Epigenetic

Ignoring systems complexity (it’s too complicated)

Host, heal thyself: Immune system self-organizes to minimize biological cost of pathogenic infections Excerpt 1) This approach allowed the scientists to create a new framework that makes it unnecessary to explicitly model intracellular communication, cell differentiation, activation of cofactors, coordination of different cell types, the interaction with the innate immune system, and the full complexity of the recognition process. My comment: Population geneticists took that approach when they invented neo-Darwinian evolution. They eliminated all aspects of nutrient-dependent cell type differentiation…

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Computing via phosphorylation and fixation

Scientists develop atomic-scale hardware to implement natural computing Excerpt 1) …an atomic switch network that is in many ways similar to a brain or other natural or cognitive computing device. Excerpt 2) We plan to move towards a hybrid morphic system using the best of conventional computation with our brain-like device capabilities, and to develop a new form of programming that relies on distributed memory and synaptic networks,” Gimzewski said. My comment: Brain-like device capabilities require a link from entropic…

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Virus-driven cancer treatment and prevention

Blocking a metabolic pathway may shrink aggressive form of common kidney cancer Excerpt: ..the cancer cells appear to rely primarily on the metabolism of an amino acid called glutamine for their energy. My comment:  This links differences in hydrogen atom energies and the anti-entropic epigenetic effect of nutrient energy to virus-driven differences in the metabolism of glutamine and DNA repair. Those differences link viral microRNAs to entropic elasticity. The differences also link nutrient-dependent microRNAs to the stability of organized genomes…

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A special issue on nutritional epigenetics

See also: Retinoic acid + one receptor regulate the genome Two decades of scientific progress link what we detailed about RNA-mediated cell type differentiation in our 1996 review: From Fertilization to Adult Sexual Behavior.  Others have begun to learn more about the biological basis of ecological adaptations that link nutrient uptake to the pheromone-controlled physiology of reproduction in all vertebrates by the conserved molecular mechanisms of biophysically constrained RNA-mediated amino acid substitutions and the chemistry of protein folding. For example,…

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Retinoic acid + one receptor regulate the genome

See also: Epigenetics: microRNAs effect an integrative pathway for my additional comments on Master orchestrator of the genome is discovered, stem cell scientists report) Retinoic acid is a metabolite of vitamin A (retinol) that mediates the functions of vitamin A required for growth and development. The fibroblast growth factor receptor 1 “…gene provides instructions for making a protein called fibroblast growth factor receptor 1. This protein is one of four fibroblast growth factor receptors, which are related proteins that are…

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Epigenetics: microRNAs effect an integrative pathway

Global Developmental Gene Programing Involves a Nuclear Form of Fibroblast Growth Factor Receptor-1 (FGFR1) Excerpt 1) The accumulation of hypoglycosylated nuclear FGFR1 (nFGFR1) is stimulated by a variety of developmental signals, including various growth factors, hormones, and neurotransmitters as well as a reduction in cell contact. This is the reason that this pathway is referred to as integrative [1, 15]. Reported as: Master orchestrator of the genome is discovered, stem cell scientists report Summary: New research shows how a single…

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Tissue type variation and expression of genes

Exploring the Impacts of Genetic Variation on Tissue-Specific Expression Preliminary results from the Genotype-Tissue Expression project reveal that gene expression varies more across tissues than across individuals. By Jenny Rood | May 7, 2015 Excerpt: “You’ve got the genetic variation, you’ve got the gene expression levels, you’ve got the different tissues…” My comment: What you don’t have is a model of RNA-directed DNA methylation and RNA-mediated amino acid substitutions that links the epigenetic landscape to the physical landscape of DNA…

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Thermodynamics and protein folding landscapes

The map of the body’s proteins Excerpt 1) Around half of our proteins are present in all of the body’s cells; these are known as ‘basic proteins’. Other proteins most commonly occur in one organ, but the researchers discovered that there are relatively few proteins which are unique to a certain tissue. Excerpt 2) ‘Our role in the project is above all linked to the medical and clinical aspects. Medical background knowledge is required to interpret what we see in…

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Nutrient-dependent RNA interference

This David Sloan Wilson interview of Eva Jablonka reflects the desperation of evolutionary theorists. Jablonka claims there is no need to re-define “evolution.” She also places all prior claims about evolution into the context of “symbolic evolution.” She attests to the fact that “evolution” (e.g., change over time) will probably be re-defined to fit whatever anyone was taught to believe it might be. See: Beyond Genetic Evolution. A Conversation With Eva Jablonka Excerpt: “This is a good opportunity to move…

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Viruses and ecologically adapted animals

“I should think we might fairly gauge the future of biological science, centuries ahead by estimating the time it will take to reach a complete comprehensive understanding of odor. It may not seem a profound enough problem to dominate all the life sciences, but it contains, piece by piece, all the mysteries” (p. 732). — Lewis Thomas (1980) Olfaction and odor receptors link what you can read about here or at Perfuming the Mind.com and at Searching for the Mind.com…

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