Modeling transcriptional control in gene networks--methods, recent results, and future directions.

abstract：:In Xenopus and Drosophila, the nucleocytoplasmic ratio controls many aspects of cell-cycle remodeling during the transitory period that leads from fast and synchronous cell divisions of early development to the slow, carefully regulated growth and divisions of somatic cells. After the fifth cleavage in sea urchin embr...

journal_title：Bulletin of mathematical biology

authors： Ciliberto A,Tyson JJ

更新日期：2000-01-01 00:00:00

abstract：:Previous models of the renal concentrating mechanism employ ideal approximations of solution thermodynamics for membrane transport calculation. In three-dimensional models of the renal medulla, predicted urine concentrations reach levels where these idealized approximations begin to break down. In this paper we derive...

journal_title：Bulletin of mathematical biology

authors： Wang X,Wexler AS,Marsh DJ

更新日期：1994-05-01 00:00:00

abstract：:Coalescent models of evolution account for incomplete lineage sorting by specifying a species tree parameter which determines a distribution on gene trees, and consequently, a site pattern probability distribution. It has been shown that the unrooted topology of the species tree parameter of the multispecies coalescen...

journal_title：Bulletin of mathematical biology

authors： Long C,Kubatko L

更新日期：2019-02-01 00:00:00

abstract：:We study crossflow filtration mechanisms in suspension-feeding fishes using computational fluid dynamics to model fluid flow and food particle movement in the vicinity of the gill rakers. During industrial and biological crossflow filtration, particles are retained when they remain suspended in the mainstream flow tra...

journal_title：Bulletin of mathematical biology

authors： Cheer A,Cheung S,Hung TC,Piedrahita RH,Sanderson SL

更新日期：2012-04-01 00:00:00

abstract：:We focus on discrete-time infectious disease models in populations that are governed by constant, geometric, Beverton-Holt or Ricker demographic equations, and give a method for computing the basic reproduction number, [Formula: see text]. When [Formula: see text] and the demographic population dynamics are asymptotic...

journal_title：Bulletin of mathematical biology

authors： van den Driessche P,Yakubu AA

更新日期：2019-11-01 00:00:00

abstract：:We propose a new geometric buildup algorithm for the solution of the distance geometry problem in protein modeling, which can prevent the accumulation of the rounding errors in the buildup calculations successfully and also tolerate small errors in given distances. In this algorithm, we use all instead of a subset of ...

journal_title：Bulletin of mathematical biology

authors： Sit A,Wu Z,Yuan Y

更新日期：2009-11-01 00:00:00

abstract：:The accuracy of the Fitch method for reconstructing ancestral states on ultrametric phylogenetic trees is studied. Two recurrence relations for computing the accuracy are given here. Using these relations, we analyze the convergence of the accuracy of the Fitch method for reconstructing the root state on a complete bi...

journal_title：Bulletin of mathematical biology

authors： Zhang L,Shen J,Yang J,Li G

更新日期：2010-10-01 00:00:00

abstract：:We construct a population dynamics model of the competition among immune system cells and generic tumor cells. Then, we apply the theory of optimal control to find the optimal schedule of injection of autologous dendritic cells used as immunotherapeutic agent. The optimization method works for a general ODE system and...

journal_title：Bulletin of mathematical biology

authors： Castiglione F,Piccoli B

更新日期：2006-02-01 00:00:00

abstract：:We present a new symmetric model of the idiotypic immune network. The model specifies clones of B-lymphocytes and incorporates: (1) influx and decay of cells; (2) symmetric stimulatory and inhibitory idiotypic interactions; (3) an explicit affinity parameter (matrix); (4) external (i.e. non-idiotypic) antigens. Suppre...

journal_title：Bulletin of mathematical biology

authors： De Boer RJ,Hogeweg P

更新日期：1989-01-01 00:00:00

abstract：:The discovery of circular DNA, over 30 years ago, introduced an element of uneasiness in what had been, up to that point, the almost picture-perfect story of the elucidation of the molecular biology of heredity. If DNA indeed has the Watson-Crick right-handed helical secondary structure, then in circular DNA, thousand...

