Genetic code, hamming distance and stochastic matrices.

abstract：:Microtubules (MTs) are protein filaments found in all eukaryotic cells which are crucial for many cellular processes including cell movement, cell differentiation, and cell division. Due to their role in cell division, they are often used as targets for chemotherapy drugs used in cancer treatment. Experimental studies...

journal_title：Bulletin of mathematical biology

authors： Honoré S,Hubert F,Tournus M,White D

更新日期：2019-03-01 00:00:00

abstract：:Understanding how ecosystems evolve and how they respond to external perturbations is critical if we are to predict the effects of human intervention. A particular class of ecosystems whose dynamics are poorly understood are those in which the species are related via cross-feeding. In these ecosystems the metabolic ou...

journal_title：Bulletin of mathematical biology

authors： Lundh T,Gerlee P

更新日期：2013-05-01 00:00:00

abstract：:DNA and protein sequence comparisons are performed by a number of computational algorithms. Most of these algorithms search for the alignment of two sequences that optimizes some alignment score. It is an important problem to assess the statistical significance of a given score. In this paper we use newly developed me...

journal_title：Bulletin of mathematical biology

authors： Goldstein L,Waterman MS

更新日期：1992-09-01 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：:Cholera is an acute gastro-intestinal infection that affects millions of people throughout the world each year, primarily but not exclusively in developing countries. Because of its public health ramifications, considerable mathematical attention has been paid to the disease. Here we consider one neglected aspect of c...

journal_title：Bulletin of mathematical biology

authors： Kobe J,Pritchard N,Short Z,Erovenko IV,Rychtář J,Rowell JT

更新日期：2018-10-01 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：:Synaptic spines grow as a consequence of the formation of F-actin filaments at the spine head. The dynamics of F-actin in the spine head upon excitation of N-methy-D-aspartate (NMDA) receptors has recently been investigated experimentally, but there is no quantitative account of how these dynamic changes occur upon ac...

journal_title：Bulletin of mathematical biology

authors： Bennett MR,Farnell L,Gibson WG

更新日期：2011-09-01 00:00:00

abstract：:A dynamic model for cell differentiation, where cells with internal chemical reaction dynamics interact with each other and replicate was studied. It led to spontaneous differentiation of cells and determination, as discussed in the isologous diversification. The following features of the differentiation were obtained...

journal_title：Bulletin of mathematical biology

authors： Furusawa C,Kaneko K

更新日期：1998-07-01 00:00:00

abstract：:Radiation is commonly used in cancer treatment. Over 50% of all cancer patients will undergo radiotherapy (RT) as part of cancer care. Scientific advances in RT have primarily focused on the physical characteristics of treatment including beam quality and delivery. Only recently have inroads been made into utilizing t...

journal_title：Bulletin of mathematical biology

authors： Poleszczuk J,Walker R,Moros EG,Latifi K,Caudell JJ,Enderling H

更新日期：2018-05-01 00:00:00

abstract：:Gene transcription is a central cellular process and is stochastic in nature. The stochasticity has been studied in real cells and in theory, but often for the transcription activated by a single signaling pathway at steady-state. As transcription of many genes is involved with multiple pathways, we investigate how th...

journal_title：Bulletin of mathematical biology

authors： Sun Q,Tang M,Yu J

更新日期：2012-02-01 00:00:00

abstract：:A protein fold can be viewed as a self-avoiding walk in certain lattice model, and its contact map is a graph that represents the patterns of contacts in the fold. Goldman, Istrail, and Papadimitriou showed that a contact map in the 2D square lattice can be decomposed into at most two stacks and one queue. In the term...

journal_title：Bulletin of mathematical biology

authors： Guo QH,Sun LH,Wang J

更新日期：2017-01-01 00:00:00

abstract：:We study the emergence of collective spatio-temporal objects in biological systems by representing individually the elementary interactions between their microscopic components. We use the immune system as a prototype for such interactions. The results of this detailed explicit analysis are compared with the tradition...

journal_title：Bulletin of mathematical biology

authors： Louzoun Y,Solomon S,Atlan H,Cohen IR

更新日期：2003-05-01 00:00:00

abstract：:It is well established that in problems featuring slow passage through a Hopf bifurcation (dynamic Hopf bifurcation) the transition to large-amplitude oscillations may not occur until the slowly changing parameter considerably exceeds the value predicted from the static Hopf bifurcation analysis (temporal delay effect...

journal_title：Bulletin of mathematical biology

authors： Bilinsky LM,Baer SM

更新日期：2018-01-01 00:00:00

abstract：:When two strings of symbols are aligned it is important to know whether the observed number of matches is better than that expected between two independent sequences with the same frequency of symbols. When strings are of different lengths, nulls need to be inserted in order to align the sequences. One approach is to ...

journal_title：Bulletin of mathematical biology

authors： Rinsma I,Hendy M,Penny D

更新日期：1990-01-01 00:00:00

abstract：:Recent advances in virology, gene therapy, and molecular and cell biology have provided insight into the mechanisms through which viruses can boost the anti-tumor immune response, or can infect and directly kill tumor cells. A recent experimental report (Bridle et al. in Molec. Ther. 18(8):1430-1439, 2010) showed that...

