Search results for "Modeling and Simulation"
showing 10 items of 1561 documents
Ancestral Reconstruction and Investigations of Genomic Recombination on some Pentapetalae Chloroplasts
2019
Abstract In this article, we propose a semi-automated method to rebuild genome ancestors of chloroplasts by taking into account gene duplication. Two methods have been used in order to achieve this work: a naked eye investigation using homemade scripts, whose results are considered as a basis of knowledge, and a dynamic programming based approach similar to Needleman-Wunsch. The latter fundamentally uses the Gestalt pattern matching method of sequence matcher to evaluate the occurrences probability of each gene in the last common ancestor of two given genomes. The two approaches have been applied on chloroplastic genomes from Apiales, Asterales, and Fabids orders, the latter belonging to Pe…
Angiogenic activity of breast cancer patients' monocytes reverted by combined use of systems modeling and experimental approaches.
2015
Angiogenesis plays a key role in tumor growth and cancer progression. TIE-2-expressing monocytes (TEM) have been reported to critically account for tumor vascularization and growth in mouse tumor experimental models, but the molecular basis of their pro-angiogenic activity are largely unknown. Moreover, differences in the pro-angiogenic activity between blood circulating and tumor infiltrated TEM in human patients has not been established to date, hindering the identification of specific targets for therapeutic intervention. In this work, we investigated these differences and the phenotypic reversal of breast tumor pro-angiogenic TEM to a weak pro-angiogenic phenotype by combining Boolean m…
The planar two-body problem for spheroids and disks
2021
We outline a new method suggested by Conway (2016) for solving the two-body problem for solid bodies of spheroidal or ellipsoidal shape. The method is based on integrating the gravitational potential of one body over the surface of the other body. When the gravitational potential can be analytically expressed (as for spheroids or ellipsoids), the gravitational force and mutual gravitational potential can be formulated as a surface integral instead of a volume integral, and solved numerically. If the two bodies are infinitely thin disks, the surface integral has an analytical solution. The method is exact as the force and mutual potential appear in closed-form expressions, and does not invol…
A second strain gradient elasticity theory with second velocity gradient inertia – Part II: Dynamic behavior
2013
Abstract This paper is the sequel of a companion Part I paper devoted to the constitutive equations and to the quasi-static behavior of a second strain gradient material model with second velocity gradient inertia. In the present Part II paper, a multi-cell homogenization procedure (developed in the Part I paper) is applied to a nonhomogeneous body modelled as a simple material cell system, in conjunction with the principle of virtual work (PVW) for inertial actions (i.e. momenta and inertia forces), which at the macro-scale level takes on the typical format as for a second velocity gradient inertia material model. The latter (macro-scale) PVW is used to determine the equilibrium equations …
A gradient elasticity theory for second-grade materials and higher order inertia
2012
Abstract Second-grade elastic materials featured by a free energy depending on the strain and the strain gradient, and a kinetic energy depending on the velocity and the velocity gradient, are addressed. An inertial energy balance principle and a virtual work principle for inertial actions are envisioned to enrich the set of traditional theoretical tools of thermodynamics and continuum mechanics. The state variables include the body momentum and the surface momentum, related to the velocity in a nonstandard way, as well as the concomitant mass-accelerations and inertial forces, which do intervene into the motion equations and into the force boundary conditions. The boundary traction is the …
QSAR Modeling ANTI-HIV-1 Activities by Optimization of Correlation Weights of Local Graph Invariants
2004
Results of using descriptors calculated with the correlation weights (CWs) of local graph invariants for modeling of anti-HIV-1 potencies of two groups of reverse transcriptase (RT) inhibitors are reported. Presence of different chemical elements in molecular structure of the inhibitors and the presence of Morgan extended connectivity values of zeroth-, first- and second order have been examined as local graph invariants in the labeled hydrogen-filled graphs. By Monte Carlo method optimization procedure, values of the CWs which produce as large values as possible of correlation coefficient between the numerical data on the anti-HIV-1 potencies and values of the descriptors on the training s…
A membrane computing simulator of trans-hierarchical antibiotic resistance evolution dynamics in nested ecological compartments (ARES)
2015
In this article, we introduce ARES (Antibiotic Resistance Evolution Simulator) a software device that simulates P-system model scenarios with five types of nested computing membranes oriented to emulate a hierarchy of eco-biological compartments, i.e. a) peripheral ecosystem; b) local environment; c) reservoir of supplies; d) animal host; and e) host's associated bacterial organisms (microbiome). Computational objects emulating molecular entities such as plasmids, antibiotic resistance genes, antimicrobials, and/or other substances can be introduced into this framework and may interact and evolve together with the membranes, according to a set of pre-established rules and specifications. AR…
Ejection and collision orbits of the spatial restricted three-body problem
1985
We begin by describing the global flow of the spatial two body rotating problem, μ=0. The remainder of the work is devoted to study the ejection and collision orbits when μ>-0. We make use of the ‘blow up’ techniques to show that for any fixed value of the Jacobian constant the set of these orbits is diffeomorphic to S2×R. Also we find some particular collision-ejection orbits.
Fixed point theorems on ordered metric spaces and applications to nonlinear elastic beam equations
2012
In this paper, we establish certain fixed point theorems in metric spaces with a partial ordering. Presented theorems extend and generalize several existing results in the literature. As application, we use the fixed point theorems obtained in this paper to study existence and uniqueness of solutions for fourth-order two-point boundary value problems for elastic beam equations.
On a new proof of Moser's twist mapping theorem
1976
Based on a new idea of the author, a new proof of J. Moser's twist mapping theorem is presented.