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@ARTICLE{Seibel:57085,
      author       = {Seibel, P. N. and Krüger, J. and Hartmeier, S. and
                      Schwarzer, K. and Löwenthal, K. and Mersch, H. and
                      Dandekar, Th. and Giegerich, R.},
      title        = {{XML} schemas for common bioinformatic data types and their
                      application in workflow systems},
      journal      = {BMC bioinformatics},
      volume       = {7},
      issn         = {1471-2105},
      address      = {London},
      publisher    = {BioMed Central},
      reportid     = {PreJuSER-57085},
      pages        = {490},
      year         = {2006},
      note         = {Record converted from VDB: 12.11.2012},
      abstract     = {Today, there is a growing need in bioinformatics to combine
                      available software tools into chains, thus building complex
                      applications from existing single-task tools. To create such
                      workflows, the tools involved have to be able to work with
                      each other's data--therefore, a common set of well-defined
                      data formats is needed. Unfortunately, current bioinformatic
                      tools use a great variety of heterogeneous
                      formats.Acknowledging the need for common formats, the
                      Helmholtz Open BioInformatics Technology network (HOBIT)
                      identified several basic data types used in bioinformatics
                      and developed appropriate format descriptions, formally
                      defined by XML schemas, and incorporated them in a Java
                      library (BioDOM). These schemas currently cover sequence,
                      sequence alignment, RNA secondary structure and RNA
                      secondary structure alignment formats in a form that is
                      independent of any specific program, thus enabling seamless
                      interoperation of different tools. All XML formats are
                      available at http://bioschemas.sourceforge.net, the BioDOM
                      library can be obtained at http://biodom.sourceforge.net.The
                      HOBIT XML schemas and the BioDOM library simplify adding XML
                      support to newly created and existing bioinformatic tools,
                      enabling these tools to interoperate seamlessly in workflow
                      scenarios.},
      keywords     = {Algorithms / Computational Biology: methods / Computer
                      Graphics / Database Management Systems / Information Storage
                      and Retrieval / Programming Languages / Sequence Alignment /
                      Software / Systems Integration / User-Computer Interface / J
                      (WoSType)},
      cin          = {ZAM},
      ddc          = {004},
      cid          = {I:(DE-Juel1)VDB62},
      pnm          = {Scientific Computing},
      pid          = {G:(DE-Juel1)FUEK411},
      shelfmark    = {Biochemical Research Methods / Biotechnology $\&$ Applied
                      Microbiology / Mathematical $\&$ Computational Biology},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:17087823},
      pmc          = {pmc:PMC2001303},
      UT           = {WOS:000242316200001},
      doi          = {10.1186/1471-2105-7-490},
      url          = {https://juser.fz-juelich.de/record/57085},
}