on the polymers of life, this approach posits that the reverse is in fact the case. Information has its definition outside the matter and energy on which it sits, and furthermore constrains it to operate in a highly non-equilibrium thermodynamic environment. This proposal resolves the thermodynamic issues and invokes the correct paradigm for understanding the vital area of thermodynamic/organisational interactions, which despite the efforts from alternative paradigms has not given a satisfactory explanation of the way information in systems operates.,,, http://www.worldscientific.com/doi/abs/10.1142/9789814508728_0008

A particularly crystal clear example for demonstrating that immaterial information is its own distinct physical entity that is separate from matter and energy, is Quantum Teleportation, where, as the following article states, the photons aren’t disappearing from one place and appearing in another,,, it is only the information that gets teleported from one place to another.

Quantum Teleportation Enters the Real World – September 19, 2016 Excerpt: Two separate teams of scientists have taken quantum teleportation from the lab into the real world. Researchers working in Calgary, Canada and Hefei, China, used existing fiber optics networks to transmit small units of information across cities via quantum entanglement — Einstein’s “spooky action at a distance.”,,, This isn’t teleportation in the “Star Trek” sense — the photons aren’t disappearing from one place and appearing in another. Instead, it’s the information that’s being teleported through quantum entanglement.,,, ,,, it is only the information that gets teleported from one place to another. http://blogs.discovermagazine.com/d-brief/2016/09/19/quantum-teleportation-enters-real-world/#.V-HqWNEoDtR

In fact, in quantum mechanics it is information that is primarily conserved, not necessarily matter and energy that are primarily conserved, as matter and energy are primarily conserved in classical mechanics. As the following article states, 'In the classical world, information can be copied and deleted at will. In the quantum world, however, the conservation of quantum information means that information cannot be created nor destroyed.'

Quantum no-hiding theorem experimentally confirmed for first time - 2011 Excerpt: In the classical world, information can be copied and deleted at will. In the quantum world, however, the conservation of quantum information means that information cannot be created nor destroyed. This concept stems from two fundamental theorems of quantum mechanics: the no-cloning theorem and the no-deleting theorem. A third and related theorem, called the no-hiding theorem, addresses information loss in the quantum world. According to the no-hiding theorem, if information is missing from one system (which may happen when the system interacts with the environment), then the information is simply residing somewhere else in the Universe; in other words, the missing information cannot be hidden in the correlations between a system and its environment. http://www.physorg.com/news/2011-03-quantum-no-hiding-theorem-experimentally.html

In fact, classical 'digital' information has now been found to be a subset of ‘non-local', (beyond space and time), quantum information by the following method:

Quantum knowledge cools computers: New understanding of entropy – June 2011 Excerpt: No heat, even a cooling effect; In the case of perfect classical knowledge of a computer memory (zero entropy), deletion of the data requires in theory no energy at all. The researchers prove that “more than complete knowledge” from quantum entanglement with the memory (negative entropy) leads to deletion of the data being accompanied by removal of heat from the computer and its release as usable energy. This is the physical meaning of negative entropy. Renner emphasizes, however, “This doesn’t mean that we can develop a perpetual motion machine.” The data can only be deleted once, so there is no possibility to continue to generate energy. The process also destroys the entanglement, and it would take an input of energy to reset the system to its starting state. The equations are consistent with what’s known as the second law of thermodynamics: the idea that the entropy of the universe can never decrease. Vedral says “We’re working on the edge of the second law. If you go any further, you will break it.” http://www.sciencedaily.com/releases/2011/06/110601134300.htm

bornagain77

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Of related note: The information content of the entire cell is found to be much greater than the information encoded on just on DNA. For instance, the genome of E. coli is estimated to be 4.6 x 10^6 bits yet the information content of the entire E. coli cell when working from the thermodynamic perspective is found 10^12 bits.

Biophysics – Information theory. Relation between information and entropy: - Setlow-Pollard, Ed. Addison Wesley Excerpt: Linschitz gave the figure 9.3 x 10^12 cal/deg or 9.3 x 10^12 x 4.2 joules/deg for the entropy of a bacterial cell. Using the relation H = S/(k In 2), we find that the information content is 4 x 10^12 bits. Morowitz' deduction from the work of Bayne-Jones and Rhees gives the lower value of 5.6 x 10^11 bits, which is still in the neighborhood of 10^12 bits. Thus two quite different approaches give rather concordant figures. http://www.astroscu.unam.mx/~angel/tsb/molecular.htm

,,, 10^12 bits is equivalent of 100 million pages of Encyclopedia Britannica. 'In comparison,,, the largest libraries in the world,, have about 10 million volumes or 10^12 bits.”

