Tim Bredy

RNA methylation

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!

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)

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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The Mind’s Eyes (revisited)

Author’s copy: The Mind’s Eyes: Human pheromones, neuroscience, and male sexual preferences (2007) Abstract: The across-species genetic conservation of intercellular and extracellular chemical communication enables unicellular and multicellular organisms to functionally distinguish between self and non-self.  Non-self olfactory/pheromonal input from the social environment elicits a vertebrate neuroendocrine response.  The organization and activation of this neuroendocrine response modulates the concurrent maturation of the mammalian neuroendocrine system, the reproductive system, and the central nervous system during the development of sexual preferences that…

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RNA methylation, behavior, and disease

Epigenetics and Genetics of Viral Latency by Paul M. Lieberman (May 11, 2016)   My comment: Lieberman succinctly confirmed the fact that …viral latency is responsible for life-long pathogenesis and mortality risk… His simplistic conclusion also attests to the fact that there is no defined boundary between epigenetics and genetics. Epigenetic effects on metabolic networks must be linked to genetic networks via the energy-dependent innate immune system. That’s how all serious scientists knew they would need to link angstroms to ecosystems…

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Gene expression, immortality, and cancer

Collaborative research team solves cancer-cell mutation mystery Excerpt: TERT stabilizes chromosomes by elongating the protective element at the end of each chromosome in a cell. …cells harboring these mutations aberrantly increase TERT expression, effectively making them immortal. My comment: To an evolutionary theorist, this might suggest that protein folding instability is beneficial. For example, see: “Mutation-Driven Evolution” Excerpt:  …genomic conservation and constraint-breaking mutation is the ultimate source of all biological innovations and the enormous amount of biodiversity in this world.…

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Misunderstanding cancer

Tumor-Only Genetic Sequencing May Misguide Cancer Treatment in Nearly Half of All Patients, Study Shows Excerpt 1) “…they counted 382 possible tumor-related changes. But after comparing a patient’s full germline genome to his or her tumor genomes, they determined that, on average, 249 of these changes were part of the patient’s normal, inherited genetic variation and were not tumor-specific.” Excerpt 2) “In addition to selecting personalized therapies for patients with cancer, sequencing the normal tissue genome can also increase the…

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