• Other models are more detailed and account for sub-cellular processes. (wikipedia.org)
  • While efforts have been made in this direction to reduce model complexity, they often prove insufficient to grasp which and when model processes play a crucial role. (springer.com)
  • We detect model processes that are always inactive , or inactive on some time interval. (springer.com)
  • Eliminating these processes reduces the complex dynamics of the original model to the much simpler dynamics of the core processes, in a succession of sub-models that are easier to analyse. (springer.com)
  • Mathematical modelling has been used for decades as an approach to understand the functioning of biological systems in terms of their internal processes and components. (springer.com)
  • Complexity arises from the high dimension of the networks, the large number of biological processes involved and their non linearity due to the complex feedback loops that regulate them. (springer.com)
  • Reduction approaches have proven successful to significantly reduce model complexity, but they do not provide a mean to understand how the system dynamics emerges from the cascade of biological processes and regulatory mechanisms at work. (springer.com)
  • The course focuses on mathematical modelling and computer simulation of nerve cells, neuronal networks and other physiological and biochemical structures and processes. (kth.se)
  • This paper gives a brief survey of the use of algebraic rewriting systems for modelling and simulating various biological processes, particularly at the cellular level. (hindawi.com)
  • Part A consists of original research articles, which can be roughly grouped into four thematic areas: (i) branching processes, especially as models for cell kinetics, (ii) multiple testing issues as they arise in the analysis of biologic data, (iii) applications of mathematical models and of new inferential techniques in epidemiology, and (iv) contributions to statistical methodology, with an emphasis on the modeling and analysis of survival time data. (springer.com)
  • The simple algebraic construction of this model affords a systematic analysis of the contribution of stochastic and nonlinear processes to cortical rhythms, complementing a recently proposed biophysical model. (plos.org)
  • To illustrate its unifying potential, this simple model is applied to two very distinct biological processes - the spontaneous activity of the human cortex (i.e. when subjects are at rest), and genetic regulation in a bacteriophage. (plos.org)
  • Multistable dynamics and scale-invariant fluctuations are two complex dynamical processes whose presence in a wide variety of biological organisms suggests an adaptive role where they occur. (plos.org)
  • Model-based simulations of processes are used to explore hitherto unforeseen features and thereby suggest further profitable lines of both experimentation and theoretical study. (google.co.uk)
  • The model helps train our intuition about other more complex evolutionary processes. (eurekalert.org)
  • We develop methods and computational tools for understanding, modelling and simulating various biological and physiological processes and their applications in bio-inspired electronic systems. (imperial.ac.uk)
  • This thesis primarily aimed to improve the mechanistic understanding and the predictability of processes involved in the absorption of orally administered drugs using a population modeling approach. (diva-portal.org)
  • With the advent in the advances of supercomputers, most challenges in understanding the complexities of biological networks and processes occurring in the human body can now be understood. (igi-global.com)
  • The research is part of a burgeoning discipline called "quantum biology," which taps the skyrocketing power of today's high-performance computers to precisely model complex biological processes. (nanowerk.com)
  • The present thesis is concerned with hybrid stochastic models of spatio-temporal dynamics of biological excitable membranes using Piecewise Deterministic Markov Processes (PDMPs). (bl.uk)
  • Firstly, we consider the approximation of PDMPs by deterministic models or continuous stochastic processes. (bl.uk)
  • Whereas the latter connects the stochastic fluctuations in the hybrid models to diffusion processes. (bl.uk)
  • This new photosynthesis-nutrient (PN) model was then investigated, validated and determined capable of predicting growth characteristics dependent on both nutrient and photosynthetic processes. (bl.uk)
  • theoretical representations that simulate the behaviour or activity of biological processes or diseases . (biology-online.org)
  • Modeling the kinetics of the processes that represent a biophysical system has long been pursued with the aim of improving our understanding of the studied system. (pubmedcentralcanada.ca)
  • Due to the unique properties of biological systems, in addition to the usual difficulties faced in modeling the dynamics of physical or chemical systems, biological simulations encounter difficulties that result from intrinsic multiscale and stochastic nature of the biological processes. (pubmedcentralcanada.ca)
  • Although kinetic modeling and the underlying fundamental mathematics are used in vastly different fields of science and engineering, here we will concentrate on biological kinetic networks which model cellular activities as a set of reaction processes. (pubmedcentralcanada.ca)
  • One of the most important aspects for all life on this planet is the act to keep their biological processes in a state where they do not reach equilibrium. (diva-portal.org)
  • Develop a model that identifies specific parts and describes specific processes in a multicellular organism. (teacherspayteachers.com)
  • The goal of this research is to investigate relationships between graphs and finite metric spaces and thereby provide a mathematical foundation of distance-based graph theoretical modelling of various biological processes, such as cellular differentiation and viral evolution. (go.jp)
  • Studies of bioinformatics develop methods and software tools to analyze biological data and provide insight of the mechanisms of biological processes. (sc.edu)
  • Delayed processes are ubiquitous in biological systems and are often characterized by delay differential equations (DDEs) and their extension to include stochastic effects. (rice.edu)
  • The fusion of empirical science with large-scale computing platforms has allowed rapid advances in our ability to model physiological and pathophysiological processes in silico. (sciencemag.org)
  • To date, a key challenge has been to identify the biological processes or signaling pathways that play significant roles in the disorder. (harvard.edu)
