Reduced models of algae growth.

Abstract:

:The simulation of biological systems is often plagued by a high level of noise in the data, as well as by models containing a large number of correlated parameters. As a result, the parameters are poorly identified by the data, and the reliability of the model predictions may be questionable. Bayesian sampling methods provide an avenue for proper statistical analysis in such situations. Nevertheless, simulations should employ models that, on the one hand, are reduced as much as possible, and, on the other hand, are still able to capture the essential features of the phenomena studied. Here, in the case of algae growth modeling, we show how a systematic model reduction can be done. The simplified model is analyzed from both theoretical and statistical points of view.

journal_name

Bull Math Biol

authors

Haario H,Kalachev L,Laine M

doi

10.1007/s11538-009-9417-7

subject

Has Abstract

pub_date

2009-10-01 00:00:00

pages

1626-48

issue

7

eissn

0092-8240

issn

1522-9602

journal_volume

71

pub_type

杂志文章
  • Spatio-temporal Models of Lymphangiogenesis in Wound Healing.

    abstract::Several studies suggest that one possible cause of impaired wound healing is failed or insufficient lymphangiogenesis, that is the formation of new lymphatic capillaries. Although many mathematical models have been developed to describe the formation of blood capillaries (angiogenesis), very few have been proposed for...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-016-0205-x

    authors: Bianchi A,Painter KJ,Sherratt JA

    更新日期:2016-09-01 00:00:00

  • Multiscale Persistent Functions for Biomolecular Structure Characterization.

    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

    pub_type: 杂志文章

    doi:10.1007/s11538-017-0362-6

    authors: Xia K,Li Z,Mu L

    更新日期:2018-01-01 00:00:00

  • Regular Simple Queues of Protein Contact Maps.

    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

    pub_type: 杂志文章

    doi:10.1007/s11538-016-0212-y

    authors: Guo QH,Sun LH,Wang J

    更新日期:2017-01-01 00:00:00

  • A kinetic model of coronary reactive hyperemic response to transient ischemia.

    abstract::A kinetic model is proposed to delineate the factors that determine the coronary reactive hyperemic response (RHR) to transient ischemia. The model comprises of myocardial-interstitial (M) and vascular (V) compartments. Vasodilator metabolites (VM) are produced in the M compartment during the interval of coronary occl...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/BF02458320

    authors: Wong AY

    更新日期:1995-01-01 00:00:00

  • Dynamics and management of stage-structured fish stocks.

    abstract::With increasing fishing pressures having brought several stocks to the brink of collapse, there is a need for developing efficient harvesting methods that account for factors beyond merely yield or profit. We consider the dynamics and management of a stage-structured fish stock. Our work is based on a consumer-resourc...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-012-9789-y

    authors: Meng X,Lundström NL,Bodin M,Brännström Å

    更新日期:2013-01-01 00:00:00

  • Directional Hydrodynamic Sensing by Free-Swimming Organisms.

    abstract::Many aquatic organisms detect the presence of moving objects in their environment, such as predators, by sensing the hydrodynamic disturbances the movements produce. The resultant water flow is readily detectable by stationary organisms, but free-swimming organisms are carried with the surrounding water and may not de...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-017-0368-0

    authors: Takagi D,Hartline DK

    更新日期:2018-01-01 00:00:00

  • Optimal tuberculosis prevention and control strategy from a mathematical model based on real data.

    abstract::A mathematical control model for the transmission dynamics of tuberculosis (TB) in South Korea is developed on the basis of the reported active-TB and relapse-TB incidence data. In this work, optimal control theory is used to propose optimal TB prevention and control strategy and rearrange the government TB budget for...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-014-9962-6

    authors: Choi S,Jung E

    更新日期:2014-07-01 00:00:00

  • Sex, Mosquitoes and Epidemics: An Evaluation of Zika Disease Dynamics.

    abstract::Since the first major outbreak reported on the island Yap in 2007, the Zika virus spread has alerted the scientific community worldwide. Zika is an arbovirus transmitted by Aedes mosquitoes; particularly in Central and South America, the main vector is the same mosquito that transmits dengue and chikungunya, Aedes aeg...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-016-0219-4

    authors: Baca-Carrasco D,Velasco-Hernández JX

    更新日期:2016-11-01 00:00:00

  • Bayesian Calibration, Validation and Uncertainty Quantification for Predictive Modelling of Tumour Growth: A Tutorial.

