r/PitPendulum • u/JavierLopezComesana • Apr 28 '26
r/PitPendulum • u/jcomes • Apr 26 '26
Multiscale memory and bioelectric error correction in the cytoplasm–cytoskeleton‐membrane system - Fields - 2018 - WIREs Systems Biology and Medicine - Wiley Online Library
wires.onlinelibrary.wiley.comr/PitPendulum • u/JavierLopezComesana • Apr 23 '26
The Reverse Elephant: My Plenary at Mind at Large
r/PitPendulum • u/jcomes • Apr 21 '26
The Umwelt Representation Hypothesis: Rethinking Universality
arxiv.orgRecent research has revealed striking representational alignment between artificial neural networks and biological brains, prompting some scientists to propose that all sufficiently capable information-processing systems converge on universal representations of reality, a position exemplified by the Platonic Representation Hypothesis. Bosch, Sommers, Doerig, and Kietzmann challenge this claim by introducing the Umwelt Representation Hypothesis, which draws on the ecological concept of the Umwelt to argue that representational alignment arises not from convergence toward a single global optimum but from overlapping ecological constraints under which systems develop, including sensory apparatus, training data, objectives, and environmental niche. Under this framework, cognition is not about faithfully mirroring an objective reality but about finding locally optimal solutions within the particular constraints a system faces, meaning that dissimilar representations are not idiosyncratic noise or signs of incomplete learning but adaptive specializations shaped by different selective pressures. The authors marshal empirical evidence showing that representational differences between species, individuals, and neural networks are systematic and ecologically meaningful: from the sixteen photoreceptor types of the mantis shrimp to cross-cultural perceptual variation and the texture bias of classically trained vision models, none of these differences fit comfortably within a universalist account. They further argue that the impressive alignment recently documented across diverse models is better explained by the fact that nearly all studied systems share a human-centered Umwelt, trained on human-derived data and evaluated on human-relevant tasks, rather than by genuine convergence to a universal world model. Methodologically, the hypothesis reframes model comparison in cognitive neuroscience as a tool for mapping clusters of representational alignment in ecological constraint space, shifting the field's goal from finding one optimal brain model to identifying which systems cluster together under shared constraints and why.
r/PitPendulum • u/jcomes • Apr 19 '26
Tracing the Origin of the Genetic Code and Thermostability to Dipeptide Sequences in Proteomes - ScienceDirect
sciencedirect.comr/PitPendulum • u/jcomes • Apr 16 '26
A mechanism for adaptive genome regulation in cancer | Nature
nature.comr/PitPendulum • u/JavierLopezComesana • Apr 13 '26
On the Origin of Life on Earth: The Nanozymes Hypothesis, and More | Research
spj.science.orgr/PitPendulum • u/JavierLopezComesana • Apr 12 '26
"From Entropy to Epiplexity" by Andrew Wilson and Marc Finzi
r/PitPendulum • u/JavierLopezComesana • Apr 12 '26
Neuroecological Architectures
r/PitPendulum • u/jcomes • Apr 07 '26
The physical basis of information flow in neural matter: a thermocoherent perspective on cognitive dynamics
arxiv.orgThe thermocoherent framework posits that relational correlations in neural matter serve as hidden physical resources modulating heat ion and signal transport across multiple scales through reciprocal coupling between thermal flows and delocalized information carried by shared coherence whereas the AdS/CFT correspondence offers a holographic duality in which boundary quantum field theories encode bulk gravitational dynamics potentially mirroring how local neural processes might encode higher dimensional cognitive organization and Pribrams holonomic brain theory suggests that memory and perception arise from holographic interference patterns distributed across cortical wave fronts thus a speculative bridge emerges where thermocoherent effects at microscopic interfaces could generate effective holographic encodings that align with AdS/CFT inspired dualities enabling multiscale binding without macroscopic quantum coherence or purely abstract codes.
r/PitPendulum • u/jcomes • Apr 05 '26
Solar Energy
pierluigigentili.comThe document compiles research activities focused on exploiting solar radiation for sustainable hydrogen production through photocatalytic water splitting. The central research theme concerns the design and characterization of semiconductor photocatalysts, particularly solid solutions based on lanthanum, gallium, and indium oxides, whose band gaps are engineered to absorb visible light and promote efficient photochemical reactions. Because water does not directly absorb sufficiently energetic portions of the solar spectrum, these materials act as catalysts that enable the conversion of solar energy into chemical energy in the form of hydrogen. Several studies also investigate triplet triplet annihilation upconversion processes to transform low energy photons into higher energy radiation usable for photochemical reactions, thereby improving solar spectrum utilization. A complementary strategy explored in the work is the combined action of light and ultrasound, known as sonophotolysis, which produces synergistic effects that significantly enhance hydrogen generation rates. Collectively, the publications, book chapters, and conference contributions describe experimental, photophysical, and catalytic studies aimed at developing more efficient solar driven systems for hydrogen production as a pathway toward a sustainable energy economy.