  • Taken together, the results illustrate the benefits of integrating high-throughput microarray studies, together with protein-protein interaction networks, in elucidating the underlying biological processes associated with a complex disorder. (harvard.edu)
  • Moreover, even rather coarse simulations of the biological evolutionary processes result in adaptable control systems that are considerably more efficient than those designed by human researchers. (royalsocietypublishing.org)
  • Understanding the dynamical behaviour of biological systems is challenged by their large number of components and interactions. (springer.com)
  • In conclusion, Principal Process Analysis is a simple-to-use method, which constitutes an additional and useful tool for analysing the complex dynamical behaviour of biological systems. (springer.com)
  • This paper is concerned with stability analysis of biological networks modeled as discrete and finite dynamical systems. (springer.com)
  • Systems that require a driving force of some kind are very common in physical and biological settings. (uleth.ca)
  • In this talk we survey work being conducted at the Centre for Integrative Systems Biology at Imperial College on the use of machine learning to build models of biochemical pathways. (inria.fr)
  • Within the area of Systems Biology these models provide graph-based descriptions of bio-molecular interactions which describe cellular activities such as gene regulation, metabolism and transcription. (inria.fr)
  • Interacting particle systems are a powerful mathematical tool for stochastic modeling of systems whose microscopic dynamics can be represented by the local interactions of a collection of discrete entities or agents with discrete internal states. (warwick.ac.uk)
  • This two-day inter-disciplinary workshop will bring together researchers from the physical, biological and social sciences along with experts on the mathematical theory of interacting particle systems. (warwick.ac.uk)
  • We present example pathway models that illustrate of the power of approach to depict a diverse range of systems. (plos.org)
  • Diagrams continue to form the bedrock of our efforts to communicate ideas about the complexity of biological systems and pathways. (plos.org)
  • Foundation courses use innovative teaching methods for interdisciplinary research to provide essential background knowledge in computational, mathematical and physical techniques and a broad introduction to core biological concepts and systems. (ucl.ac.uk)
  • This book covers the latest research work done in the area of interface mechanics of collagen and chitin-based biomaterials along with various techniques that can be used to understand mechanics of biological systems and materials. (worldcat.org)
  • Topics covered include Raman spectroscopy of biological systems, scale dependence of the mechanical properties and microstructure of crustaceans thin films as biomimetic materials, as well as the role of molecular-level modeling. (worldcat.org)
  • Reviews exhaustively phenomenological models and Raman spectroscopy of biological systems? (worldcat.org)
  • Spectroscopic Experiments: A Review of Raman Spectroscopy of Biological Systems. (worldcat.org)
  • Multistability and scale-invariant fluctuations occur in a wide variety of biological organisms from bacteria to humans as well as financial, chemical and complex physical systems. (plos.org)
  • Biological systems are able to adapt to rapidly and widely changing environments. (plos.org)
  • In this paper, we study a simple class of noisy, dynamical systems that mathematically represent a very broad range of more complex models. (plos.org)
  • Freyer F, Roberts JA, Ritter P, Breakspear M (2012) A Canonical Model of Multistability and Scale-Invariance in Biological Systems. (plos.org)
  • Biological systems are optimized to survive in environments whose properties may vary greatly, such as changes in the biochemical environment of bacteria across several orders of magnitude, or even qualitatively, such as seasonal variations that banish food sources and prohibit foraging behavior in some mammalian species. (plos.org)
  • Investigating Biological Systems Using Modeling describes how to apply software to analyze and interpret data from biological systems. (researchandmarkets.com)
  • This modeling framework could be used in combination with systems pharmacology models to predict the drug-drug interactions and food effects associated with gastric emptying, as well as to link the postprandial changes in plasma bile acid concentrations to the variability in drugs' absorption. (diva-portal.org)
  • Supercomputers in Modeling of Biological Systems. (igi-global.com)
  • Modeling of biological systems has become an important facet in today's scientific community because it has aided in the simulation of the minute biological entities comprising a living individual. (igi-global.com)
  • These scaffold systems will have a range of applications but are particularly applicable to growth of retinal models, which will form platforms for computational modelling of brain signal processing, as well as learning and adaptation. (ntu.ac.uk)
  • Overall the project will involve use of artificial and computational intelligence techniques, neural network based modelling, including probabilistic neural network systems and researching computational approaches for studying synaptic modification utilising computational neuroscience learning spike sorting algorithms. (ntu.ac.uk)
  • Until recently, scientists could not apply quantum mechanics to biological systems because of the large numbers of atoms involved. (nanowerk.com)
  • The additional computing power will allow them to model complex biological systems with even greater accuracy: "The more atoms you include, the more accurate your system," Shemella said. (nanowerk.com)
  • However, the complexity of biological systems has long prevented their description using general theoretical concepts taken from the physical sciences. (theengineer.co.uk)
  • A large number of biological systems are intrinsically random, in particular, biological excitable membranes, such as neuronal membranes, cardiac tissue or models for calcium dynamics. (bl.uk)
  • The former establishes a connection of stochastic hybrid models to deterministic models given, e.g., by systems of partial differential equations. (bl.uk)
  • The famous quip of Monod that "… anything found to be true of E [ scherichia ] coli must also be true of elephants" reflects the widely held belief that the attention and resources of researchers are most effectively focused on a few wisely chosen "model systems" ( 1 ). (pnas.org)
  • The first half of the 20th century, dominated by studies of physiology and biochemistry, saw a relative diversity of model systems. (pnas.org)