    abstract::In this work, we present a pedagogical tumour growth example, in which we apply calibration and validation techniques to an uncertain, Gompertzian model of tumour spheroid growth. The key contribution of this article is the discussion and application of these methods (that are not commonly employed in the field of can...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-017-0258-5

    authors: Collis J,Connor AJ,Paczkowski M,Kannan P,Pitt-Francis J,Byrne HM,Hubbard ME

    更新日期:2017-04-01 00:00:00

  • Catch Me If You Can: A Spatial Model for a Brake-Driven Gene Drive Reversal.

    abstract::Population management using artificial gene drives (alleles biasing inheritance, increasing their own transmission to offspring) is becoming a realistic possibility with the development of CRISPR-Cas genetic engineering. A gene drive may, however, have to be stopped. "Antidotes" (brakes) have been suggested, but have ...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-019-00668-z

    authors: Girardin L,Calvez V,Débarre F

    更新日期:2019-12-01 00:00:00

  • A general formulation of the concept of independent action for the combined effects of agents.

    abstract::Analysis schemes for the classification of synergism and antagonism for mixed agents operate on the discrepancies between observed and calculated results. As such they cannot be confirmed by experiments and therefore have to be tested in terms of mathematical and logical self-consistency. The concept of independent ac...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/BF02458276

    authors: Lam GK

    更新日期:1994-09-01 00:00:00

  • Oscillations and Multiple Equilibria in Microvascular Blood Flow.

    abstract::We investigate the existence of oscillatory dynamics and multiple steady-state flow rates in a network with a simple topology and in vivo microvascular blood flow constitutive laws. Unlike many previous analytic studies, we employ the most biologically relevant models of the physical properties of whole blood. Through...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-015-0089-1

    authors: Karst NJ,Storey BD,Geddes JB

    更新日期:2015-07-01 00:00:00

  • A mathematical model for the dynamics of large membrane deformations of isolated fibroblasts.

    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

    pub_type: 杂志文章

    doi:10.1016/j.bulm.2003.11.004

    authors: Stéphanou A,Chaplain MA,Tracqui P

    更新日期:2004-09-01 00:00:00

  • Selecting against antibiotic-resistant pathogens: optimal treatments in the presence of commensal bacteria.

    abstract::Using optimal control theory as the basic theoretical tool, we investigate the efficacy of different antibiotic treatment protocols in the most exacting of circumstances, described as follows. Viewing a continuous culture device as a proxy for a much more complex host organism, we first inoculate the device with a sin...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-011-9698-5

    authors: Peña-Miller R,Lähnemann D,Schulenburg H,Ackermann M,Beardmore R

    更新日期:2012-04-01 00:00:00

  • Analyzing the fitch method for reconstructing ancestral states on ultrametric phylogenetic trees.

    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

    pub_type: 杂志文章

    doi:10.1007/s11538-010-9505-8

    authors: Zhang L,Shen J,Yang J,Li G

    更新日期:2010-10-01 00:00:00

  • An Edge-Based Model of SEIR Epidemics on Static Random Networks.

    abstract::Studies have been done using networks to represent the spread of infectious diseases in populations. For diseases with exposed individuals corresponding to a latent period, an SEIR model is formulated using an edge-based approach described by a probability generating function. The basic reproduction number is computed...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-020-00769-0

    authors: Alota CP,Pilar-Arceo CPC,de Los Reyes V AA

    更新日期:2020-07-16 00:00:00

  • Modelling Dictyostelium discoideum morphogenesis: the culmination.

    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

    pub_type: 杂志文章

    doi:10.1006/bulm.2001.0277

    authors: Marée AF,Hogeweg P

    更新日期:2002-03-01 00:00:00

  • Sustainability and substitutability.

    abstract::Developing a quantitative science of sustainability requires bridging mathematical concepts from fields contributing to sustainability science. The concept of substitutability is central to sustainability but is defined differently by different fields. Specifically, economics tends to define substitutability as a marg...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-014-9963-5

    authors: Fenichel EP,Zhao J

    更新日期:2015-02-01 00:00:00

  • Application of Quasi-Steady-State Methods to Nonlinear Models of Intracellular Transport by Molecular Motors.

    abstract::Molecular motors such as kinesin and dynein are responsible for transporting material along microtubule networks in cells. In many contexts, motor dynamics can be modelled by a system of reaction-advection-diffusion partial differential equations (PDEs). Recently, quasi-steady-state (QSS) methods have been applied to ...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-017-0314-1

    authors: Zmurchok C,Small T,Ward MJ,Edelstein-Keshet L

    更新日期:2017-09-01 00:00:00

  • A general theory for host seeking decisions in mosquitoes.

