Essays about: "SBML"

Found 5 essays containing the word SBML.

  1. 1. CellMC : An XSLT-based SBML Model Compiler for Cell/BE and IA32

    University essay from Institutionen för informationsteknologi

    Author : Emmet Caulfield; [2009]
    Keywords : ;

    Abstract : In-silico simulation of chemical reactions is playing an increasingly important rôle in furthering understanding of cellular biochemistry, simulating in-vivo chemical reactions such as genetic and enzymatic action, and giving rise to the field of computational systems biology. The Systems Biology Markup Language (SBML) has been defined to provide a standard way to describe models of biochemical reaction networks, and the Stochastic Simulation Algorithm is an effective and popular method for simulating systems with many reacting species, which cannot be simulated using most numerical solution techniques whose time-complexity grows exponentially with number of chemical species. READ MORE

  3. 2. An Evaluation of XML Storage for Bio-Informatics Data

    University essay from Institutionen för datavetenskap

    Author : Faruk Hossain Mazumder; [2008]
    Keywords : ;

    Abstract : The aim of this thesis work is to evaluate efficient storage and querying techniques forstoring and querying XML based Bioinformatics data. Many XML based formats areavailable for representing biological data.Presently, many data storage tools along with strong query techniques are in use forhandling XML data. READ MORE

  4. 3. Time course simulation replicability of SBML-supporting biochemical network simulation tools

    University essay from Institutionen för kommunikation och information

    Author : Erwin Sentausa; [2006]
    Keywords : ;

    Abstract : Background: Modelling and simulation are important tools for understanding biological systems. Numerous modelling and simulation software tools have been developed for integrating knowledge regarding the behaviour of a dynamic biological system described in mathematical form. READ MORE

  5. 4. An XML-based Database of Molecular Pathways

    University essay from Institutionen för datavetenskap

    Author : David Hall; [2005]
    Keywords : XML; native XML databases; XQuery; protein-protein interactions; pathway search;

    Abstract : Research of protein-protein interactions produce vast quantities of data and there exists a large number of databases with data from this research. Many of these databases offers the data for download on the web in a number of different formats, many of them XML-based. READ MORE

  6. 5. Representation of Biochemical Pathway Models : Issues relating conversion of model representation from SBML to a commercial tool

    University essay from Institutionen för kommunikation och information

    Author : Sudhir Naswa; [2005]
    Keywords : ;

    Abstract : Background: Computational simulation of complex biological networks lies at the heart of systems biology since it can confirm the conclusions drawn by experimental studies of biological networks and guide researchers to produce fresh hypotheses for further experimental validation. Since this iterative process helps in development of more realistic system models a variety of computational tools have been developed. READ MORE