  • In the modern era, the limitations imposed by the availability of precious molecular resources such as antibodies or gene clones (and until very recently, of whole genome sequences) have keenly sharpened the emphasis on a few "mainstream" model systems. (pnas.org)
  • This chapter discusses the implications for simulation of models involving interacting species with very low copy numbers, which often occur in biological systems and give rise to significant relative fluctuations. (pubmedcentralcanada.ca)
  • How the well-organized structural hierarchies often seen in biological systems can lead to multiscale problems, and possible ways to address the encountered computational difficulties are discussed. (pubmedcentralcanada.ca)
  • Although there are many commonalities, two aspects, in particular, distinguish biological networks from networks found in other fields: Firstly, in biological systems, copy numbers of many species are very low, which can give rise to significant relative fluctuations. (pubmedcentralcanada.ca)
  • Secondly, biological systems tend to have well-organized structural hierarchies. (pubmedcentralcanada.ca)
  • The enormous challenge posed by the complexity of biological systems represents a potential intellectual impasse to researchers and threatens to stall future progress in basic biology and healthcare. (ddw-online.com)
  • Modelling can provide the kind of intellectual frameworks needed to transform data into knowledge, yet very few modelling methodologies currently exist that are applicable to the large, complex systems of interest to biologists. (ddw-online.com)
  • Early developments in biological modelling, driven largely by the convergence in systems biology of complementary approaches from other disciplines, hold the potential to forge a knowledge revolution in biology and to bring modelling into the mainstream of biological research in the way that it is in other fields. (ddw-online.com)
  • This will require the development of modelling platforms that allow biological systems to be described using idioms familiar to biologists, that encourage experimentation and that leverage the connectivity of the internet for scientific collaboration and communication. (ddw-online.com)
  • There are some very good reasons for this, not the least of which is that the systems of interest to biologists tend to be far more refractory to modelling than the systems that are studied in these other fields. (ddw-online.com)
  • However, at the more macroscopic scales at which these systems can be studied as 'biological' entities, the researcher is confronted with an enormous number of moving parts, a web of interactions of astronomical complexity, significant heterogeneity between the many 'copies' of the system and a degree of stochasticity that challenges any intuitive notion of how living systems function, let alone survive and thrive in hostile environments. (ddw-online.com)
  • Modeling biological systems can prov. (bio-medicine.org)
  • Modeling biological systems can provide key insights for scientists an. (bio-medicine.org)
  • Modeling biological systems can provide key insights for scientists and medical researchers, but periodic cycles that repeat themselves so-called oscillatory systems pose some key challenges. (bio-medicine.org)
  • The method we've developed should expedite the development of more accurate parameters, which can be used to create more precise and predictable models of oscillatory biological systems. (bio-medicine.org)
  • 2006. Effects of variable winds on biological productivity on continental shelves in coastal upwelling systems. (tos.org)
  • Scientists at Washington State University-Tri Cities and the Pacific Northwest National Laboratory are modeling electron energy deposition patterns as produced by the electron microbeam developed at PNNL to determine how it may be used in the study of more complex biological systems. (phys.org)
  • This plethora of data can now be organized into a coherent model that precisely describes the structure of cells and enables computer simulations and analysis of the systems. (europa.eu)
  • Building highly detailed computer models of biological systems is a laborious and difficult endeavor. (europa.eu)
  • The EU-funded AMBiCon project ("Automated multi-level modeling of biological systems considering physico-chemical constraints") has been established as a collaborative effort between the University of California, San Diego, USA, and the University of Tuebingen, Germany with the aim to develop and provide computational tools that facilitate such efforts. (europa.eu)
  • As a result, progress has been achieved on multiple crucial cornerstones as the following numbers outline: 17 articles were published in reputable scientific journals and two within a Springer encyclopedia on systems biology, two new modeling standards were released for the file format SBML (Systems Biology Markup Language), 19 software releases were developed, including new software and improved versions of existing tools. (europa.eu)
  • Dr. Dräger contributed to establishing the new scientific Special Interest Group (SIG) SysMod about systems modeling as part of the ISMB (annual international conference on Intelligent Systems in Molecular Biology). (europa.eu)
  • In this work we study three systems of biological interest: the translocation of a heterogeneously charged polymer through an infinitely thin pore, the wrapped of a rigid particle by a soft vesicle and the modification of the dynamical properties of a gel due to the presence of rigid inclusions. (umass.edu)
  • as well as new approaches to model marine systems have emerged, altering the way we think about modeling the plankton. (frontiersin.org)
  • Trait-based modeling and size-based scaling approaches have emerged as fruitful approaches, in some marine systems, to categorizes biological entities by their ecological meaningful characteristic ( Litchman and Klausmeier, 2008 ). (frontiersin.org)
  • Oscillations and rhythms in biological systems-glycolysis, intracellular calcium, cellular cycles, Modeling Neuronal behavior. (amrita.edu)
  • In this paper I shall describe some of the aspects of these biological models that are likely to be useful for building robot control systems. (royalsocietypublishing.org)
  • Models of neural computation are attempts to elucidate, in an abstract and mathematical fashion, the core principles that underlie information processing in biological nervous systems, or functional components thereof. (wikipedia.org)
  • The rate of information processing in biological neural systems are constrained by the speed at which an action potential can propagate down a nerve fibre. (wikipedia.org)
