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  <doc>
    <id>1270</id>
    <completedYear>2011</completedYear>
    <publishedYear>2011</publishedYear>
    <thesisYearAccepted/>
    <language>eng</language>
    <pageFirst/>
    <pageLast/>
    <pageNumber/>
    <edition/>
    <issue/>
    <volume/>
    <type>reportzib</type>
    <publisherName/>
    <publisherPlace/>
    <creatingCorporation/>
    <contributingCorporation/>
    <belongsToBibliography>0</belongsToBibliography>
    <completedDate>--</completedDate>
    <publishedDate>--</publishedDate>
    <thesisDateAccepted>--</thesisDateAccepted>
    <title language="eng">BioPARKIN - Biology-related Parameter Identification in Large Kinetic Networks</title>
    <abstract language="eng">Modelling, parameter identification, and simulation play an important rôle in Systems Biology. In recent years, various software packages have been established for scientific use in both licencing types, open source as well as commercial. Many of these codes are based on inefficient and mathematically outdated algorithms. By introducing the package BioPARKIN recently developed at ZIB, we want to improve this situation significantly. The development of the software BioPARKIN involves long standing mathematical ideas that, however, have not yet entered the field of Systems Biology, as well as new ideas and tools that are particularly important for the analysis of the dynamics of biological networks. BioPARKIN originates from the package PARKIN, written by P.Deuflhard and U.Nowak, that has been applied successfully for parameter identification in physical chemistry for many years.</abstract>
    <identifier type="serial">11-15</identifier>
    <identifier type="urn">urn:nbn:de:0297-zib-12706</identifier>
    <author>Thomas Dierkes</author>
    <submitter>Thomas Dierkes</submitter>
    <author>Moritz Wade</author>
    <author>Ulrich Nowak</author>
    <author>Susanna Röblitz</author>
    <series>
      <title>ZIB-Report</title>
      <number>11-15</number>
    </series>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>systems biology</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>ordinary differential equations</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>sensitivity analysis</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>parameter identification</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>affine invariant Gauss-Newton algorithm</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>numerical library</value>
    </subject>
    <subject>
      <language>eng</language>
      <type>uncontrolled</type>
      <value>graphical user interface</value>
    </subject>
    <collection role="msc" number="65L09">Inverse problems</collection>
    <collection role="msc" number="68N19">Other programming techniques (object-oriented, sequential, concurrent, automatic, etc.)</collection>
    <collection role="msc" number="68U20">Simulation [See also 65Cxx]</collection>
    <collection role="msc" number="92C42">Systems biology, networks</collection>
    <collection role="msc" number="92C45">Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) [See also 80A30]</collection>
    <collection role="institutes" number="num">Numerical Mathematics</collection>
    <collection role="persons" number="susanna.roeblitz">Röblitz, Susanna</collection>
    <collection role="projects" number="GynSys">GynSys</collection>
    <file>https://opus4.kobv.de/opus4-zib/files/1270/ZR-11-15.pdf</file>
  </doc>
</export-example>
