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The epoch-making importance of Ervin Bauer's theoretical biology Biosystems (IF 1.6) Pub Date : 2024-03-14 Attila Grandpierre
Ervin Bauer was the only biologist who recognized that the best way to develop theoretical biology on an equal footing with theoretical physics was to follow the method that has ensured the great successes of modern theoretical physics: the general method of science. Following this method, he succeeded to find the universal principle of biology. From this principle he managed to derive all the basic
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Embodied essentialism in the reconstruction of the animal sign in robot animal design Biosystems (IF 1.6) Pub Date : 2024-03-13 Sergio Torres-Martínez
Robot animals are important for the interpretation of the biological world. In this paper, I show that specific design solutions for robot animal signs usually privilege the overall perception of biological systems (and animal signs in general) as machinic entities, which ignores the role of identity self-generation and sustainability, the hallmark of biological signs. are semiotic systems that operate
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Modelling energy-harvesting processes in primitive cells: Proton transport across bilayers driven by the oxidation of sulfite Biosystems (IF 1.6) Pub Date : 2024-03-12 Stefan Paula, Andres Acosta, Naiki Judge, Stephanie Ramirez, Amaan Sandhu, David Deamer
A frequently debated topic related to the origin of life centers around the question of how complex forms of life on today's Earth may have evolved over time from simpler predecessors. For example, the question of how proton concentration gradients across cellular membranes developed in ancestral protocells remains unanswered. This process, which is indispensable for the generation of chemical energy
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Exploring the patterns of evolution: Core thoughts and focus on the saltational model Biosystems (IF 1.6) Pub Date : 2024-03-11 Gabriele Usai, Marco Fambrini, Claudio Pugliesi, Samuel Simoni
The Modern Synthesis, a pillar in biological thought, united Darwin's species origin concepts with Mendel's laws of character heredity, providing a comprehensive understanding of evolution within species. Highlighting phenotypic variation and natural selection, it elucidated the environment's role as a selective force, shaping populations over time. This framework integrated additional mechanisms,
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The pseudoentropy of allele frequency trajectories, the persistence of variation, and the effective population size Biosystems (IF 1.6) Pub Date : 2024-03-11 Nikolas Vellnow, Toni I. Gossmann, David Waxman
To concisely describe how genetic variation, at individual loci or across whole genomes, changes over time, and to follow transitory allelic changes, we introduce a quantity related to entropy, that we term . This quantity emerges in a diffusion analysis of the mean time a mutation segregates in a population. For a neutral locus with an arbitrary number of alleles, the mean time of segregation is generally
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What is Quantum in probabilistic explanations of the sure-thing principle violation? Biosystems (IF 1.6) Pub Date : 2024-03-11 Nematollah Farhadi Mahalli, Onur Pusuluk
The Prisoner’s Dilemma game (PDG) is one of the simple test-beds for the probabilistic nature of the human decision-making process. Behavioral experiments have been conducted on this game for decades and show a violation of the so-called , a key principle in the rational theory of decision. Quantum probabilistic models can explain this violation as a second-order interference effect, which cannot be
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On interaction of proteinoids with simulated neural networks Biosystems (IF 1.6) Pub Date : 2024-03-07 Panagiotis Mougkogiannis, Andrew Adamatzky
Proteinoid-neuron networks combine biological neurons with spiking proteinoid microspheres, which are generated by thermal condensation of amino acids. Complex and dynamic spiking patterns in response to varied stimuli make these networks suitable for unconventional computing. This research examines the interaction of proteinoid-neuron networks with function-generator-artificial neural networks (ANN)
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An integrative machine learning model for the identification of tumor T-cell antigens Biosystems (IF 1.6) Pub Date : 2024-03-06 Mir Tanveerul Hassan, Hilal Tayara, Kil To Chong
The escalating global incidence of cancer poses significant health challenges, underscoring the need for innovative and more efficacious treatments. Cancer immunotherapy, a promising approach leveraging the body’s immune system against cancer, emerges as a compelling solution. Consequently, the identification and characterization of tumor T-cell antigens (TTCAs) have become pivotal for exploration