  • Linear systems are easier to analyze mathematically and are a persuasive assumption in many models including the McCulloch and Pitts neuron, population coding models, and the simple neurons often used in Artificial neural networks. (wikipedia.org)
  • The unit will also introduce time series analysis, Bayesian approaches to modelling data, and simulation models including explicitly spatial and individual-based models. (edu.au)
  • Results of the computer simulation suggest that the skin-tissue model epidermis can be irradiated without significant exposure to the dermal layer. (phys.org)
  • 2011. "Simulation of Electron-Beam Irradiation of Skin Tissue Model. (phys.org)
  • The methods illustrated in this whitepaper are applicable to almost any modeling and simulation (M&S) study involving large numbers of variables with many levels. (jmp.com)
  • Modeling & Simulation of Biological Syst. (coursehero.com)
  • tackle the challenge of modeling mixotrophy, proposing modifications to one of the classic approaches to modeling plankton, the Shuter approach ( Shuter, 1979 ), that enables the simulation of the two main groups of mixotrophs, namely of the constitutives ("phytoplankton that eat") and non-constitutives ("microzooplankton that photosynthesizes") growing in the North Sea. (frontiersin.org)
  • We quantify by means of global relative errors the extent to which the simplified models reproduce the main features of the original system dynamics and apply global sensitivity analysis to test the influence of model parameters on the errors. (springer.com)
  • The analysis of the sub-model dynamics allows us to identify the source of circadian oscillations. (springer.com)
  • From the dynamics of molecular walkers to the growth of atomic clusters on substrates to the spread of ideas or contagion on social networks, such models are becoming increasingly important throughout the quantitative sciences. (warwick.ac.uk)
  • This IMA Volume in Mathematics and its Applications COMPUTATIONAL MODELING IN BIOLOGICAL FLUID DYNAMICS is based on the proceedings of a very successful workshop with the same title. (springer.com)
  • Willard Miller, Jr., Professor and Director Institute for Mathematics and its Applications University of Minnesota 400 Lind Hall, 207 Church St. SE Minneapolis, MN 55455-0436 612-624-6066, FAX 612-626-7370 [email protected] World Wide Web: http://www.ima.umn.edu v PREFACE A unifying theme in biological fluid dynamics is the interaction of moving, elastic boundaries with a surrounding fluid. (springer.com)
  • Travelling wave solutions of the space and time fractional models for non-linear blood flow in large vessels and Deoxyribonucleic acid (DNA) molecule dynamics defined in the sense of Jumarie's modified Riemann-Liouville derivative via the first integral method are presented in this study. (aimsciences.org)
  • Similar dynamics also occur in a kinetic model of gene regulation, suggesting universality across a broad class of biological phenomena. (plos.org)
  • This volume develops a unifying approach to population studies that emphasizes the interplay between modeling and experimentation and that will provide mathematicians and biologists with a framework within which population dynamics can be fully explored and understood. (google.co.uk)
  • The model was further used in combination with anatomical tablet location data to predict the in vivo erosion dynamics. (diva-portal.org)
  • Qualitative models of dynamics of signalling pathways and gene regulatory networks allow to capture temporal properties of biological networks while requiring few parameters. (archives-ouvertes.fr)
  • Additionally an investigation into the factors which may influence the results when using computational fluid dynamics (CFD) to model the flow field within a gas-lift bioreactor was performed. (bl.uk)
  • Moving from basin scales to local scales, we show how atmospheric, physical oceanographic, and biological dynamics interact to create long-term fluctuations in the dynamics of the California Current ecosystem. (tos.org)
  • Additionally, different explicit models with qualitatively different dynamics can give rise to the same DDEs revealing important ambiguities. (rice.edu)
  • We present three classic host-parasitoid models, whose local stability properties have been extensively studied in the past, but whose chaotic dynamics have not previously been explored. (royalsocietypublishing.org)
  • Accordingly, an important aspect of biological neuron models is experimental validation, and the use of physical units to describe the experimental procedure associated with the model predictions. (wikipedia.org)
  • Here, we describe a modelling framework that consists of a formalised graphical language that supports the depiction of complex biological interactions and molecules, allowing the creation of detailed models of events based on known information. (plos.org)
  • Monitoring individual apples made it possible to include and describe the biological variance of colour in batches of apples and to extract information on chilling injury, as a process active at 1 °C. All variations could be attributed to a single source related to the amount of yellowing compounds at the moment of harvest, indicating differences in state of maturity between individual apples. (ingentaconnect.com)
  • In this paper, we describe a method to reduce a qualitative model for enhancing the tractability of analysis of transient reachability properties. (archives-ouvertes.fr)
  • An attractive variant of these models uses a Voronoi tessellation to describe the cells, which reduces the number of degrees of freedom as compared the original vertex model. (rsc.org)
  • A new dynamical model has been developped to describe microalgal growth in a photobioreactor under light and nitrogen limitations. (inria.fr)
  • With massive increases in the availability of ecological and other kinds of biological data, skill in developing models to describe and understand relationships in data and extrapolate beyond existing data, and an understanding of the nuances of particular kinds of data, is fundamental in modern biological research. (edu.au)
  • Here, we describe how models have been used to gain understanding of the physical-biological couplings leading to decadal changes in the southern California Current ecosystem. (tos.org)
  • PLOS One, 2013] and two random walk models that were proposed to describe the data. (arxiv.org)
  • Hence, phenomenological models are often developed that describe the effective relationships among the circuit inputs, outputs, and only the key states and parameters. (caltech.edu)
  • A computational neural model may be constrained to the level of biochemical signalling in individual neurons or it may describe an entire organism in its environment. (wikipedia.org)