    abstract::We develop a theory for host seeking decisions in mosquitoes that explicitly considers the tradeoffs mosquitoes face in allocation to somatic and gametic function. Specifically, we consider conditions under which mosquitoes should seek out nectar and blood hosts upon encountering host odours. Results from development ...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/BF02464840

    authors: Roitberg BD,Friend WG

    更新日期:1992-03-01 00:00:00

  • Predicting Pattern Formation in Multilayer Networks.

    abstract::We investigate how the structure of interactions between coupled oscillators influences the formation of asynchronous patterns in a multilayer network by formulating a simple, general multilayer oscillator model. We demonstrate the analysis of this model in three-oscillator systems, illustrating the role of interactio...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-019-00682-1

    authors: Hayes SM,Anderson KE

    更新日期:2019-12-20 00:00:00

  • An evolution model for sequence length based on residue insertion-deletion independent of substitution: an application to the GC content in bacterial genomes.

    abstract::We introduce here a gene evolution model which is an extension of the time-continuous stochastic IDIS model (Lèbre and Michel in J. Comput. Biol. Chem. 34:259-267, 2010) to sequence length. This new IDISL (Insertion Deletion Independent of Substitution based on sequence Length) model gives an analytical expression of ...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-012-9735-z

    authors: Lèbre S,Michel CJ

    更新日期:2012-08-01 00:00:00

  • Memory but no suppression in low-dimensional symmetric idiotypic networks.

    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

    pub_type: 杂志文章

    doi:10.1007/BF02458444

    authors: De Boer RJ,Hogeweg P

    更新日期:1989-01-01 00:00:00

  • Interspecific influence on mobility and Turing instability.

    abstract::In this paper we formulate a multi-patch multi-species model in which the per-capita emigration rate of one species depends on the density of some other species. We then focus on Turing instability to examine if and when this cross-emigration response has crucial effects. We find that the type of interaction matters g...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1006/bulm.2002.0328

    authors: Huang Y,Diekmann O

    更新日期:2003-01-01 00:00:00

  • Mathematical models for the Aedes aegypti dispersal dynamics: travelling waves by wing and wind.

    abstract::Biological invasion is an important area of research in mathematical biology and more so if it concerns species which are vectors for diseases threatening the public health of large populations. That is certainly the case for Aedes aegypti and the dengue epidemics in South America. Without the prospect of an effective...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1016/j.bulm.2004.08.005

    authors: Takahashi LT,Maidana NA,Ferreira WC Jr,Pulino P,Yang HM

    更新日期:2005-05-01 00:00:00

  • Comparing approximations to spatio-temporal models for epidemics with local spread.

    abstract::Analytical methods for predicting and exploring the dynamics of stochastic, spatially interacting populations have proven to have useful application in epidemiology and ecology. An important development has been the increasing interest in spatially explicit models, which require more advanced analytical techniques tha...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1006/bulm.2001.0234

    authors: Filipe JA,Gibson GJ

    更新日期:2001-07-01 00:00:00

  • Mathematical model for early development of the sea urchin embryo.

    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

    pub_type: 杂志文章

    doi:10.1006/bulm.1999.0129

    authors: Ciliberto A,Tyson JJ

    更新日期:2000-01-01 00:00:00

  • Estimating the selective advantage of mutant p53 tumour cells to repeated rounds of hypoxia.

    abstract::The tumour suppressor gene, p53, plays an important role in tumour development. Under low levels of oxygen (hypoxia), cells expressing wild-type p53 undergo programmed cell death (apoptosis), whereas cells expressing mutations in the p53 gene may survive and express angiogenic growth factors that stimulate tumour vasc...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1006/bulm.2000.0210

    authors: Gammack D,Byrne HM,Lewis CE

    更新日期:2001-01-01 00:00:00

  • On the fractal geometry of DNA by the binary image analysis.

    abstract::The multifractal analysis of binary images of DNA is studied in order to define a methodological approach to the classification of DNA sequences. This method is based on the computation of some multifractality parameters on a suitable binary image of DNA, which takes into account the nucleotide distribution. The binar...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/s11538-013-9859-9

    authors: Cattani C,Pierro G

    更新日期:2013-09-01 00:00:00

  • Diffusion limited immunochemical sensing.

    abstract::The time-dependent surface coverage of antigen-antibody complexes for a sensor in which antigens are bound to surface immobilized antibodies is determined analytically. Assuming a reversible first order reaction between the antigens and antibodies, a model is derived describing the dynamical response of the sensor. Th...

    journal_title:Bulletin of mathematical biology

    pub_type: 杂志文章

    doi:10.1007/BF02460114

    authors: Geurts BJ

    更新日期:1989-01-01 00:00:00