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Bioinformatics and meta-analysis of expression data to investigate transcriptomic response of wheat root to abiotic stresses Biosystems (IF 1.6) Pub Date : 2024-02-29 Reza Shokri-Gharelo, Morteza Derakhti-Dizaji, Davod Dadashi, Maryam Chalekaei, Ghader Rostami-Tobnag
Abiotic stresses are predominant and main causes of the losses in the crop yield. A complexity of systems biology and involvement of numerous genes in the response to abiotic factors have challenged efforts to create tolerant cultivars with sustainable production. The root is the main organ of the plant and determines a plant tolerance under stressful conditions. In this study, we carried out a meta-analysis
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Early detection of glaucoma integrated with deep learning models over medical devices Biosystems (IF 1.6) Pub Date : 2024-02-28 DilipKumar Jang Bahadur Saini, Siddhartha Choubey, Abha Choubey, Mariyam Kidwai, Monica Mehrotra, Sagar Kolekar, Yudhishthir Raut
The early detection of some diseases can be a decisive factor in postponing or stabilizing their most adverse effects on the people who suffer from them. In the case of glaucoma, which is an ocular pathology that is the second leading cause of blindness in the world, early detection can make the difference between a patient’s complete losses of vision, or preserve their sight, as well as improve their
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Mathematical constraints on a family of biodiversity measures via connections with Rényi entropy Biosystems (IF 1.6) Pub Date : 2024-02-28 Theodore D. Gress, Noah A. Rosenberg
The Hill numbers are statistics for biodiversity measurement in ecological studies, closely related to the Rényi and Shannon entropies from information theory. Recent developments in the mathematics of diversity in the setting of population genetics have produced mathematical constraints that characterize how standard measures depend on the highest-frequency class in a discrete probability distribution
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Synthetic biological neural networks: From current implementations to future perspectives Biosystems (IF 1.6) Pub Date : 2024-02-23 Ana Halužan Vasle, Miha Moškon
Artificial neural networks, inspired by the biological networks of the human brain, have become game-changing computing models in modern computer science. Inspired by their wide scope of applications, synthetic biology strives to create their biological counterparts, which we denote synthetic biological neural networks (SYNBIONNs). Their use in the fields of medicine, biosensors, biotechnology, and
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Characterisation of the fig-fig wasp holobiont Biosystems (IF 1.6) Pub Date : 2024-02-22 Praveen Prathapan
Plants and animals have long been considered distinct kingdoms, yet here a ‘plant-animal’ is described. An extraordinary symbiosis in which neither organism can reproduce without the other, the fig tree () provides the habitat for its exclusive pollinator: the fig wasp (Agaonidae). Characterising the ‘fig-fig wasp holobiont’ acknowledges, for the first time, ‘plant-animal symbiogenesis’.
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An efficient approach for identifying important biomarkers for biomedical diagnosis Biosystems (IF 1.6) Pub Date : 2024-02-22 Jing-Wen Huang, Yan-Hong Chen, Frederick Kin Hing Phoa, Yan-Han Lin, Shau-Ping Lin
In this paper, we explore the challenges associated with biomarker identification for diagnosis purpose in biomedical experiments, and propose a novel approach to handle the above challenging scenario via the generalization of the Dantzig selector. To improve the efficiency of the regularization method, we introduce a transformation from an inherent nonlinear programming due to its nonlinear link function
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Intrinsic growth rate and evolution of the Premnotrypes Vorax population using fuzzy information Biosystems (IF 1.6) Pub Date : 2024-02-21 Élder J. Villamizar-Roa, Leidy V. Espitia-Cruz, Gilberto Arenas-Díaz
The white potato worm (Premnotrypes Vorax (Hustache)) is one of the pests that causes the greatest damage to the potato crop and the greatest economic losses to the grower; therefore, knowing its life cycle and estimating its intrinsic growth rate is crucial for selecting an appropriate chemical control method, in order to reduce the environmental impact and ensure a profitable production suitable
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Life, its definition, origin, evolution, and four-dimensional hierarchical structure Biosystems (IF 1.6) Pub Date : 2024-02-20 George E. Mikhailovsky
The main unique features of biological systems are reviewed, and four necessary and sufficient attributes of life are formulated, based on the ideas of Ervin Bauer. The possibility of the occurrence of each of these attributes during the origin of life is analyzed. As a result, different scenarios for the origin of life are presented, with their pros and cons. Next, the mainstream of biological evolution