  • These findings raise the possibility that alpha-syn may contribute to the cascade of events that promote neuronal dysfunction in Gaucher disease and are the first to implicate this protein as a plausible biological intersection between Gaucher disease and parkinsonism using a pharmacological model. (nih.gov)
  • J. S. Nicolis, and M. Benrubi, "A model on the role of noise at the neuronal and the cognitive levels," J. of Theor. (springer.com)
  • Methods in Neuronal Modeling: From Ions to Networks,ed. (amrita.edu)
  • To obtain a mathematical formulation of cell signaling, we propose a stability kinetic model of cell biological signaling of a simple two-parameter model based on the kinetics of the diffusion-limiting step. (mendeley.com)
  • Fernandez (1995c), using combined results of balance studies and radioisotope kinetics, formulated and resolved a model of P metabolism for pigs to evaluate the nutritional implications of increasing P intake by pigs. (scielo.br)
  • From the parts and mechanism description of a synthetic biological circuit, it is easy to obtain a chemical reaction model of the circuit under the assumptions of mass-action kinetics using various existing tools. (caltech.edu)
  • At a low level of modeling, the thesis introduces a new framework for modeling cellular signal processing based on interacting Markov chains. (mit.edu)
  • In conclusion, the present model illustrates a unique feature of cell signaling, and the stability analysis may provide an analytical framework of the cell signaling system and a novel formulation of biological signaling. (mendeley.com)
  • Awardees are expected to form a patient-derived models of cancer (PDMC) consortium and participate in activities as appropriate to their projects that will provide a framework to accelerate multidisciplinary efforts to address compelling fundamental cancer biology questions through PDMC comparisons. (nih.gov)
  • A modeling framework was developed to characterize the relationships between nutritional intake, rate of gastric emptying, gallbladder emptying-refilling patterns and plasma concentrations of bile acids. (diva-portal.org)
  • A modeling framework predicted the postprandial gastric emptying rate and enterohepatic circulation of bile acids. (diva-portal.org)
  • Overall the aim of the thesis is two-fold: On the one hand, we establish a general hybrid modelling framework for biological excitable membranes and, on the other hand, we are interested in a general advance of PDMP theory which the former necessitates. (bl.uk)
  • Regarding the first aim we exemplify the modelling framework on the classical Hodgkin-Huxley model of a squid giant axon. (bl.uk)
  • present a simple framework for the quantitative modeling of oncogene addiction that provides mechanistic insights into tumor biology. (sciencemag.org)
  • PLOS Biology provides an Open Access platform to showcase your best research and commentary across all areas of biological science. (plos.org)
  • It reflects upon Dr. Yakovlev's many research interests including stochastic modeling and the analysis of micro-array data, and throughout the book it emphasizes applications of the theory in biology, medicine and public health. (springer.com)
  • The transition from colonies of individual cells to multicellular organisms can be achieved relatively rapidly, within one million generations, according to a new mathematical model, published June 10 in the open-access journal PLoS Computational Biology , that simplifies our understanding of this process. (eurekalert.org)
  • System identification is a data-driven modeling approach more and more used in biology and biomedicine. (archives-ouvertes.fr)
  • A cross-disciplinary team of experts in nanotechnology, biology and computational modelling is driving the overall effort and establishing reliable, biologically relevant and well-characterised multi-layer 3D tissue scaffolds. (ntu.ac.uk)
  • Caenorhabditis elegans is a nematode of microscopic size which, due to its biological characteristics, has been used since the 1970s as a model for research in molecular biology, medicine, pharmacology, and toxicology. (nih.gov)
  • This unit builds on the foundation provided in Quantitative Methods in Biology to familiarise students with more advanced model building techniques including generalised linear, mixed and additive models, regression trees, bootstrapping methods, and non-linear regression. (edu.au)
  • R esearchers in biology and the life sciences have yet to embrace modelling in the way that their peers in the fields of physics, chemistry and engineering have done. (ddw-online.com)
  • It is hoped that this Special Feature will spur a discussion that will lead to a more careful delineation of the similarities and the differences between humans and other species, how these impact the study of biological fundamentals, and also help drive the field to think more carefully about humans' place in biology. (phys.org)
  • Mathematical models in biology - Introduction, types of models, levels of modeling, specificity of modeling in biology, Some standard models - unlimited growth , limited growth , constraints with respects to a substrate, competition selection , Lotka-Volterra models . (amrita.edu)
  • Model organisms are perhaps the most important experimental subjects in biology nowadays. (ugent.be)
  • Each of these platforms has both merits and drawbacks with regard to their utility and in faithful representation of tumor architecture, microenvironment, cellular composition and heterogeneity, stem-differentiation states, growth patterns and responses to perturbagens, with respect to the patient specimen from which the model was initially derived. (nih.gov)
  • Recently a class of two-dimensional vertex models was shown to exhibit a disordered rigidity transition controlled by the preferred cellular geometry, which was subsequently echoed by experimental findings. (rsc.org)
  • The Voronoi model was also endowed with a non-equilibrium model of cellular motility, leading to rich, glassy behavior. (rsc.org)
  • Using a more realistic and complete tissue model is critical to the development of a mechanistic understanding of the cellular radiation responses that occur in vivo. (phys.org)
  • The advantage of the model is that it has a well-defined cellular composition that scientists can modify to gain a fundamental understanding of how different cell types interact following irradiation. (phys.org)
  • In a series of recent papers, fluorescent and confocal microscopy images have been used to characterize the detailed cellular morphology of the skin tissue model. (phys.org)
  • Characterization of topographical effects on macrophage behavior in a foreign body response model. (duke.edu)
