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Unfortunately, current bioinformatic tools use a great variety of heterogeneous formats.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>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 <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/bioschemas.sourceforge.net\" ext-link-type=\"uri\">http:\/\/bioschemas.sourceforge.net<\/jats:ext-link>, the BioDOM library can be obtained at <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/biodom.sourceforge.net\" ext-link-type=\"uri\">http:\/\/biodom.sourceforge.net<\/jats:ext-link>.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusion<\/jats:title>\n            <jats:p>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.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2105-7-490","type":"journal-article","created":{"date-parts":[[2006,11,7]],"date-time":"2006-11-07T07:13:33Z","timestamp":1162883613000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":17,"title":["XML schemas for common bioinformatic data types and their application in workflow systems"],"prefix":"10.1186","volume":"7","author":[{"given":"Philipp N","family":"Seibel","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jan","family":"Kr\u00fcger","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sven","family":"Hartmeier","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Knut","family":"Schwarzer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kai","family":"L\u00f6wenthal","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Henning","family":"Mersch","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thomas","family":"Dandekar","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Robert","family":"Giegerich","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2006,11,6]]},"reference":[{"key":"1229_CR1","series-title":"Nucleic Acids Res 2006","volume-title":"MIPS: analysis and annotation of proteins from whole genomes in 2005","author":"HW Mewes","year":"2006","unstructured":"Mewes HW, Frishman D, Mayer KFX, M\u00fcnsterk\u00f6tter M, Noubibou O, Pagel P, Rattei T, Oesterheld M, Ruepp A, St\u00fcmpflen V: MIPS: analysis and annotation of proteins from whole genomes in 2005. 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