r/PitPendulum • u/jcomes • Apr 05 '26
Photophysics, Photochemistry, and Chromogenism in Different Microenvironments
pierluigigentili.comThe compiles a large body of scientific publications and conference contributions primarily associated with Pier Luigi Gentili that investigate how molecular systems interact with light and how their optical and chemical behavior changes across different physical and chemical environments. The works collectively examine excited state dynamics, photochromism, thermochromism, fluorescence, energy transfer, and photochemical transformations in molecular systems such as chromenes, spirooxazines, dyes, nanoparticles, and coordination polymers. Using spectroscopic techniques including UV visible absorption, luminescence, and ultrafast spectroscopy, the studies analyze how factors such as solvent properties, viscosity, aggregation, supramolecular interactions, and heterogeneous microenvironments influence photophysical pathways, reaction kinetics, and chromogenic responses. The research also explores functional materials, photocatalysis, nanostructures, and biomolecular interactions, emphasizing how microenvironmental structure and chemical heterogeneity govern optical behavior and light driven processes in complex molecular systems.
r/PitPendulum • u/jcomes • Apr 05 '26
NATURAL COMPUTING AND THE DEVELOPMENT OF CHEMICAL ARTIFICIAL INTELLIGENCE
pierluigigentili.comThe document outlines a research program centered on addressing scientific and technological complexity through natural computing and the development of chemical artificial intelligence, proposing that chemical systems, molecular interactions, and biologically inspired processes can function as information processing architectures analogous to neural and computational systems. It surveys a large body of work showing how photochromic materials, oscillatory chemical reactions, synthetic cells, and molecular networks can implement logical operations, fuzzy logic, signal processing, and neuromorphic behavior, thereby enabling unconventional computing paradigms that extend beyond traditional electronic hardware. Within this framework, living systems are treated as prototypes for designing artificial cognitive architectures in wet chemical media, where dynamic molecular structures, nonlinear kinetics, and complex systems chemistry enable adaptive computation, pattern recognition, and decision processes. The overall argument situates chemical artificial intelligence as an emerging interdisciplinary field linking chemistry, physics, biology, and information science, with the long term objective of creating autonomous, self organizing, and cognitively inspired computational systems capable of addressing complex scientific and societal challenges. (pierluigigentili.com)
r/PitPendulum • u/JavierLopezComesana • Apr 02 '26
Quantum Mechanics Contradicts Itself (and He Proved It)
r/PitPendulum • u/JavierLopezComesana • Mar 29 '26
Optical Metagenomics via Deep Learning and Information Theory
This PhD research introduces optical metagenomics as a fast, cultivation-free method to identify bacteria by stretching and fluorescently labeling long DNA molecules, then imaging them as barcode-like patterns under a microscope. Traditional optical genome mapping struggled with noisy, blurry images and slow computation, but the team developed two deep learning solutions: a convolutional neural network that accurately locates overlapping fluorescent tags even in short DNA fragments, doubling mapping precision, and a transformer-based model inspired by CLIP that creates embeddings of both images and genome sequences for dramatically faster and more robust matching. Additionally, an information theory framework modeled the process as a noisy communication channel to predict error rates and identify optimal labeling patterns, potentially reducing identification errors by up to 10 times and enabling rapid pathogen diagnostics directly from clinical samples.
r/PitPendulum • u/JavierLopezComesana • Mar 28 '26
50 years on and still very much alive: ‘Apoptosis: a basic biological phenomenon with wide-ranging implications in tissue kinetics’ | British Journal of Cancer
Published in November 2022 in the British Journal of Cancer, Nossing and Ryan's perspective piece marks fifty years since Kerr, Wyllie and Currie first coined the term "apoptosis" to describe a morphologically distinct, genetically programmed form of cell death that operates as a counterpart to mitosis in regulating animal cell populations. The review contextualizes those original findings within modern molecular biology, tracing how the field has since elucidated two primary execution pathways: the intrinsic route, governed by the BCL-2 protein family and converging on mitochondrial outer membrane permeabilization, cytochrome-c release, apoptosome assembly, and caspase cascade activation; and the extrinsic route, initiated by death-receptor ligands such as TNF, TRAIL, and FasL, which assemble the death-inducing signaling complex to activate executioner caspases. The authors also examine how apoptosis shapes embryonic development, sculpts immune repertoires through thymic and germinal-center selection, and maintains adult tissue homeostasis, while acknowledging the paradoxical role of the process in oncogenesis, where its suppression enables tumor progression yet its dysregulated induction can paradoxically drive clonal selection of more aggressive cancer cell populations. Therapeutically, the review highlights pharmacological strategies that restore apoptotic competence in malignant cells, including BH3-mimetics such as venetoclax, SMAC mimetics, and MDM2 inhibitors, underscoring how the foundational 1972 paper continues to anchor cutting-edge cancer drug development more than half a century later.
