Statistical significance assessment in computational systems biology

... STATISTICAL SIGNIFICANCE ASSESSMENT IN COMPUTATIONAL SYSTEMS BIOLOGY LI JUNTAO (Master of Science, Beijing Normal University, China ) A THESIS SUBMITTED FOR THE ... (scanning level, pre/postwashing), location effect (chip, coverslip, washing), dye effect (dye, unequal mixing of mixtures, labeling, intensity), print pin effect, spot effect (amount of DNA in the ... = 0.7(indep.) in...

Ngày tải lên: 09/09/2015, 18:56

... system is used This is conceptually much simpler The future is likely to see many more mechanistically understood models of actual biological systems that rely on computational methods in systems ... Institute of Biochemistry, Martinsried, Germany) demonstrated the down-to-earth potential of Genome Biology 2008, 9:328 http://genomebiology.com/2008/9/12/328 Genome Biology 2008, models...

Ngày tải lên: 14/08/2014, 21:20

... describing systems biology applied to biochemistry in the years 2000–2010 employing the ten most commonly used software tools models, lindo (Lindo Systems Inc., Chicago, IL, USA; www.lindo.com) and ... found using the keyword systems biology actually reflect applications of systems biology approaches to biological systems resulting in new biological insights However, on...

Ngày tải lên: 14/02/2014, 14:20

... identification and simulation A mathematical model was developed, representing central carbohydrate metabolism in leaves of A thaliana The model was based on the following system of ordinary differential ... in A thaliana A D B E C F Fig Maximum activities of enzymes in central carbohydrate metabolism during cold exposure (A C) Vmax values of three invertase...

Ngày tải lên: 14/02/2014, 22:20

... This adaptation includes the facility of generating Nuance recognition grammars from the interpretation grammar and the possibility of generating corpora from the grammars The interpretation grammar ... are considering basing our re-ranking on the information held in the dialogue information state, knowledge of what is going on in the graphical interface and on dialogue mo...

Ngày tải lên: 22/02/2014, 02:20

... obtained in the in vivo-like assay medium, suggesting that the ‘optimized’ conditions are, in reality, not optimal for these enzymes A thorough analysis of the yeast kinetics of phosphofructokinase ... enzyme of interest should be investigated in the context of the in vivo-like medium Finally, in vivo, the enzymes are present at much higher concentrations than in typic...

Ngày tải lên: 06/03/2014, 09:22

... hypothesis-driven science in the postgenomic era Bioessays 26, 99105 17 Kell DB (2005) Metabolomics, machine learning and modelling: towards an understanding of the language of cells Biochem Soc Trans 33, 520524 ... models and reality on one hand and between changes in the model that are invoked and its subsequent dynamic behaviour, leading to an unders...

Ngày tải lên: 07/03/2014, 12:20

... types of agents, representing two different kinds of cells (or two kinds of molecules) can move freely and interact within the containing space; e) Interacting state machine: systems are represented ... unambiguously interpreted by different people Modeling Formalisms Many formalisms have been used to model biological systems, in part due to the diversity of phenomena that occur in...

Ngày tải lên: 20/06/2014, 21:20

... this article as: Henkel et al.: A systems biology approach to analyse leaf carbohydrate metabolism in Arabidopsis thaliana EURASIP Journal on Bioinformatics and Systems Biology 2011 2011:2 Abbreviations ... presented a kinetic modelling approach to simulate and analyse diurnal dynamics of carbohydrate metabolism in A thaliana Based on simulated fluxes...

Ngày tải lên: 21/06/2014, 03:20

... paper online Additional data file contains additional figures Additional data file contains additional tables Additional data file contains the legends for the additional figures and tables Additional ... Feller A, Crabeel M, Pierard A: Control- mechanisms acting at the transcriptional and post-transcriptional levels are involved in the synthesis of the arginine pathway carba...

Ngày tải lên: 06/08/2014, 18:21

... role in growth- rate regulation increasing growth rates in all four nutrient-limiting conditions Transcripts that were up- and downregulated with growth rate were similar to those found in the ... a protein kinase that is important in the control of eukaryotic cell growth [19] Further emphasizing the importance of TOR in growth- rate control, the study found that...

Ngày tải lên: 06/08/2014, 18:21

... phosphorylation in yeast Nature 2005, 438: 679-684 23 Yip KY, Yu H, Kim PM, Schultz M, Gerstein M: The tYNA platform for comparative interactomics: a web tool for managing, comparing and mining multiple ... proteins and in DNA binding for AR and hydrophilicity-sensitive proteins In addition, charge-sensitive proteins showed an enrichment in transferase activity and MlogP...

Ngày tải lên: 09/08/2014, 22:24

... repository of much of the Populus cDNA microarray data [10] and databases for the analysis of gene expression - and other - data [11] substantially facilitates the ability to perform systems biology ... between each pair of regulators (i.e the cross-term b12 in the case of two regulators) is plotted against the influence of each individual regulator (i.e...

Ngày tải lên: 11/08/2014, 11:21