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A global solution to a hyperbolic problem for blood flow modelling Biosystems (IF 1.6) Pub Date : 2024-02-20 Nie Dayong
The paper aims to examine the hyperbolic system of equations governing one-dimensional haemodynamics and its relevance in analysing blood flow under mechanical influences, with particular emphasis on the impact of altering the angle of the leg axis. Methods and approaches for solving hyperbolic equations have been developed in light of their properties and characteristics. The primary objective of
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The time of appearance of the genetic code Biosystems (IF 1.6) Pub Date : 2024-02-17 Massimo Di Giulio
I support the hypothesis that the origin of the genetic code occurred simultaneously with the evolution of cellularity. That is to say, I favour the hypothesis that the origin of the genetic code is a very, very late event in the history of life on Earth. I corroborate this hypothesis with observations favouring the progenote's stage for the Last Universal Common Ancestor (LUCA), for the ancestor of
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Collective durotaxis along a self-generated mobile stiffness gradient in vivo Biosystems (IF 1.6) Pub Date : 2024-02-15 Ivana Pajic-Lijakovic, Milan Milivojevic
A crucial aspect of tissue self-organization during morphogenesis, wound healing, and cancer invasion is directed migration of cell collectives. The majority of in vivo directed migration has been guided by chemotaxis, whereby cells follow a chemical gradient. In certain situations, migrating cell collectives can also self-generate the stiffness gradient in the surrounding tissue, which can have a
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Dissipative scaling of development and aging in multicellular organisms Biosystems (IF 1.6) Pub Date : 2024-02-15 Andres Kriete
Evolution, self-replication and ontogenesis are highly dynamic, irreversible and self-organizing processes dissipating energy. While progress has been made to decipher the role of thermodynamics in cellular fission, it is not yet clear how entropic balances shape organism growth and aging. This paper derives a general dissipation theory for the life history of organisms. It implies a self-regulated
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Fractal calculus in tumor growth simulations: The proof is in the pudding Biosystems (IF 1.6) Pub Date : 2024-02-12 Heiko Enderling
Mathematical modeling in oncology has a long history. Recently, mathematical models and their predictions have made inroads into prospective clinical trials with encouraging results. The goal of many such modeling efforts is to make predictions, either to clinician's choice therapy or into “optimal” therapy – often for individual patients. The mathematical oncology community rightfully puts great hope
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Accurate phenotypic self-replication as a necessary cause for biological evolution. Biosystems (IF 1.6) Pub Date : 2024-02-10 Seymour Garte
Since the , it has been known that evolution depends on what Darwin called the “strong principle of inheritance.” Highly accurate replication of cellular phenotype is a universal phenomenon in all of life since LUCA and is often taken for granted as a constant in evolutionary theory. It is not known how self-replication arose during the origin of life. In this report I use the simple mathematics of
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Elucidation of productive alanine recognition mechanism by Escherichia coli alanyl-tRNA synthetase Biosystems (IF 1.6) Pub Date : 2024-02-10 Mayu Onoguchi, Riku Otsuka, Miki Koyama, Tadashi Ando, Hiromi Mutsuro-Aoki, Takuya Umehara, Koji Tamura
Alanyl-tRNA synthetase (AlaRS) incorrectly recognizes both a slightly smaller glycine and a slightly larger serine in addition to alanine, and the probability of incorrect identification is extremely low at 1/300 and 1/170, respectively. Alanine is the second smallest amino acid after glycine; however, the mechanism by which AlaRS specifically identifies small differences in side chains with high accuracy
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Single-cell classification, analysis, and its application using deep learning techniques Biosystems (IF 1.6) Pub Date : 2024-02-09 R. Premkumar, Arthi Srinivasan, K.G. Harini Devi, Deepika M, Gaayathry E, Pramod Jadhav, Abhishek Futane, Vigneswaran Narayanamurthy
Single-cell analysis (SCA) improves the detection of cancer, the immune system, and chronic diseases from complicated biological processes. SCA techniques generate high-dimensional, innovative, and complex data, making traditional analysis difficult and impractical. In the different cell types, conventional cell sequencing methods have signal transformation and disease detection limitations. To overcome
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STIM1 regulates pancreatic β-cell behaviour: A modelling study Biosystems (IF 1.6) Pub Date : 2024-02-08 Hugo Enrique Romero-Campos, Geneviève Dupont, Virginia González-Vélez