journal_title：Bulletin of mathematical biology

authors： Biegeleisen K

更新日期：2002-05-01 00:00:00

abstract：:Cell motility is an essential phenomenon in almost all living organisms. It is natural to think that behavioral or shape changes of a cell bear information about the underlying mechanisms that generate these changes. Reading cell motion, namely, understanding the underlying biophysical and mechanochemical processes, i...

journal_title：Bulletin of mathematical biology

authors： Coskun H,Coskun H

更新日期：2011-03-01 00:00:00

abstract：:Dispersal heterogeneity is increasingly being observed in ecological populations and has long been suspected as an explanation for observations of non-Gaussian dispersal. Recent empirical and theoretical studies have begun to confirm this. Using an integro-difference model, we allow an individual's diffusivity to be d...

journal_title：Bulletin of mathematical biology

authors： Stover JP,Kendall BE,Nisbet RM

更新日期：2014-11-01 00:00:00

abstract：:It has been postulated that fibroblast growth factor (FGF) treatment of cultured limb bud mesenchyme cells reinforces the lateral inhibitory effect, but the cells also show accelerated pattern appearance. In the present study, we analyze how a small change in a specific parameter affects the speed of pattern appearanc...

journal_title：Bulletin of mathematical biology

authors： Miura T,Maini PK

更新日期：2004-07-01 00:00:00

abstract：:Host bird species of the Eurasian Cuckoo, Cuculus canorus, often display egg-discrimination behaviour but chick-rejection behaviour has never been reported. In this paper, we analyse a host-cuckoo association in which both population dynamics and evolutionary dynamics are explored in a discrete-time model. We introduc...

journal_title：Bulletin of mathematical biology

authors： Planqué R,Britton NF,Franks NR,Peletier MA

更新日期：2002-11-01 00:00:00

abstract：:In this paper, we introduce multiscale persistent functions for biomolecular structure characterization. The essential idea is to combine our multiscale rigidity functions (MRFs) with persistent homology analysis, so as to construct a series of multiscale persistent functions, particularly multiscale persistent entrop...

journal_title：Bulletin of mathematical biology

authors： Xia K,Li Z,Mu L

更新日期：2018-01-01 00:00:00

abstract：:In the field of biological regulation, models dictated by experimental work are usually complex networks comprising intertwined feedback loops. In this paper the biological roles of individual positive loops (multistationarity, differentiation) and negative loops (homeostasis, with or without oscillations, buffering o...

journal_title：Bulletin of mathematical biology

authors： Thomas R,Thieffry D,Kaufman M

更新日期：1995-03-01 00:00:00

abstract：:We present a multi-scale computer simulator of cancer progression at the tumoral level, from avascular stage growth, through the transition from avascular to vascular growth (neo-vascularization), and into the later stages of growth and invasion of normal tissue. We use continuum scale reaction-diffusion equations for...

journal_title：Bulletin of mathematical biology

authors： Zheng X,Wise SM,Cristini V

更新日期：2005-03-01 00:00:00

abstract：:Because all the cell populations are capable of making switches between different genetic expression states in response to the environmental change, Thattai and van Oudenaarden (Genetics 167, 523-530, 2004) have raised a very interesting question: In a constantly fluctuating environment, which type of cell population ...

journal_title：Bulletin of mathematical biology

authors： Pang NN,Tzeng WJ

更新日期：2008-01-01 00:00:00

abstract：:Evolutionary game dynamics of two strategies in finite population is studied by continuous probabilistic approach. Besides frequency dependent selection, mutation was also included in this study. The equilibrium probability density functions of abundance, expected time to extinction or fixation were derived and their ...

journal_title：Bulletin of mathematical biology

authors： Gao M

更新日期：2009-07-01 00:00:00

abstract：:Evidence suggests that many G protein-coupled receptors (GPCRs) are bound together forming dimers. The implications of dimerisation for cellular signalling outcomes, and ultimately drug discovery and therapeutics, remain unclear. Consideration of ligand binding and signalling via receptor dimers is therefore required ...