journal_title：Bulletin of mathematical biology

authors： Eftimie R,Dushoff J,Bridle BW,Bramson JL,Earn DJ

更新日期：2011-12-01 00:00:00

abstract：:Measures of sexual dimorphism have been used extensively to predict the social organization and ecology of animal and human populations. There is, however, no universally accepted measure of phenotypic differences between the sexes. Most indices of sexual dimorphism fail to incorporate all of the information contained...

journal_title：Bulletin of mathematical biology

authors： Ipiña SL,Durand AI

更新日期：2000-09-01 00:00:00

abstract：:Here, we consider a game-theoretic model of multilevel selection in which individuals compete based on their payoff and groups also compete based on the average payoff of group members. Our focus is on multilevel social dilemmas: games in which individuals are best off cheating, while groups of individuals do best whe...

journal_title：Bulletin of mathematical biology

authors： Cooney DB

更新日期：2020-05-30 00:00:00

abstract：:In previous studies, we used a mathematical model of the thick ascending limb (TAL) to investigate nonlinearities in the tubuloglomerular feedback (TGF) loop. That model does not represent other segments of the nephron, the water, and NaCl transport along which may impact fluid flow rate and NaCl transport along the T...

journal_title：Bulletin of mathematical biology

authors： Layton AT,Edwards A

更新日期：2010-01-01 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：:An algorithm for computing the linear noise approximation (LNA) of the reaction-diffusion master equation (RDME) is developed and tested. The RDME is often used as a model for biochemical reaction networks. The LNA is derived for a general discretization of the spatial domain of the problem. If M is the number of chem...

journal_title：Bulletin of mathematical biology

authors： Lötstedt P

更新日期：2019-08-01 00:00:00

abstract：:In this paper we develop and extend a previous model of cell deformations, initially proposed to describe the dynamical behaviour of round-shaped cells such as keratinocytes or leukocytes, in order to take into account cell pseudopodial dynamics with large amplitude membrane deformations such as those observed in fibr...

journal_title：Bulletin of mathematical biology

authors： Stéphanou A,Chaplain MA,Tracqui P

更新日期：2004-09-01 00:00:00

abstract：:A significant conceptual difficulty in the use of switching systems to model regulatory networks is the presence of so-called "black walls," co-dimension 1 regions of phase space with a vector field pointing inward on both sides of the hyperplane. Black walls result from the existence of direct negative self-regulatio...

journal_title：Bulletin of mathematical biology

authors： Fan G,Cummins B,Gedeon T

更新日期：2016-06-01 00:00:00

abstract：:We address the observation that, in some cases, patients infected with the hepatitis C virus (HCV) are cleared of HCV when super-infected with the hepatitis A virus (HAV). We hypothesise that this phenomenon can be explained by the competitive exclusion principle, including the action of the immune system, and show th...

journal_title：Bulletin of mathematical biology

authors： Amaku M,Coutinho FA,Chaib E,Massad E

更新日期：2013-01-01 00:00:00

abstract：:The culmination of the morphogenesis of the cellular slime mould Dictyostelium discoideum involves complex cell movements which transform a mound of cells into a globule of spores on a slender stalk. We show that cyclic AMP signalling and differential adhesion, combined with cell differentiation and slime production, ...

journal_title：Bulletin of mathematical biology

authors： Marée AF,Hogeweg P

更新日期：2002-03-01 00:00:00

abstract：:Temporal evolution of a clonal bacterial population is modelled taking into account reversible mutation and selection mechanisms. For the mutation model, an efficient algorithm is proposed to verify whether experimental data can be explained by this model. The selection-mutation model has unobservable fitness paramete...

journal_title：Bulletin of mathematical biology

authors： Bayliss CD,Fallaize C,Howitt R,Tretyakov MV

更新日期：2019-03-01 00:00:00

abstract：:Mathematical models are useful for providing a framework for integrating data and gaining insights into the static and dynamic behavior of complex biological systems such as networks of interacting genes. We review the dynamic behaviors expected from model gene networks incorporating common biochemical motifs, and we ...

journal_title：Bulletin of mathematical biology

authors： Smolen P,Baxter DA,Byrne JH

更新日期：2000-03-01 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：:Small populations at risk of extinction due to threshold or competitive exclusion have a vested interest in rapid growth. Taking chance of survival into account for diploid populations, Fisher's theorem predicts a sex ratio favoring females under certain circumstances. Theoretical consideration of competitive exclusio...

journal_title：Bulletin of mathematical biology

authors： Johnson SD

更新日期：2010-01-01 00:00:00

abstract：:It is widely believed that the slowest dispersal strategy is selected in the evolutional if the environment is temporally invariant but spatially heterogeneous. Authors claim in this paper that this belief is true only if random dispersals with constant motility are considered. However, if a dispersal strategy with fi...

journal_title：Bulletin of mathematical biology

authors： Kim YJ,Kwon O,Li F

更新日期：2013-12-01 00:00:00

abstract：:We address the problem of using nonlinear models to design experiments to characterize the dynamics of cellular processes by using the approach of the Maximally Informative Next Experiment (MINE), which was introduced in W. Dong et al. (PLoS ONE 3(8):e3105, 2008) and independently in M.M. Donahue et al. (IET Syst. Bio...

journal_title：Bulletin of mathematical biology

authors： Dinh V,Rundell AE,Buzzard GT

更新日期：2014-03-01 00:00:00