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Showing papers in "Journal of Theoretical Biology in 2003"


Journal ArticleDOI
TL;DR: A Boolean model of the segment polarity gene network is proposed which is able to reproduce the wild-type gene expression patterns, as well as the ectopic expression patterns observed in overexpression experiments and various mutants, and gives important insights into the functioning of the network.

900 citations


Journal ArticleDOI
TL;DR: This paper explores a recent model of proteome evolution that has been shown to reproduce many of the features displayed by its real counterparts and suggests that the overall topology of the protein maps naturally emerges from the two leading mechanisms considered by the model.

452 citations


Journal ArticleDOI
TL;DR: It is shown that blood flow and red blood cell heterogeneity play major roles in the development of such colonies, even when the red blood cells are flowing through the vasculature of normal, healthy tissue.

437 citations


Journal ArticleDOI
TL;DR: It is shown that, when errors are added, indirect reciprocity cannot be based on an image-scoring strategy, however, if individuals use a standing strategy, then cooperation through indirect reciprocities is evolutionarily stable.

356 citations


Journal ArticleDOI
TL;DR: This work considers three different geometric centrality measures, excentricity, status, and centroid value, that were originally used in the context of resource placement problems and shows that these quantities lead to useful descriptions of the centers of biological networks.

350 citations


Journal ArticleDOI
TL;DR: This framework can be used to model Herbert Simon's (1990) explanation of altruism, showing that altruistic norms can "hitchhike" on the general tendency of internal norms to be personally fitness-enhancing.

307 citations


Journal ArticleDOI
TL;DR: The possibility that 10 or more percent of the world population at risk could eventually be infected with the virus in conjunction with a mortality rate of 3–7% or more, and indications of significant improvement in Toronto support the stringent measures that have been taken to isolate diagnosed cases.

283 citations


Journal ArticleDOI
TL;DR: It is shown that intergroup conflicts may explain the evolutionary success of both altruistic forms of human sociality towards unrelated members of one's group and group-level institutional structures such as food sharing which have emerged and diffused repeatedly in a wide variety of ecologies during the course of human history.

275 citations


Journal ArticleDOI
TL;DR: This is the first time where both the regular transition and starvation-induced precocious transition are explained within the same regulatory framework, and it is suggested that the transition is under regulatory control by an internal and an external repressor of the allatoregulatory central nervous system.

252 citations


Journal ArticleDOI
TL;DR: It is argued that programming of the offspring may in some species benefit maternal fitness more than it does that of individual offspring, implying that public health programmes for improving birth weight may be more effective if they target maternal development rather than nutrition during pregnancy.

236 citations


Journal ArticleDOI
TL;DR: In this paper, a general model for the ontogenetic growth of living organisms has been recently proposed and the extension of this model to the growth of solid malignant tumors is investigated.

Journal ArticleDOI
TL;DR: In this article, the authors derived analytic solutions of stochastic mutation-selection networks that describe early events of cancer formation, where cancer is initiated in tissue compartments, where only a relatively small number of cells are at risk of mutating into cells that escape from homeostatic regulation.

Journal ArticleDOI
TL;DR: This work presents a graph theoretic model of analysing food web structure called regular equivalence, a method for partitioning the species in a food web into "isotrophic classes" that play the same structural roles even if they are not directly consuming the same prey or if they do not share the same predators.

Journal ArticleDOI
TL;DR: The method developed here provides a way to interpret how regulatory mechanisms are used to constrain network functions and produce a small range of physiologically meaningful behaviors from all allowable network functions.

Journal ArticleDOI
TL;DR: A mass-balanced, finite-difference solution to Münch's osmotically generated pressure-flow hypothesis is developed for the study of non-steady-state sucrose transport in the phloem tissue of plants.

Journal ArticleDOI
TL;DR: A lever model for the jaw of fishes that uses muscle design and the Hill equation for nonlinear length-tension properties of muscle to calculate dynamic power output and results show that simulations yield kinematics and timing profiles similar to actual fish feeding events.

Journal ArticleDOI
TL;DR: It is concluded that the major cause of the oscillations in CN is an increased rate of apoptosis of neutrophil precursors which leads to a destabilization of the hematopoietic stem cell compartment.

Journal ArticleDOI
TL;DR: A method to calculate the number of molecules of a single mRNA species in a complex mRNA preparation using multimeric linkers, a method frequently used in DNA computing to assemble random DNA.

Journal ArticleDOI
TL;DR: Simple mathematical models are constructed which incorporate antigen-independent proliferation and differentiation of CD8 cells during acute infections and suggest that the program is not completely defined by the initial encounter of T cell with antigen but may be augmented by exposure to antigen in a brief window shortly after infection.

Journal ArticleDOI
TL;DR: A statistical model of individual movement in a bounded space is developed and it is confirmed that the pattern of the spatial distribution of animals observed can be reliably accounted for by wall-following behaviors combined with a diffusive random walk.

Journal ArticleDOI
TL;DR: Using a homogeneous population of PSII and using standard in-literature-reported values of the model parameters, the simulated FLR is characterized by reaching the minimal fluorescence F(0) at about 3 ns after the illumination is switched on lasting to about 1 micros, followed by fluorescence rise to a plateau located at about 2 ms and subsequent fluorescence Rise to a global maximum that is reached at about 60 ms.

Journal ArticleDOI
TL;DR: A sensitivity analysis of general stoichiometric networks is considered and an expression for time-varying sensitivity coefficients is given and the Summation and Connectivity Theorems are generalized.

Journal ArticleDOI
TL;DR: This paper considers models for movement in two or more interacting cell populations, beginning by discussing intuitive ideas underlying the extension of models for a single-cell population to two interacting populations, and then considering more formal model development using transition probability methods.

Journal ArticleDOI
TL;DR: It is demonstrated that the minimization of total tumor burden, rather than complete eradication, may often be the more practical objective, and that regularly spaced, "metronomic" dosing is the best way to achieve it.

Journal ArticleDOI
TL;DR: Arguments of what route life may have taken out of the RNA world: whether DNA or protein followed, and the possibility that DNA may have come before RNA is discussed.

Journal ArticleDOI
TL;DR: A systems view of the major features of biological evolution based upon changes in internal chemistry and uses of cellular space, both of which it will be stated were dependent on the changing chemical environment, is presented.

Journal ArticleDOI
TL;DR: Simulations using the Extended Potts Model suggest that anisotropic differential adhesion can account for convergent extension, as observed during embryonic development of the frog Xenopus laevis for example.

Journal ArticleDOI
TL;DR: The double-agent theory is a new, unifying synthesis that draws on flaws in three leading theories of ageing to argue that there is a tradeoff between oxidative stress as a critical redox signal that marshals genetic defences against physiological stress and oxidativestress as a cause of ageing and age-related disease.

Journal ArticleDOI
TL;DR: A canonical model is proposed for the regulation of the trehalose cycle in yeast and provides rationale for the observed pattern of gene expression and reveals benefits of the counterintuitive trehalase up-regulation.

Journal ArticleDOI
TL;DR: It is suggested that the formalism of (M,R) systems could be used to model the circularity of metabolism, and it is demonstrated that the operation of Autopoietic systems cannot be simulated by Turing machines.