journal_title：Bulletin of mathematical biology

authors： White C,Bridge LJ

更新日期：2019-09-01 00:00:00

abstract：:The nonlinear response of the simplest irreversible Michaelis-Menten enzyme is considered. In the context of metabolic networks, i.e. in vivo, the enzyme is subject to sustained, frequently time-dependent, input fluxes that keep the system out of equilibrium. The connection between the fluxes and the response is inves...

journal_title：Bulletin of mathematical biology

authors： Torralba AS,Rodríguez Y

更新日期：2006-08-01 00:00:00

abstract：:The Hodgkin and Huxley equations have served as the benchmark model in electrophysiology since 1950s. But it suffers from four major drawbacks. Firstly, it is only phenomenological not mechanistic. Secondly, it fails to exhibit the all-or-nothing firing mechanism for action potential generation. Thirdly, it lacks a th...

journal_title：Bulletin of mathematical biology

authors： Deng B

更新日期：2017-06-01 00:00:00

abstract：:We use a mathematical model to determine the factors affecting the delayed or rare coreceptor switch in HIV-1 subtype C infected individuals. The model takes into account the two main target cells for the CXCR4-tropic and CCR5-tropic virus and includes the the lytic and non-lytic immune responses. Computer-based simul...

journal_title：Bulletin of mathematical biology

authors： Mugwagwa T,Witten G

更新日期：2007-01-01 00:00:00

abstract：:The comprehension of activities and functions of complex brain structures requires, among other things, information on simultaneous activities in several regions. Results reported in the literature using multi(micro/macro)electrode recordings or imaging techniques provide incomplete information due either to the small...

journal_title：Bulletin of mathematical biology

authors： Ventriglia F

更新日期：1998-03-01 00:00:00

abstract：:We study the global stability of a class of models for in-vivo virus dynamics that take into account the Cytotoxic T Lymphocyte immune response and display antigenic variation. This class includes a number of models that have been extensively used to model HIV dynamics. We show that models in this class are globally a...

journal_title：Bulletin of mathematical biology

authors： Souza MO,Zubelli JP

更新日期：2011-03-01 00:00:00

abstract：:In this paper, we present computational techniques to investigate the effect of surface geometry on biological pattern formation. In particular, we study two-component, nonlinear reaction-diffusion (RD) systems on arbitrary surfaces. We build on standard techniques for linear and nonlinear analysis of RD systems and e...

journal_title：Bulletin of mathematical biology

authors： Dhillon DS,Milinkovitch MC,Zwicker M

更新日期：2017-04-01 00:00:00

abstract：:Although cell migration is an essential process in development, how cells reach their final destination is not well understood. Secreted molecules are known to have a migratory effect, but it remains unclear whether such molecules act as directional guidance cues or as motility regulators. There is potential to use si...

journal_title：Bulletin of mathematical biology

authors： Cai AQ,Landman KA,Hughes BD

更新日期：2006-01-01 00:00:00

abstract：:A staged-progression HIV model is formulated and used to investigate the potential impact of an imperfect vaccine. The vaccine is assumed to have several desirable characteristics such as protecting against infection, causing bypass of the primary infection stage, and offering a disease-altering therapeutic effect (so...

journal_title：Bulletin of mathematical biology

authors： Gumel AB,McCluskey CC,van den Driessche P

更新日期：2006-11-01 00:00:00

abstract：:The amoebae Dictyostelium discoideum aggregate after starvation in a wavelike manner in response to periodic pulses of cyclic AMP (cAMP) secreted by cells which behave as aggregation centers. In addition to autonomous oscillations, the cAMP signaling system that controls aggregation is also capable of excitable behavi...

journal_title：Bulletin of mathematical biology

authors： Goldbeter A

更新日期：2006-07-01 00:00:00

abstract：:Logical modeling of biological regulatory networks gives rise to a representation of the system's dynamics as a so-called state transition graph. Analysis of such a graph in its entirety allows for a comprehensive understanding of the functionalities and behavior of the modeled system. However, the size of the vertex ...

journal_title：Bulletin of mathematical biology

authors： Lorenz T,Siebert H,Bockmayr A

更新日期：2013-06-01 00:00:00