共查询到20条相似文献,搜索用时 31 毫秒
1.
Jamie Twycross Leah R Band Malcolm J Bennett John R King Natalio Krasnogor 《BMC systems biology》2010,4(1):34
Background
Stochastic and asymptotic methods are powerful tools in developing multiscale systems biology models; however, little has been done in this context to compare the efficacy of these methods. The majority of current systems biology modelling research, including that of auxin transport, uses numerical simulations to study the behaviour of large systems of deterministic ordinary differential equations, with little consideration of alternative modelling frameworks. 相似文献2.
Francesca Froldi Marcello Ziosi Flavio Garoia Andrea Pession Nicola A Grzeschik Paola Bellosta Dennis Strand Helena E Richardson Annalisa Pession Daniela Grifoni 《BMC biology》2010,8(1):33
Background
Neoplastic overgrowth depends on the cooperation of several mutations ultimately leading to major rearrangements in cellular behaviour. Precancerous cells are often removed by cell death from normal tissues in the early steps of the tumourigenic process, but the molecules responsible for such a fundamental safeguard process remain in part elusive. With the aim to investigate the molecular crosstalk occurring between precancerous and normal cells in vivo, we took advantage of the clonal analysis methods that are available in Drosophila for studying the phenotypes due to lethal giant larvae (lgl) neoplastic mutation induced in different backgrounds and tissues. 相似文献3.
Mark AJ Roberts Elias August Abdullah Hamadeh Philip K Maini Patrick E McSharry Judith P Armitage Antonis Papachristodoulou 《BMC systems biology》2009,3(1):105-14
Background
Developing methods for understanding the connectivity of signalling pathways is a major challenge in biological research. For this purpose, mathematical models are routinely developed based on experimental observations, which also allow the prediction of the system behaviour under different experimental conditions. Often, however, the same experimental data can be represented by several competing network models. 相似文献4.
Background
A growing demand for tools to assist the building and analysis of biological networks exists in systems biology. We argue that the use of a formal approach is relevant and applicable to address questions raised by biologists about such networks. The behaviour of these systems being complex, it is essential to exploit efficiently every bit of experimental information. In our approach, both the evolution rules and the partial knowledge about the structure and the behaviour of the network are formalized using a common constraint-based language. 相似文献5.
Mallory R Frederick Christina Kuttler Burkhard A Hense Hermann J Eberl 《Theoretical biology & medical modelling》2011,8(1):8
Background
Biofilms are microbial communities encased in a layer of extracellular polymeric substances (EPS). The EPS matrix provides several functional purposes for the biofilm, such as protecting bacteria from environmental stresses, and providing mechanical stability. Quorum sensing is a cell-cell communication mechanism used by several bacterial taxa to coordinate gene expression and behaviour in groups, based on population densities. 相似文献6.
Background
The functional sites of a protein present important information for determining its cellular function and are fundamental in drug design. Accordingly, accurate methods for the prediction of functional sites are of immense value. Most available methods are based on a set of homologous sequences and structural or evolutionary information, and assume that functional sites are more conserved than the average. In the analysis presented here, we have investigated the conservation of location and type of amino acids at functional sites, and compared the behaviour of functional sites between different protein domains. 相似文献7.
Background
Constraint-based models allow the calculation of the metabolic flux states that can be exhibited by cells, standing out as a powerful analytical tool, but they do not determine which of these are likely to be existing under given circumstances. Typical methods to perform these predictions are (a) flux balance analysis, which is based on the assumption that cell behaviour is optimal, and (b) metabolic flux analysis, which combines the model with experimental measurements. 相似文献8.
Sampo Pyysalo Filip Ginter Juho Heimonen Jari Björne Jorma Boberg Jouni Järvinen Tapio Salakoski 《BMC bioinformatics》2007,8(1):50
Background
Lately, there has been a great interest in the application of information extraction methods to the biomedical domain, in particular, to the extraction of relationships of genes, proteins, and RNA from scientific publications. The development and evaluation of such methods requires annotated domain corpora. 相似文献9.
Irina M Gana Dresen Tanja Boes Johannes Huesing Markus Neuhaeuser Karl-Heinz Joeckel 《BMC bioinformatics》2008,9(1):42
Background
Hierarchical clustering is a widely applied tool in the analysis of microarray gene expression data. The assessment of cluster stability is a major challenge in clustering procedures. Statistical methods are required to distinguish between real and random clusters. Several methods for assessing cluster stability have been published, including resampling methods such as the bootstrap. 相似文献10.