“a one-celled bacterium, e. coli, is estimated to contain the equivalent of 100 million pages of Encyclopedia Britannica. Expressed in information in science jargon, this would be the same as 10^12 bits of information. In comparison, the total writings from classical Greek Civilization is only 10^9 bits, and the largest libraries in the world – The British Museum, Oxford Bodleian Library, New York Public Library, Harvard Widenier Library, and the Moscow Lenin Library – have about 10 million volumes or 10^12 bits.” – R. C. Wysong 'The information content of a simple cell has been estimated as around 10^12 bits, comparable to about a hundred million pages of the Encyclopedia Britannica." Carl Sagan, "Life" in Encyclopedia Britannica: Macropaedia (1974 ed.), pp. 893-894 HISTORY OF EVOLUTIONARY THEORY – WISTAR DESTROYS EVOLUTION Excerpt: A number of mathematicians, familiar with the biological problems, spoke at that 1966 Wistar Institute,, For example, Murray Eden showed that it would be impossible for even a single ordered pair of genes to be produced by DNA mutations in the bacteria, E. coli,—with 5 billion years in which to produce it! His estimate was based on 5 trillion tons of the bacteria covering the planet to a depth of nearly an inch during that 5 billion years. He then explained that,, E. coli contain(s) over a trillion (10^12) bits of data. That is the number 10 followed by 12 zeros. *Eden then showed the mathematical impossibility of protein forming by chance. http://www.pathlights.com/ce_encyclopedia/Encyclopedia/20hist12.htm

Moreover, the information content of the entire human body is found to be much greater that just the 3.2 billion (10^9) base pairs encoded on the DNA. For instance, the 3.2 x 10^9 base pairs of information encoded on human DNA could easily be stored on a single thumb drive. Yet, as the following video notes, the information required to build a human infant, atom by atom, would take up the equivalent of enough thumb drives to fill the Titanic, multiplied by 2,000.

In a TED Talk, (the Question You May Not Ask,,, Where did the information come from?) - November 29, 2017 Excerpt: Sabatini is charming.,,, he deploys some memorable images. He points out that the information to build a human infant, atom by atom, would take up the equivalent of enough thumb drives to fill the Titanic, multiplied by 2,000. Later he wheels out the entire genome, in printed form, of a human being,,,,: [F]or the first time in history, this is the genome of a specific human, printed page-by-page, letter-by-letter: 262,000 pages of information, 450 kilograms.,,, https://evolutionnews.org/2017/11/in-a-ted-talk-heres-the-question-you-may-not-ask/

The following video states that "There are 10^28 atoms in the human body.,, The amount of data contained in the whole human,, is 3.02 x 10^32 gigabytes of information. Using a high bandwidth transfer, that data would take about 4.5 x 10^18 years to teleport 1 time. That is 350,000 times the age of the universe."

Will Teleportation Ever Be Possible? - video - 2013 https://youtu.be/yfePpMTbFYY?t=76 Quote from video: "There are 10^28 atoms in the human body.,, The amount of data contained in the whole human,, is 3.02 x 10^32 gigabytes of information. Using a high bandwidth transfer that data would take about 4.5 x 10^18 years to teleport 1 time. That is 350,000 times the age of the universe."

The following article also came to, very roughly, the same 10^32 bits estimate

If we forget about recognizing atoms and measuring their velocities and just scale that to a resolution of one-atomic length in each direction that's about 10^32 bits (a one followed by thirty two zeros). This is so much information that even with the best optical fibers conceivable it would take over one hundred million centuries to transmit all that information!,,, - A fun talk on teleportation - Professor Samuel Braunstein - http://www-users.cs.york.ac.uk/~schmuel/tport.html

As we can see from gargantuan disparity between the 10^12 bits of spatial and/or positional information required for E. coli and the 10^32 gigabytes of spatial and/or positional information required for a human we can see that there is exponentially more positional information required to explain a human than for a E. coli. Moreover, we have fairly strong evidence indicating that this enormous amount of positional information, that is telling all the atoms of the developing embryo of a human exactly where to be is somehow coming into the developing embryo from outside the material realm. For instance, at about the 41:00 minute mark of the following video, Dr. Wells, using a branch of mathematics called category theory, demonstrates that, during embryological development, information must somehow be added to the developing embryo, ‘from the outside’, by some ‘non-material’ method.

Design Beyond DNA: A Conversation with Dr. Jonathan Wells – video (41:00 minute mark) – January 2017 https://youtu.be/ASAaANVBoiE?t=2484

Likewise, Thom concluded in his book Structural Stability and Morphogenesis that the process of development should be thought of as being controlled by an “algebraic structure outside space-time itself”.

Intelligent Design and the Advancement of Science - Brian Miller - December 11, 2017 Excerpt: Based partly on these insights, Thom concluded in his book Structural Stability and Morphogenesis that the process of development should be thought of as being controlled by an “algebraic structure outside space-time itself” (p. 119). Likewise, Robert Rosen argued that life can only be understood as a mathematical abstraction consisting of functional relationships, irreducible to mechanistic processes. He observed that life is fundamentally different from simple physics and chemistry. It embodies the Aristotelian category of final causation, which is closely related to the idea of purpose. The conclusions of these scholars challenge materialistic philosophy at its core. https://evolutionnews.org/2017/12/intelligent-design-and-the-advancement-of-science/

Further evidence that information is coming into a developing embryo by some ‘non-material’ method is found by the fact quantum correlations somehow arise from outside spacetime, in the sense that no story in space and time can describe them,,,

Looking beyond space and time to cope with quantum theory – 29 October 2012 Excerpt: “Our result gives weight to the idea that quantum correlations somehow arise from outside spacetime, in the sense that no story in space and time can describe them,” http://www.quantumlah.org/highlight/121029_hidden_influences.php

bornagain77

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Of course! DNA is just 1GB of memory and thus totally inadequate to specify the development of any organism (that's less than the OS in your mobile phone!): http://nonlin.org/dna-not-essence-of-life/Nonlin.org

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