  • We also show that DDE-based predictions of oscillatory behavior may fail for the corresponding explicit model. (rice.edu)
  • Due to the complexity of nervous system behavior, the associated experimental error bounds are ill-defined, but the relative merit of the different models of a particular subsystem can be compared according to how closely they reproduce real-world behaviors or respond to specific input signals. (wikipedia.org)
  • Fluctuations in the concentrations of biomolecules can be quite large and this may require special treatment in modeling the biological networks ( 1 - 4 ). (pubmedcentralcanada.ca)
  • The probabilistic description taken by the models in this category was inspired from laboratory experiments involving either natural or pharmacological stimulation which exhibit variability in the resulting spike pattern. (wikipedia.org)
  • Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids 1st edition by Durbin, Richard, Eddy, Sean R., Krogh, Anders, Mitchison, Gr (1998) Paperback by Durbin: Cambridge University Press (2 July 2003) Paperback, 1st - may be Reissue. (abebooks.com)
  • Items related to Biological Sequence Analysis: Probabilistic Models. (abebooks.com)
  • Biological organisms are highly complex and are comprised of many different parts that function together to ensure the survival and reproduction of the whole. (eurekalert.org)
  • Understanding how the division of labor evolved in multicellular organisms is difficult because single cells are expected to act selfishly to protect their own existence instead of working cooperatively to achieve a more productive higher level of organization, explains author Sergey Gavrilets, Associate Director for Scientific Activities at the National Institute for Mathematical and Biological Synthesis and a professor at the University of Tennessee-Knoxville. (eurekalert.org)
  • Using germ and soma cells in volvocacean green algae as an example, Gavrilets' mathematical model describes the evolutionary emergence of the division of labor starting with a colony of undifferentiated individual cells and ending with completely differentiated multicellular organisms. (eurekalert.org)
  • It is much more straightforward, for example, to capture in lines of computer code the orbit of a satellite or the load on a suspension bridge than it is to build a computational model of even the simplest and most well-studied of biological organisms. (ddw-online.com)
  • Studies in a wide variety of organisms have produced a general model for the induction of apoptosis in which multiple signaling pathways lead ultimately to activation of the caspase family of proteases. (duke.edu)
  • In this PhD microscopic images of two model organisms, the C. elegans nematode and the A. thaliana plant, are studied. (ugent.be)
  • According to this phenomenon, based on the classical Lotka-Volterra model, we establish a model of two populations of Lotka-Volterra which cannot survive independently, finally he analyzes the stability of the model. (scirp.org)
  • The traditional way of modeling the time evolution of the molecular populations in a reacting system is to use a set of coupled, first order, ordinary differential equations (ODEs) called the reaction rate equations (RRE). (pubmedcentralcanada.ca)
  • The high growth rates, cell yields of the cultures, and the constitutive expression of an impressively efficient natural competence apparatus, amongst other properties, make some strains of the genus excellent laboratory models to study the molecular basis of thermophilia. (diva-portal.org)
  • This thesis considers the problem of modelling bioreactors with complex mixing and biokinetic growth based on both soluble nutrients and photosynthesis. (bl.uk)
  • From the results of investigations performed on the different modelling methods for nutrient and photosynthesis dependent biomass growth a method of coupling the two biokinetic models was proposed. (bl.uk)
  • The resulting model is used to simulate Isochrysis affinis galbana growth under light/dark cycles and to study the dependence of biomass production on the dilution rate and the influent substrate concentration. (inria.fr)
  • A Continuum Theory of Multiphase Mixtures for Modelling Biological Growth. (umich.edu)
  • This dissertation presents a continuum treatment of growth in biological tissue developed within the context of modern mixture theory. (umich.edu)
  • Planning the architecture of a registry of standard biological models. (openwetware.org)
  • A biological signal is transmitted by interactions between signaling molecules in the cell. (mendeley.com)
  • Alpha-synuclein-glucocerebrosidase interactions in pharmacological Gaucher models: a biological link between Gaucher disease and parkinsonism. (nih.gov)
  • The strong interactions between irradiance and chlorophyll encouraged us to couple biological and radiative models. (inria.fr)
  • However, this model does not include cell-cell and cell-matrix interactions critical to maintaining tissue homeostasis. (phys.org)
  • One model incorporates social interactions between the insects, and the second model is a control model that excludes these interactions. (arxiv.org)
  • Our results are consistent with published successional patterns of spruce-fir and mixed forests affected by spruce budworm, but also highlight areas of uncertainty in the spatio-temporal patterns of budworm-caused tree mortality and biological disturbances in general. (usda.gov)
  • In order to adopt a general workflow for complex biological matrices with respect to a new blood-brain barrier (BBB) model, a micellar electrokinetic chromatography method has been developed. (wiley.com)
  • In that sense, biological neuron models differ from artificial neuron models that do not presume to predict the outcomes of experiments involving the biological neural tissue (although artificial neuron models are also concerned with execution of perception and estimation tasks). (wikipedia.org)
  • Covers the latest in multiscaling for molecular models to predict lab-scale sample properties and investigates interface thermomechanics. (worldcat.org)
  • Once those parameters are established, they can be used to create a model to predict the system's response under different conditions. (bio-medicine.org)
  • This makes it easier for optimization routines to identify a functional working set of parameters that can then be used to predict the activity of the modeled system. (bio-medicine.org)
  • The oncology community has recently focused on the development of patient-derived models of cancer (PDMC) platforms including, but not limited to, patient-derived xenografts (PDXs), organoids, spheroids, induced pluripotent stem cells (iPSC), conditionally-reprogrammed cells (CRCs). (nih.gov)
