Serwis Infona wykorzystuje pliki cookies (ciasteczka). Są to wartości tekstowe, zapamiętywane przez przeglądarkę na urządzeniu użytkownika. Nasz serwis ma dostęp do tych wartości oraz wykorzystuje je do zapamiętania danych dotyczących użytkownika, takich jak np. ustawienia (typu widok ekranu, wybór języka interfejsu), zapamiętanie zalogowania. Korzystanie z serwisu Infona oznacza zgodę na zapis informacji i ich wykorzystanie dla celów korzytania z serwisu. Więcej informacji można znaleźć w Polityce prywatności oraz Regulaminie serwisu. Zamknięcie tego okienka potwierdza zapoznanie się z informacją o plikach cookies, akceptację polityki prywatności i regulaminu oraz sposobu wykorzystywania plików cookies w serwisie. Możesz zmienić ustawienia obsługi cookies w swojej przeglądarce.
Standard analysis methods for atomic force microscope (AFM) indentation experiments use Hertzian contact mechanics to extract local elastic properties assuming a homogeneous sample material. In contrast, most biological materials have heterogeneous structure and composition. We previously introduced a non-Hertzian analysis method to detect depth-dependent elastic properties from indentation depth,...
Web Services and grid-enabled scientific workflows are of paramount importance for the realization of efficient and secure knowledge discovery scenarios. This paper presents a Grid-enabled Genotype-to-Phenotype discovery scenario (GG2P), which is realized by a respective scientific workflow. GG2P supports the seamless integration of SNP genotype data sources, and the discovery of indicative and predictive...
Software for computational analysis and simulation of biochemical systems has become one of the major computational tools in systems biology in recent years. Most of them use parameterized differential equations to model and describe biochemical systems. Although biochemical principles, such as enzyme mechanics, have been developed to derive kinetic rate equations, measuring and providing parameters...
Motif pairs can provide insight on how protein-protein interactions are encoded. Their discovery requires laborious and expensive biological experiments. Recently, Tan et al. proposed a computational approach to find motif pairs in the sequences of interacting proteins. However, their approach suffers from two drawbacks. The heuristic used in their approach is not accurate and may lead to a result...
The YinYang Wuxing theory of TCM (Traditional Chinese Medicine) has long been considered to relate to innate immunity. Recently, two of the authors, Zhang and Chen, have developed a mathematical model for the dynamics of the YinYang Wuxing theory of TCM. Although the Wuxing elements are the vital main organs of the human anatomy, the mathematical model can be extended to a much larger number of elements,...
In the last decade, life science applications have become more and more integrated into e-Science environments, hence they are typically very demanding, both in terms of computational capabilities and data capacities. Especially the access to life science applications, embedded in such environments via Grid clients still constitutes a major hurdle for scientists that do not have an IT background....
Mathematical modeling gene regulatory networks is important for understanding and controlling them, with various drugs and their dosage regimens. The ordinary differential equations approach is sensible but also very difficult. Our reverse engineering algorithm (RODES), based on neural networks feedback linearization and genetic programming, takes as inputs high-throughput (e.g., microarray) time...
This paper studies evaluation problem in psychological health. Based on the psychological dimensions and the actual evaluation work, we propose a kind of generalized linear regression model with convex constraint, named as Evaluation Model, in which the dependent variable and regression coefficients all are unknown. We analyze the algorithm of the model with linear regression method. Then the least...
The ability to perform long, accurate molecular dynamics (MD) simulations involving proteins and other biological macromolecules could in principle lead to important scientific advances and provide a powerful new tool for drug discovery. A wide range of biologically important processes, however, occur over time scales on the order of a millisecond ~ several orders of magnitude beyond the duration...
The design of dynamical networks from steady-state distributions usually presents some inherent limitations. The dynamical behavior of the system can not be determined from the steady-state, it can only be constrained by it. In general, there is a huge number of dynamical systems that can produce the same steady-state. Nevertheless, it is possible to further constrain the possibilities by adopting...
Recently there has been considerable interest in studying biological networks such as gene regulatory networks and protein-protein interaction networks. Are biological networks different from other large complex networks? Both large biological and other networks have power law degree distribution, yet the exponents fall into different ranges. This may be because random elimination of the information...
This paper makes two contributions towards the logical modelling of inhibition in metabolic networks. First it exposes the logical inconsistency of an existing state-of-the-art metabolic theory. Then it proposes a new model from which the required hypotheses are consistently inferred. Underlying this work is use of nonmonotonic logic programs to represent and reason about competing inhibitory effects...
In this paper, new microcontroller based hardware for simulation of neurons is introduced. Excitable membranes with voltage-gated ionic channels can be modeled by using the hardware and current-clamp experiments can be simulated. The hardware allows user to supply the analog current to be injected to the model. First-order differential equations used to define dynamics of the gate and membrane potential...
Monte Carlo simulation of the caffeine-DNA interaction in aqueous solution at room temperature was carried out using parallel calculations on supercomputer. Very large simulation boxes were used containing superhelical B-DNA fragment surrounded by caffeine and water molecules. The most probable binding sites of caffeine molecules on the DNA surface as well as structural features of the respective...
In the paper, two important virtual plant modeling methods, dual-scale automata and L-system, are firstly introduced. According to growth characteristics of wheat root, we construct the growth model of wheat root using the combination of dual-scale automaton and L system, and achieve the dynamic growth simulation of wheat root.
In this paper we introduce the notion of protein interaction network. This is a graph whose vertices are the protein's amino acids and whose edges are the interactions between them. Using a graph theory approach, we identify a number of properties of these networks. We compare them to the general scale-free network model and we analyze the existence of nodes with a high interaction level.
It is important to understand how proteins consistently fold into their native-state structures and the relevance of structure to their function. In this work, we study the unfolding pathway of SH3 from the perspective of network. Our results show that the average clustering coefficient is less sensitive to the structural change and the average shortest path lengths can examine the larger structural...
Phytoplankton becomes a concern to the environment when it forms dense growth at the water surface, known as algal bloom. However, studies on mechanism of algal bloom are not straight forward mainly caused by uncertainty and complexity of alga ecosystems. This paper describes the analysis of limnological time-series of Putrajaya Lake and wetlands to determine the growth of alga based on Kohonen self...
A novel gene regulatory network model via the fuzzy logic is proposed. Fuzzy logic can effectively model gene regulation and interaction to accurately reflect the underlying biology. By judging genes expression level on the fuzzy rule, Fuzzy Boolean network (FBN) makes it possible to handle simultaneously the randomness and fuzziness of biological phenomena.
Several works structure activity relationship (SAR) of anti-HIV molecules (Human Immunodeficiency Virus) were studied by different statistical methods and non-linear models (neural networks). But few studies have used the heuristic methods. In this work, we are interested to study this relationship by fuzzy logic and decision trees. The resulting model explain SAR with only tow rules described by...
Podaj zakres dat dla filtrowania wyświetlonych wyników. Możesz podać datę początkową, końcową lub obie daty. Daty możesz wpisać ręcznie lub wybrać za pomocą kalendarza.