Background
In order to provide insights into the complex biochemical processes inside a cell, modelling approaches must find a balance between achieving an adequate representation of the physical phenomena and keeping the associated computational cost within reasonable limits. This issue is particularly stressed when spatial inhomogeneities have a significant effect on system's behaviour. In such cases, a spatially-resolved stochastic method can better portray the biological reality, but the corresponding computer simulations can in turn be prohibitively expensive. 相似文献11.
Background
Protein secondary structure prediction method based on probabilistic models such as hidden Markov model (HMM) appeals to many because it provides meaningful information relevant to sequence-structure relationship. However, at present, the prediction accuracy of pure HMM-type methods is much lower than that of machine learning-based methods such as neural networks (NN) or support vector machines (SVM). 相似文献12.
13.
Markus H Hoffmann Rudolf Hopf Birgit Niederreiter Heinz Redl Josef S Smolen Günter Steiner 《Arthritis research & therapy》2010,12(2):R41
Introduction
Pristane-induced arthritis (PIA) in the rat has been described as an animal model of inflammatory arthritis which exhibits features similar to rheumatoid arthritis in humans, such as a chronic, destructive, and symmetrical involvement of peripheral joints. However, so far little is known about the earliest inflammatory events and their influence on locomotor behaviour during the course of PIA. To investigate this issue a detailed analysis of the pathologic changes occurring during the prodromal and early stages of PIA was performed. 相似文献14.
Caterina Minelli Akemi Kikuta Nataliya Tsud Michael D Ball Akiko Yamamoto 《Journal of nanobiotechnology》2008,6(1):3
Background
Polymers are attractive materials for both biomedical engineering and cardiovascular applications. Although nano-topography has been found to influence cell behaviour, no established method exists to understand and evaluate the effects of nano-topography on polymer-blood interaction. 相似文献15.
Sara L Goodacre Oliver Y Martin Dries Bonte Linda Hutchings Chris Woolley Kamal Ibrahim CF George Thomas Godfrey M Hewitt 《BMC biology》2009,7(1):32-8
Background
Dispersal plays a key role in shaping biological and ecological processes such as the distribution of spatially-structured populations or the pace and scale of invasion. Here we have studied the relationship between long-distance dispersal behaviour of a pest-controlling money spider,Erigone atra, and the distribution of maternally acquired endosymbionts within the wider meta-population. This spider persists in heterogeneous environments because of its ability to recolonise areas through active long-distance airborne dispersal using silk as a sail, in a process termed 'ballooning'. 相似文献16.
Roderick F Felsheim Michael J Herron Curtis M Nelson Nicole Y Burkhardt Anthony F Barbet Timothy J Kurtti Ulrike G Munderloh 《BMC biotechnology》2006,6(1):42-9
Background
Tick-borne pathogens cause emerging zoonoses, and include fastidious organisms such as Anaplasma phagocytophilum. Because of their obligate intracellular nature, methods for mutagenesis and transformation have not been available. 相似文献17.
Simulating the swelling and deformation behaviour in soft tissues using a convective thermal analogy
Background
It is generally accepted that cartilage adaptation and degeneration are mechanically mediated. Investigating the swelling behaviour of cartilage is important because the stress and strain state of cartilage is associated with the swelling and deformation behaviour. It is well accepted that the swelling of soft tissues is associated with mechanical, chemical, and electrical events. 相似文献18.
Maria Elena Hernandez Abraham Soto-Cid Fausto Rojas Luz I Pascual Gonzalo E Aranda-Abreu Rebeca Toledo Luis I Garcia Andres Quintanar-Stephano Jorge Manzo 《Reproductive biology and endocrinology : RB&E》2006,4(1):28-12
Background
The prostate is a key gland in the sexual physiology of male mammals. Its sensitivity to steroid hormones is widely known, but its response to prolactin is still poorly known. Previous studies have shown a correlation between sexual behaviour, prolactin release and prostate physiology. Thus, here we used the sexual behaviour of male rats as a model for studying this correlation. Hence, we developed experimental paradigms to determine the influence of prolactin on sexual behaviour and prostate organization of male rats. 相似文献19.
Background
Non-biological factors give rise to unwanted variations in cDNA microarray data. There are many normalization methods designed to remove such variations. However, to date there have been few published systematic evaluations of these techniques for removing variations arising from dye biases in the context of downstream, higher-order analytical tasks such as classification. 相似文献20.