Pancreatic β-cells are equipped with the molecular machinery allowing them to respond to high glucose levels in the form of electrical activity and Ca oscillations. These oscillations drive insulin secretion. Two key ionic mechanisms involved in this response are the Store-Operated Current and the current through ATP-dependent K channels. Both currents have been shown to be regulated by the protein
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The tri-flow adaptiveness of codes in major evolutionary transitions Biosystems (IF 1.6) Pub Date : 2024-02-08 Chris Girard
Life codes increase in both number and variety with biological complexity. Although our knowledge of codes is constantly expanding, the evolutionary progression of organic, neural, and cultural codes in response to selection pressure remains poorly understood. Greater clarification of the selective mechanisms is achieved by investigating how major evolutionary transitions reduce spatiotemporal and
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Memory induced-mechanism of noise attenuator of myosin V molecular motors Biosystems (IF 1.6) Pub Date : 2024-02-07 Xin Zhang, Sizhe Wang, Jingwen Zhang, Haohua Wang
Depending on the chemical energy from ATP hydrolysis, myosin V can drive the multistep and continuous coupled cycling process to transport cellular cargo to targeted regions. However, it is still obscure how the molecular memory induced by the multistep coupled transported process could regulate the dynamic behavior of the motor state of myosin V. Here, we propose a novel non-Markovian polymorphic
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Proton-polarized states in DNA Biosystems (IF 1.6) Pub Date : 2024-02-07 Mariusz Pietruszka, Marek Marzec
We observed signatures of a phase transition in the double-stranded DNA fragment of known length and sequences using a non-invasive semiconductor-electrolyte interface technique and statistical physics methods. Observations revealed a coherence peak in the electromotive force and a significant decline in calculated dynamic entropy at a critical temperature and pH. This behavior may arise from the dynamic
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Temporal regulation of gene expression and pathways in chemotherapy-induced senescence in HeLa cervical cancer cell line Biosystems (IF 1.6) Pub Date : 2024-02-07 Ceren Sucularli, Yaprak Dilber Şimay Demir, Aysun Özdemir, Mustafa Ark
Cellular senescence is the state of permanent growth arrest. Chemotherapeutic drugs induce senescence, known as therapy-induced senescence. Although there are studies deciphering processes in senescence, more studies providing detailed information on therapy-induced senescence at the transcriptome level are needed. In order to understand temporal molecular changes of doxorubicin treatment in the course
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Capsule formation induced by flow Biosystems (IF 1.6) Pub Date : 2024-02-05 Shunsuke Ito, Shigeru Sakurazawa
Physical compartments are essential for the origin of life. While lipid vesicles are commonly regarded as precursors of cell membranes, we propose a simpler and more primitive model based on proteinoids. Proteinoids are macromolecules formed by the thermal polymerization of amino acids, mimicking primitive proteins. They self-assemble into spherical microspheres in water. Under a temperature gradient
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Significance of genetic code module structure in gene expression and GC content enhancement in RNA sequences Biosystems (IF 1.6) Pub Date : 2024-02-04 Devangi Sojitra, Minakshi Biswas Hathiwala, Gautam Hathiwala, Ashok Kumar Bishoyi
The existent algebraic models of the genetic code contribute to the understanding of the physio-chemical characteristics of the amino acids. However, the process of translating a gene into a phenotype is highly complex. Moreover, the intricacy of gene expression gets further multiplied due to the biases in the codon usage. This paper explores an algebraic structure called module on the set of codons
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Coupling and biological free-energy transduction processes as a bridge between physics and life: Molecular-level instantiation of Ervin Bauer’s pioneering concepts in biological thermodynamics Biosystems (IF 1.6) Pub Date : 2024-01-30 Sunil Nath
The nonequilibrium coupled processes of oxidation and ATP synthesis in the biological process of oxidative phosphorylation (OXPHOS) are fundamental to all life on our planet. These steady-state energy transduction processes ‒ coupled by proton and anion/counter-cation concentration gradients in the OXPHOS pathway ‒ generate ∼95 % of the ATP requirement of aerobic systems for cellular function. The
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A novel approach to encode melodies in DNA Biosystems (IF 1.6) Pub Date : 2024-02-03 Olga Yu Kiryanova, Ravil R. Garafutdinov, Irek M. Gubaydullin, Alexey V. Chemeris