  • While cause-and-effect knowledge assembly models encoded in Biological Expression Language are able to support generation of mechanistic hypotheses, they are static and limited in their ability to encode temporality. (fraunhofer.de)
  • Two mathematical models with seven and six parameters have been created for use as methods for identification of the optimum mobile phase in chromatographic separations. (mdpi.com)
  • Pearson, Spearman, Kendall tau-a,b,c and Goodman-Kruskal correlation coefficients were used in order to identify and to quantify the link and its nature (quantitative, categorical, semi-quantitative, both quantitative and categorical) between experimental values and the values estimated by the mathematical models. (mdpi.com)
  • We use topological data analysis as a tool to analyze the fit of mathematical models to experimental data. (arxiv.org)
  • For simple mathematical models of neuron, for example the dependence of spike patterns on signal delay is much weaker than the dependence on changes in "weights" of interneuronal connections. (wikipedia.org)
  • Furthermore, the availability of plasmids and up to four thermostable antibiotic selection markers allows its use in physiological studies as a model for ancient bacteria. (diva-portal.org)
  • A simple yet elegant quantitative modeling of oncogene addiction advances our predictive understanding of this physiological phenomenon. (sciencemag.org)
  • Automatic annotation of spatial expression patterns via sparse Bayesian factor models. (duke.edu)
  • In this paper, we propose a strategy for the selection of the hidden layer size in feedforward neural network models. (aimsciences.org)
  • Some applications of the proposed procedure to simulated and real data sets show that it allows to select parsimonious neural network models with the highest predictive accuracy. (aimsciences.org)
  • M. La Rocca and C. Perna, Neural network modeling with applications to euro exchange rates,, in Computational Methods in Financial Engineering: Essays in Honour of Manfred Gili , (2008), 163. (aimsciences.org)
  • We proposed a bi-stream convolutional neural network (CNN) architecture with nine layers and two merged CNN models, which took two input chromosome SNP maps in combination. (sc.edu)
  • TCF, LO, and LBS are funded by BBSRC grant [BB/J015105/1] to model pathways associated with Hypothalamic-Pituitary-Gonadal (HPG) axis, and LBS is supported by an MRC grant [MR/N002970/1]. (plos.org)
  • How to Draw Diagrams of Biological Pathways? (plos.org)
  • This thesis introduces systematic engineering principles to model, at different levels of ab-straction the information processing in biological cells in order to understand the algorithms implemented by the signaling pathways that perform the processing. (mit.edu)
  • TCF, MWB and PD are funded by an Institute Strategic Grant from the Biotechnology and Biological Sciences Research Council (BBSRC) [BB/JO1446X/1]. (plos.org)
  • Thank you for your interest in spreading the word on Philosophical Transactions of the Royal Society B: Biological Sciences. (royalsocietypublishing.org)
  • Message Body (Your Name) thought you would like to see the Philosophical Transactions of the Royal Society B: Biological Sciences web site. (royalsocietypublishing.org)
  • In 'Humans as a model for understanding biological fundamentals', the authors provide a diverse set of perspectives on whether and, if so, how we can use humans as a model for the study of fundamental biological principles. (phys.org)
  • The student will first develop a sound understanding of the state of the art in computational modelling of the retina. (ntu.ac.uk)
  • If pathway modelling is to be more widely adopted by biologists and the results of their efforts useable by others, a new approach is required. (plos.org)
  • To investigate how genes and phenotypes are transmitted, we developed a general model that, for the first time, considers concurrently: multiple loci, quantitative and qualitative gene expression, assortative mating, dominance/recessivity inheritance and density-dependent demographic effects. (nature.com)
  • but many other functions can be used as long as they are meaningful with binary or quantitative community models. (oulu.fi)
  • Our results reveal that the conclusions about how hybridization threatens a species can be biased if they are based on single-gene models, while considering two or more genes can correct this bias. (nature.com)
  • spatial effects are investigated by developing models that highlight the consequences that geographical restriction and species mobility may have on population development. (google.co.uk)
  • The function only simulates binary (presence/absence) models with constraint for total number of presences, and optionally for numbers of species and/or species frequencies. (oulu.fi)
  • Based on the classic Lotlk-Volterra cooperation model, we establish a time-delay model of which a species cannot survive independently. (scirp.org)
  • In this paper, we establish a Lotka-Volterra model with time delay which a species cannot survive independently. (scirp.org)
  • By the thought of [1]-[4], we could have got the following Lotka-Volterra model with time delay which a species cannot survive independently. (scirp.org)
  • We both are scientists who got our start exclusively studying non- human species and who have come into studying humans more recently, attracted to what they have to offer as a model species. (phys.org)
  • We strongly feel that there are some general biological questions that are best answered by studying humans, either by themselves or in conjunction with comparative research programs encompassing multiple species, and that our work on humans is relevant for informing our work with other species . (phys.org)
  • This model reduction approach combines the common assumptions of time-scale separation, conservation laws, and species' abundance to obtain the reduced models that can be used for design of synthetic biological circuits. (caltech.edu)
  • Similarly the ability of many phytoplankton and microzooplankton species to be mixotrophic, which has been known for decades with some attempts made to provide a conceptual basis for models (reviewed by Stoecker, 1998 ), is only now becoming mainstream. (frontiersin.org)
  • However, there is a fundamental problem with most biological pathway diagrams: they are produced on an ad hoc basis with no rules governing their composition or content. (plos.org)
  • A biological neuron model , also known as a spiking neuron model , is a mathematical description of the properties of certain cells in the nervous system that generate sharp electrical potentials across their cell membrane , roughly one millisecond in duration, as shown in Fig. 1. (wikipedia.org)
