hydrogen-atom transfer in DNA base pairs in solution

RNA methylation, learning, memory and behavior,

June 23, 2016
James Kohl
Adaptations, Alternative Splicings, Diseases & Disorders, Ecology, Human Brain, Human Pheromones, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity
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Experience-Dependent Accumulation of N6-Methyladenosine in the Prefrontal Cortex Is Associated with Memory Processes in Mice    Excerpt: Our findings suggest that m6A is regulated in an activity-dependent manner in the adult brain, and may function to fine-tune mRNA turnover during memory-related processes.   My comment: They cite: Alarcón CR, Lee H, Goodarzi H, Halberg N, Tavazoie SF (2015) N6-methyladenosine marks primary microRNAs for processing. Nature 519:482–485.   In the context of experience-dependent learning and memory, the authors link quantized energy…

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Amino acids and virus penetration

June 16, 2016
James Kohl
Adaptations, Alternative Splicings, biophotonics, Diseases & Disorders, Ecology, Human Brain, Human Pheromones, Light Energy, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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For an example of the ocean of information you must swim through to get to an important fact about virus-driven energy theft and all pathology, see: The bacteriophage ϕ29 tail possesses a pore-forming loop for cell membrane penetration (June 15, 2016) They cite “PrDOS: prediction of disordered protein regions from amino acid sequence” (2007). Excerpt: We have also developed a system to predict disordered regions from the amino acid sequence. Our system is composed of two predictors, that is, a…

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Major transition ends use of silly theories

June 15, 2016
James Kohl
Adaptations, Alternative Splicings, biophotonics, Diseases & Disorders, Ecology, Human Brain, Human Pheromones, Light Energy, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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Major transitions in human evolution This theme issue focuses on key evolutionary transitions to understand the interaction of biology, behaviour, culture and environment. This issue is dedicated to Richard Leakey, whose critical discoveries have provided evidence for many of the key phases, and who has inspired much of the work discussed here. This issue is based on a joint Royal Society and British Academy discussion meeting held in October 2015. This issue is now available to read online. Reported as:…

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RNA methylation

June 15, 2016
James Kohl
Adaptations, Ecology, Model Organisms, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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This is a brief history of events that led me to found the domain RNA-mediated.com with some follow-up on the latest news about cell type differentiation In 2012, I attended this minisymposium 006.Transcribing Memories: New Mechanisms of Activity-Regulated Gene Expression and Their Roles in Experience-Dependent Plasticity. Description: Activity-regulated gene transcription is essential for orchestrating the gene expression programs that drive experience-dependent plasticity of neural circuits. Recent studies have not only vastly expanded our understanding of the mechanisms that mediate activity-regulated…

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Model vs theory: Progress report!

June 14, 2016
James Kohl
Adaptations, Alternative Splicings, biophotonics, Diseases & Disorders, Ecology, Light Energy, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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On June 14, 2013, 1) Nutrient-dependent/pheromone-controlled adaptive evolution: a model and 2) Mutation-Driven Evolution were published with divergent/opposite conclusions. 1) …the largest contributor to the development of our personal preferences may be the unconscious epigenetic effects of food odors and pheromones on hormones that organize and activate behavior. If so, the model represented here is consistent with what is known about the epigenetic effects of ecologically important nutrients and pheromones on the adaptively evolved behavior of species from microbes to…

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Masters of deception about nature (2)

June 13, 2016
James Kohl
Adaptations, Alternative Splicings, biophotonics, Diseases & Disorders, Ecology, Human Brain, Human Pheromones, Light Energy, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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See my other blog posts on RNA methylation Thanks for your review of How Can Physics Underlie the Mind?: Top-Down Causation in the Human Context (The Frontiers Collection) Others linked the sun’s anti-entropic virucidal energy from energy-dependent changes in hydrogen-atom transfer in DNA base pairs in solution to supercoiled DNA, which protects all organized genomes from virus-driven energy theft and genomic entropy. Ellis comments on at least one of Schrodinger’s claims from “What is Life?” but he largely ignores the…

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Masters of deception about nature

June 12, 2016
James Kohl
Adaptations, Ecology, Human Brain, Human Pheromones, Model Organisms, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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Masters of Physics in Nature Excerpt: This interaction raises the possibility that particle velocity information and electrical information, and interactions between them, can be encoded by a single hair.” It also raises the possibility that “electroreception is widespread in arthropods, fulfilling functions beyond the detection of floral electric fields. My comment: Energy-dependent microRNA flanking sequences linked all invertebrates to all vertebrates in the context of what was published as:  The phylogenetic utility and functional constraint of microRNA flanking sequences and…

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Energy-dependent RNA methylation (3)

June 6, 2016
James Kohl
Adaptations, Alternative Splicings, Diseases & Disorders, Ecology, Human Brain, Human Pheromones, Model Organisms, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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I wrote: Stop trying to claim anything about energy-dependent cause and effect on any other site including your own. You betrayed my trust in you. I do not take that lightly. On 6/4/16, Tomi Aalto replied: “You don’t own the knowledge.” My comment: Researchers own nothing without patents based on the knowledge. They do not own the knowledge that leads others to learn more about what has been accurately portrayed in the context of biophysically constrained biologically-based cause and effect.…

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Energy-dependent RNA methylation (2)

June 5, 2016
James Kohl
Adaptations, Alternative Splicings, Diseases & Disorders, Ecology, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA methylation, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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Energy-dependent RNA methylation (1) Conclusion: Until someone establishes a clear link from energy-dependent RNA methylation to behavior and publishes in a journal such as the Journal of Neuroscience, others may not examine other experimental evidence that clearly links viruses like the Zika virus to changes in morphological phenotypes and behavioral phenotypes via differences in energy-dependent brain development. Each day, the neuroscience news and other news bring more examples of energy-dependent brain development that must be linked from RNA methylation to…

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Countdown to Genetics and Genomics

May 11, 2016
James Kohl
Adaptations, Alternative Splicings, biophotonics, Diseases & Disorders, Ecology, Human Brain, Light Energy, Model Organisms, Neuronal Plasticity, Nutrigenomics, Pharmacogenomics, Physics, RNA Directed, RNA-directed DNA methylation, RNA-mediated epigenetic regulation of gene expression, RNA-mediated gene silencing, RNA-mediated toxicity, RNA–Mediated Epigenetic Heredity, Variations
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RNA-mediated physics, chemistry, and molecular epigenetics (5) 5/10/16 Focus: Functional Implications of Human-Specific Changes in Great Ape microRNAs RNA-mediated physics, chemistry, and molecular epigenetics (4) 5/9/16 Focus: Femtosecond structural dynamics drives the trans/cis isomerization in photoactive yellow protein RNA-mediated physics, chemistry, and molecular epigenetics (3) 5/9/16 Focus: Microtargeting cancer metabolism: opening new therapeutic windows based on lipid metabolism RNA-mediated physics, chemistry, and molecular epigenetics (2) 5/6/16 Focus: Micron-scale plasma membrane curvature is recognized by the septin cytoskeleton RNA-mediated physics, chemistry,…

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