DNA data storage has gained more attention last decades. DNA molecules can be used for encoding of non-biological information and as promising carriers due to greater data capacity, higher duration of the storage, and better technical failures stability. Here we propose a new method for encoding of notes and music in DNA. The encoding technique takes into account the duration and tonality of each note
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Operator model for evolutionary dynamics Biosystems (IF 1.6) Pub Date : 2024-02-01 Kangbien Park, Yonghee Bae
Drift, selection, and mutation are integral evolutionary factors. In this article, is newly suggested to intuitively represent those evolutionary factors into mathematical operators, and to ultimately offer unconventional methodology for understanding evolutionary dynamics. To be specific, each of the drift, selection, and mutation was respectively interpreted as operator which in essence is a random
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Primal awareness, evolutionary restriction, life and the origin of quantum mechanics Biosystems (IF 1.6) Pub Date : 2024-01-29 Ron Cottam, Roger Vounckx
We consider resemblances between humans and other species, without adopting categorical positions of either anthropomorphism or anti-anthropomorphism. Our target in doing so is to present a basis for the suggestion of a common ancestor for the similar or differing capabilities exhibited by different species. We propose that individual species exhibit a species-specific selection within what we describe
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A Data-Distribution and Successive Spline Points based discretization approach for evolving gene regulatory networks from scRNA-Seq time-series data using Cartesian Genetic Programming Biosystems (IF 1.6) Pub Date : 2024-01-24 José Eduardo H. da Silva, Patrick C. de Carvalho, José J. Camata, Itamar L. de Oliveira, Heder S. Bernardino
The inference of gene regulatory networks (GRNs) is a widely addressed problem in Systems Biology. GRNs can be modeled as Boolean networks, which is the simplest approach for this task. However, Boolean models need binarized data. Several approaches have been developed for the discretization of gene expression data (GED). Also, the advance of data extraction technologies, such as single-cell RNA-Sequencing
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A new method: Characterize and quantify biofilm wrinkles by UNet and Sholl Analysis Biosystems (IF 1.6) Pub Date : 2024-01-28 Xiaolei Cao, Tiecheng Zhang, Cong Tao, Yifan Ren, Xiaoling Wang
The wrinkles on the biofilm contain a lot of information about biofilm growth, so it is essential to characterize and quantify these wrinkles from the original microscopic images to discover more rules governing the biofilm morphology evolution. However, the existing methods to extract the wrinkles are time-consuming, error-prone, and require manual calibration. We propose a new system: using a deep
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Using steady-state formula to estimate time-dependent parameters of stochastic gene transcription models Biosystems (IF 1.6) Pub Date : 2024-01-26 Congrun Zhang, Feng Jiao
When studying stochastic gene transcription, it is important to understand how system parameters are temporally modulated in response to varying environments. Experimentally, the dynamic distribution data of RNA copy numbers measured at multiple time points are often fitted to stochastic transcription models to estimate time-dependent parameters. However, current methods require determining which parameters
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Natural gradient ascent in evolutionary games Biosystems (IF 1.6) Pub Date : 2024-01-23 Vladimir Jaćimović
We consider evolutionary games with a continuous trait space where the replicator dynamics are restricted to the manifold of multivariate Gaussian distributions. We demonstrate that replicator dynamics are gradient flows with respect to the Fisher information metric. The potential function for these gradient flows is closely related to the mean fitness. Our findings extend previous results on natural
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2022 IEEE conference on computational intelligence in bioinformatics and computational biology (IEEE CIBCB, 2022) Biosystems (IF 1.6) Pub Date : 2024-01-25 Joseph Alexander Brown, Sheridan Houghten, Gary B. Fogel
Abstract not available
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Influence analysis of network evolution on Parrondo effect Biosystems (IF 1.6) Pub Date : 2024-01-18 Ye Ye, Zhuo-yuan Zhai, Xiao-Rong Hang, Neng-gang Xie
Parrondo's paradox is a scheme used to describe an interesting paradoxical situation that a losing Game A and a losing Game B played randomly or periodically will produce a winning result. Here, a dynamic process of network evolution of Link A + Game B is proposed to yield the Parrondo effect. Game B with two asymmetric branches depends on the relative comparison between the capital of the network
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Systems theory, thermodynamics and life: Integrated thinking across ecology, organization and biological evolution. Biosystems (IF 1.6) Pub Date : 2024-01-19 Keith R. Skene