  • It is worth noting that not all the cells of the nervous system produce the type of spike that define the scope of the spiking neuron models. (wikipedia.org)
  • Most importantly, the resulting pathway diagrams are useful in the communication of ideas, in hypothesis testing, in enhancing the understanding of the dynamic characteristics of the system modelled, and thereby in helping to drive forward biological research objectives. (plos.org)
  • It will stimulate thought in a system that has been lacking thought… Models of Madness will win many hearts and minds, and the mental health care of patients will be better for it. (routledge.com)
  • One solution consists in using mixed effects models but up to now no similar approach exists in the field of dynamical system identification. (archives-ouvertes.fr)
  • This system, created in the laboratory of Jasna Brujić, an assistant professor in NYU's Department of Physics and part of its Center for Soft Matter Research, is said to be an oil-in-water solution whose surface properties reproduce those found on biological cells. (theengineer.co.uk)
  • In the present paper we model a multihierarchical level system which communicates with the environment via a specific pair of hierarchical levels Q and W (Figure 1). (springer.com)
  • Attempts to formulate realistic models of the development of the human oculomotor control system have led to the conclusion that evolutionary factors play a crucial role. (royalsocietypublishing.org)
  • K. Chopra, R. Bose, and A. Joshi, ' Duopoly Models for Power Trading in Secure Cooperative Relay Networks ', InProceedings, IEEE National Conference on Communications (NCC 2016) , February 2016, 388 downloads. (umbc.edu)
  • Wang, B. and Zhang, H. (2016) Existence of Positive Periodic Solutions for a Time-Delay Biological Model. (scirp.org)
  • The complexity of the structure of the eye, the difficulty in replicating its sophisticated image pre-processing capabilities and the absence of readily available, biologically faithful models limit medical advances and treatments. (ntu.ac.uk)
  • The recent advances in gene-expression microarray technologies present an unprecedented opportunity to study type 2 diabetes mellitus at a genome-wide scale and across different models. (harvard.edu)
  • Biological characteristics of fluorescent protein-expressing human hepatocellular carcinoma xenograft model in nude mice. (nih.gov)
  • To study biological characteristics of stable red fluorescent protein (RFP)-expressing or green fluorescent protein (GFP)-expressing HCCLM3 cell lines and those of their relevant xenograft models in nude mice. (nih.gov)
  • The Hodgkin-Huxley model, widely regarded as one of the great achievements of 20th-century biophysics, describes how action potentials in neurons are initiated and propagated in axons via voltage-gated ion channels. (wikipedia.org)
  • In a human psoriasis xenograft model, antibody 146B7 reduced the severity of psoriasis, as measured by epidermal thickness, grade of parakeratosis, and numbers of inflammatory cells and cycling keratinocytes. (jci.org)
  • The aim is to explore common aspects of these models and their analysis which spans the boundaries between different areas of research. (warwick.ac.uk)
  • A range of interdisciplinary research-driven projects follow in which students gain experience of different research techniques and a range of areas of biological interest. (ucl.ac.uk)
  • Student performance is assessed by essays, mini projects, oral and poster presentations, a computer programming and biological database task, web development, the research project and an end-of-year viva. (ucl.ac.uk)
  • His major research interests are in the area of survival analysis, especially models for the effect of explanatory variables on survival and for multivariate survival data. (springer.com)
  • This funding opportunity announcement (FOA) encourages highly innovative research to develop, characterize or improve animal models and related biological materials for human health and disease or to improve diagnosis and control of diseases that might interfere with animal use for biomedical research purposes. (nih.gov)
  • Applications to develop models that relate strictly to a specific disease or category of research will not be accepted and should be proposed to the appropriate categorical Institute or Center of the NIH. (nih.gov)
  • There is still less research work of the model which cannot exist independently. (scirp.org)
  • Research involving selective irradiation of a human skin tissue model is improving how scientists determine the overall effects of low doses of ionizing radiation such as might be received during certain medical procedures or occupational exposures. (phys.org)
  • Papers in this research topic provide insights into novel developments in the representation of plankton groups and how these improvements affect model outcomes. (frontiersin.org)
  • The most widely used models of information transfer in biological neurons are based on analogies with electrical circuits. (wikipedia.org)
  • In this article, we review the properties of this organism as biological model and its biotechnological applications. (diva-portal.org)
  • A computer chip or a robot that can interact with the natural environment in ways akin to the original organism is one embodiment of a useful model. (wikipedia.org)
  • Nanowerk News ) Using powerful computers to model the intricate dance of atoms and molecules, researchers at Rensselaer Polytechnic Institute have revealed the mechanism behind an important biological reaction. (nanowerk.com)
  • Quantum mechanics allows researchers to do things that can't be done with classical physics, such as modeling the way chemical bonds break and form, or including the effect of proton "tunneling" -- allowing protons to move through energy barriers that normal logic would deem impossible. (nanowerk.com)
  • The results, which matched the researchers' theoretical modelling of the process, offer a method for manipulating force and pressure in order to bind emulsions. (theengineer.co.uk)
  • Nicolis J.S., Protonotarios E.N., Voulodemou I. (1978) Controlled Markov Chain Models for Biological Hierarchies. (springer.com)
  • Driving forces in a biological context are usually referred to as rhythms, pulses or clocks. (uleth.ca)
  • As a simple example of this approach, measurement error in lifetime allocation of resources to reproduction in Finnish preindustrial women is modelled in the context of the survival cost of reproduction. (arctichealth.org)
  • This article aims to provide an overview of the most definitive models of neuro-biological computation as well as the tools commonly used to construct and analyze them. (wikipedia.org)