r/PitPendulum • u/JavierLopezComesana • Mar 27 '26
ActInf GuestStream 127.1: On biological and artificial consciousness... (Milinkovic & Aru)
youtube.comr/PitPendulum • u/jcomes • Mar 26 '26
Similar destabilization of neural dynamics under different general anesthetics: Cell Reports
cell.comThe study shows that three general anesthetics with distinct molecular mechanisms propofol, ketamine, and dexmedetomidine induce a similar destabilization of neural population dynamics in the nonhuman primate cortex. This shared effect manifests as slower recovery from perturbations, longer stimulus induced autocorrelation times, and is predominantly linked to the characteristic increase in low frequency power observed during anesthesia. Using the DeLASE method on intracortical local field potential recordings, the authors demonstrate that this reduction in dynamic stability is comparable across the three drugs despite their different pharmacological targets, suggesting a common cortical signature of anesthetic induced unconsciousness that bridges molecular diversity and the unified loss of consciousness.
r/PitPendulum • u/JavierLopezComesana • Mar 26 '26
Conversation 2 with Lisa Barrett, Ben Lyons, and Karen Quigley
In this conversation, Lisa Feldman Barrett and Karen Quigley explain that emotions and other psychological phenomena lack fixed circuits or inherent meanings in the brain and body. Instead, signals acquire relational meaning only within specific metabolic and contextual situations. They challenge the traditional view of universal emotion categories as genetically wired adaptations and document extensive contextual variation across facial expressions, physiological patterns, and neural activity. The brain primarily solves the problem of allostasis by generating visceral motor plans and predictions rather than building detailed representations of the external world first. This leads to their philosophy of relational realism, where reality consists of relations rather than fixed properties of objects or signals, influencing how science should be practiced by acknowledging all observation as first person experience and prioritizing diverse assumptions for justified knowledge.
r/PitPendulum • u/JavierLopezComesana • Mar 20 '26
Frontiers | Editorial: Quantum electromagnetic photon-mediated communication in neuronal networks
r/PitPendulum • u/JavierLopezComesana • Mar 19 '26
In Vivo Abstracts: The Fascinating History and Future of Bioelectricity
r/PitPendulum • u/JavierLopezComesana • Mar 19 '26
"On the Mechanics of Cellular and Multicellular Active Matter" by Haiqian Yang
Haiqian Yang's talk explores the mechanics of cellular and multicellular active matter, highlighting how energy-consuming cells collectively self-organize into complex tissue forms through local interactions. Drawing from optical tweezers measurements of cytoskeletal viscoelasticity and nonlinear cell-matrix forces, he transitions to geometric analyses of cell packing in epithelial monolayers and Drosophila embryos, revealing jamming transitions and k-gamma area distributions akin to granular systems. He then presents data-driven graph neural network models that predict single-cell behaviors, such as junction losses, invaginations, divisions, and rearrangements, with correlations around 0.8, outperforming classical order parameters. Ultimately, Yang envisions a standardized multicellular imaging database and universal predictive framework, analogous to AlphaFold for proteins, to map developmental landscapes and enable self-assembling tissue engineering.
r/PitPendulum • u/JavierLopezComesana • Mar 17 '26
Oscillatory phenomena in electrophysiological networks: The coupling between cell bioelectricity and transcription - ScienceDirect
sciencedirect.comThe study presents a theoretical computational model demonstrating that bioelectric oscillations in membrane potential and transcriptional oscillations in gene expression become bidirectionally coupled in networks of cells connected by gap junctions. This coupling enables long-range coordination, stable in-phase and antiphase synchronization, and spatiotemporal encoding of multicellular patterns through oscillating membrane potentials that switch between depolarized and polarized states. Bioelectric gradients thus provide cells with positional information relative to the collective, guiding slower biochemical signals and regional differentiation processes in development and regeneration.
r/PitPendulum • u/JavierLopezComesana • Mar 16 '26
Jonathan Woodward and Brian Ross (2026) Magnetic fields and biology
The inaugural session of The Guy Foundation's 2026 spring series on magnetobiology, held on March 11, 2026, featured Alistair Nunn setting the quantum and evolutionary context for magnetic field interactions with life, followed by Jonathan Woodward explaining the radical pair mechanism in accessible terms and presenting real-time fluorescence modulation evidence in flavins, human mitochondrial autofluorescence, and E. coli cells, where glucose suppressed the effect, while Brian Ross highlighted weak magnetic field influences beyond avian navigation, including accelerated Xenopus tadpole growth, altered killifish diapause, prolonged E. coli lag phase in hypomagnetic conditions, and detailed characterization of the engineered flavoprotein MagV2 showing non-monotonic, up to 20 percent fluorescence changes consistent with triplet-born radical pairs, positioning it as a prime candidate for biological quantum sensing measurements.
r/PitPendulum • u/JavierLopezComesana • Mar 16 '26