In this paper we explore the relevance and integration of system theory and thermodynamics in terms of the Earth system. It is proposed that together, these fields explain the evolution, organization, functionality and directionality of life on Earth. We begin by summarizing historical and current thinking on the definition of life itself. We then investigate the evidence for a single unit of life
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Network-based identification of diagnosis-specific trans-omic biomarkers via integration of multiple omics data Biosystems (IF 1.6) Pub Date : 2024-01-08 Md Mamunur Rashid, Momoko Hamano, Midori Iida, Michio Iwata, Toshiyuki Ko, Seitaro Nomura, Issei Komuro, Yoshihiro Yamanishi
The integration of multiple omics data promises to reveal new insights into the pathogenic mechanisms of complex human diseases, with the potential to identify avenues for the development of targeted therapies for disease subtypes. However, the extraction of diagnostic/disease-specific biomarkers from multiple omics data with biological pathway knowledge is a challenging issue in precision medicine
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Dynamics, synchronization and traveling wave patterns of flux coupled network of Chay neurons Biosystems (IF 1.6) Pub Date : 2023-12-29 Dianavinnarasi Joseph, Rakshanaa Kumar, Anitha Karthikeyan, Karthikeyan Rajagopal
Studies in the literature have demonstrated the significance of the synchronization of neuronal electrical activity for signal transmission and information encoding. In light of this importance, we investigate the synchronization of the Chay neuron model using both theoretical analysis and numerical simulations. The Chay model is chosen for its comprehensive understanding of neuronal behavior and computational
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Neural networks from biological to artificial and vice versa Biosystems (IF 1.6) Pub Date : 2024-01-02 Abdullatif Baba
In this paper, we examine how deep learning can be utilized to investigate neural health and the difficulties in interpreting neurological analyses within algorithmic models. The key contribution of this paper is the investigation of the impact of a dead neuron on the performance of artificial neural networks (ANNs). Therefore, we conduct several tests using different training algorithms and activation
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Effect of the electromagnetic induction in the electrical activity of the Kazantsev model of inferior Olive Neuron model Biosystems (IF 1.6) Pub Date : 2024-01-02 M.R. Tchuisseuh, A.C. Chamgoué, F.M. Moukam Kakmeni
In this paper, based on the four variables Kazantsev et al. inferior olive neuron (ION) dynamic equations, a five variables neuron model is designed to describe the effect of electromagnetic induction in ION activities. Within the new ION model, the effect of magnetic flow on membrane potential is described by imposing additive memristive current in the master block of the Kasantsev et al. neuron model
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Homeostasis and information processing: The key frames for the thermodynamics of biological systems Biosystems (IF 1.6) Pub Date : 2023-12-30 Eduardo Mizraji
Life is a natural phenomenon ineluctably subject to the laws and principles of physics. In this framework, thermodynamics has a crucial role, since living beings are structured on a molecular and cellular basis that can only be maintained with extensive energy consumption. This imposes that living beings are necessarily open systems. But the survival of each type of organism depends on the relative
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A simple and fast ANN-based method of studying slow-wave sleep microstructure in freely moving rats Biosystems (IF 1.6) Pub Date : 2023-12-25 Dmitrii Perevozniuk, Ivan Lazarenko, Nadezhda Semenova, Evgenia Sitnikova
Electroencephalography (EEG) is a common technique for measuring brain activity. Artificial Neuronal Networks (ANNs) can provide valuable insights into the brain dynamics of humans and animals. We built a simple and fast shallow ANN-based solution for sleep recognition in EEGs recorded in freely moving rats. The ANN was constructed using open-source software and truncated to one formula with empirically
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A method for the systematic selection of enzyme panel candidates by solving the maximum diversity problem Biosystems (IF 1.6) Pub Date : 2023-12-29 Christian Atallah, Katherine James, Zhen Ou, James Skelton, David Markham, Matt S. Burridge, James Finnigan, Simon Charnock, Anil Wipat
Enzymes are being increasingly exploited for their potential as industrial biocatalysts. Establishing a portfolio of useful biocatalysts from large and diverse protein family is challenging and a systematic method for candidate selection promises to aid in this task. Moreover, accurate enzyme functional annotation can only be confidently guaranteed through experimental characterisation in the laboratory
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Impacts of aging on circadian rhythm and related sleep disorders Biosystems (IF 1.6) Pub Date : 2023-12-29 Ying Li, YuanYuan Tan, Zhao Zhao
Circadian rhythm is an essential component of biology that organizes the internal synchrony of the organism in response to the environment. Aging significantly impacts circadian rhythm and is also associated with specific sleep complaints in mammals, including earlier awakening and decreased sleep consolidation at the end of the night. However, the regulation mechanism of aging on the circadian rhythm
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Continuity and discontinuity in evolutionary processes with emphasis on plants Biosystems (IF 1.6) Pub Date : 2023-12-28 Hector J. Tapia, Patricia Dávila
The present work is aimed to review the concepts of continuity and discontinuity in the reproductive processes and their impact on the evolutionary outcome, emphasizing on the plant model. Let be stated that evolutionary changes need to pass down generation after generation through the cellular reproductive mechanisms, and these mechanisms can account for changes from single nucleotide to genome-wide
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Principles of cognitive biology and the concept of biocivilisations Biosystems (IF 1.6) Pub Date : 2023-12-27 Predrag Slijepcevic
A range of studies published in the last few decades promotes the cognitive aspects of life: all organisms, from bacteria to mammals, are capable of sensing/perception, decision-making, problem-solving, learning, and other cognitive functions, including sentience and consciousness. In this paper I present a scientific and philosophical synthesis of these studies, leading to an integrated view of cognitive
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Modelling the structure and evolution of cultural information as quasispecies Biosystems (IF 1.6) Pub Date : 2023-12-20 David S. Stevenson
We present a novel mode of cultural evolution whereby some forms of transmission may be modelled as quasispecies. The model incorporates the effect of high rates of error in certain forms of communication; while also building on the structural similarities between biological molecules and written language. Firstly, both written language and key biological molecules, such as RNA and proteins, are modular
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Fungal skin for robots Biosystems (IF 1.6) Pub Date : 2023-12-19 Antoni Gandia, Andrew Adamatzky
Advancements in mycelium technology, stemming from fungal electronics and the development of living mycelium composites and skins, have opened new avenues in the fusion of biological and artificial systems. This paper explores an experimental endeavour that successfully incorporates living, self-regenerating, and reactive Ganoderma sessile mycelium into a model cyborg figure, creating a bio-cybernetic
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From reinforcement learning to agency: Frameworks for understanding basal cognition Biosystems (IF 1.6) Pub Date : 2023-12-19 Gabriella Seifert, Ava Sealander, Sarah Marzen, Michael Levin
Organisms play, explore, and mimic those around them. Is there a purpose to this behavior? Are organisms just behaving, or are they trying to achieve goals? We believe this is a false dichotomy. To that end, to understand organisms, we attempt to unify two approaches for understanding complex agents, whether evolved or engineered. We argue that formalisms describing multiscale competencies and goal-directedness
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Exploring natural anthraquinones as potential MMP2 inhibitors: A computational study Biosystems (IF 1.6) Pub Date : 2023-12-18 Shokoofeh Jamshidi, Ali Rostami, Setareh Shojaei, Amir Taherkhani, Heshmatollah Taherkhani
Objective Matrix metalloproteinase-2 (MMP2) plays a significant role in cleaving extracellular matrix components, leading to many cancer cells' progression and invasion behavior. Therefore, MMP2 inhibition may hold promise for cancer treatment. Anthraquinones have shown antineoplastic effects, some of which have been used in clinical practice as anticancer drugs. This study used a computational drug
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Concordant dynamic changes of global network properties in the frontoparietal and limbic compartments: An EEG study Biosystems (IF 1.6) Pub Date : 2023-12-14 Tien-Wen Lee, Gerald Tramontano, Clay Hinrichs
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The calculus of codes - From entropy, complexity, and information to life Biosystems (IF 1.6) Pub Date : 2023-12-13 Omar Paredes, Enrique Farfán-Ugalde, Carolina Gómez-Márquez, Ernesto Borrayo, Adriana P. Mendizabal, J. Alejandro Morales
Exploring the core components that define living systems and their operational mechanisms within emerging biological entities is a complex endeavor. In the realm of biological systems literature, the terms matter, energy, information, complexity, and entropy are frequently referenced. However, possessing these concepts alone does not guarantee a comprehensive understanding or the ability to reconstruct