<commit_before><?xml version="1.0"?>
<!-- -*- DocBook -*- -->

<article>
  <para>
    The FlyMine project is building an integrated database of
    genomic, expression and protein data for
    <firstterm>Drosophila</firstterm> and <firstterm>Anopheles</firstterm>
    and making this available to the worldwide research community via web
    and bioinformatics interfaces. The FlyMine project is based at the
    <ulink url="http://www.gen.cam.ac.uk">Department of Genetics</ulink>,
    <ulink url="http://www.cam.ac.uk">University of Cambridge</ulink> and
    is a collaboration between the Genetics and 
    <ulink url="http://www.bioc.cam.ac.uk">Biochemistry</ulink> departments of
    the University of Cambridge.
  </para>

<index>
<section id = "frontPageIntroduction">
     <heading>The FlyMine database project</heading>
        <item><ulink url = "introduction.xml">Introduction </ulink>to the project</item>
        <item>New Users:<ulink url = "manual/manualQuickstart.xml"> quick start guide</ulink></item> 

</section>

<section>
      <heading>Query The Database</heading>
      <item>
        Start a new query with a <ulink url="classChooser.do">particular class</ulink>
      </item>
      <item>
        Start a query using a <ulink url="history.do">previous query</ulink>
      </item>
      <item>
        Search using a list of<ulink url="bagBuild.do"> identifiers</ulink>
      </item>
      <item>
        Use a <ulink url="examples.do">query example</ulink>
      </item>
      <item>
        Perform a query using <ulink url="iqlQuery.do">IQL (advanced usage)</ulink>
      </item>
    </section>


   
    <section>
      <heading>Help</heading>
      <item>
        FlyMine <ulink url="manual/manualQuickstart.xml">quick start guide</ulink>
      </item>
      <item>
        <ulink url="tutorials/tutorialIndex.xml">Tutorials</ulink> - step-by-step guide to queries
      </item>
      <item>
        <ulink url="examples.do">Query examples</ulink>
      </item>
      <item>
        <ulink url="manual/manualIndex.xml">User Manual</ulink>
      </item>
    </section>





    <section>
      <heading>Current Data Sources</heading>
      <item>
        Genome Annotation for D. melanogaster and A. gambiae from Ensembl
        (<ulink url= "http://www.ensembl.org"></ulink>)
      </item> 
      
      <item>
        Orthologues between D. melanogaster and A. gambiae from Ensembl
        (<ulink url= "http://www.ensembl.org"></ulink>)
      </item><commit_msg>New path for manual & tutorials<commit_after><?xml version="1.0"?>
<!-- -*- DocBook -*- -->

<article>
  <para>
    The FlyMine project is building an integrated database of
    genomic, expression and protein data for
    <firstterm>Drosophila</firstterm> and <firstterm>Anopheles</firstterm>
    and making this available to the worldwide research community via web
    and bioinformatics interfaces. The FlyMine project is based at the
    <ulink url="http://www.gen.cam.ac.uk">Department of Genetics</ulink>,
    <ulink url="http://www.cam.ac.uk">University of Cambridge</ulink> and
    is a collaboration between the Genetics and 
    <ulink url="http://www.bioc.cam.ac.uk">Biochemistry</ulink> departments of
    the University of Cambridge.
  </para>

<index>
<section id = "frontPageIntroduction">
     <heading>The FlyMine database project</heading>
        <item><ulink url = "introduction.xml">Introduction </ulink>to the project</item>
        <item>New Users:<ulink url = "doc/manual/manualQuickstart.xml"> quick start guide</ulink></item> 

</section>

<section>
      <heading>Query The Database</heading>
      <item>
        Start a new query with a <ulink url="classChooser.do">particular class</ulink>
      </item>
      <item>
        Start a query using a <ulink url="history.do">previous query</ulink>
      </item>
      <item>
        Search using a list of<ulink url="bagBuild.do"> identifiers</ulink>
      </item>
      <item>
        Use a <ulink url="examples.do">query example</ulink>
      </item>
      <item>
        Perform a query using <ulink url="iqlQuery.do">IQL (advanced usage)</ulink>
      </item>
    </section>


   
    <section>
      <heading>Help</heading>
      <item>
        FlyMine <ulink url="doc/manual/manualQuickstart.xml">quick start guide</ulink>
      </item>
      <item>
        <ulink url="doc/tutorials/tutorialIndex.xml">Tutorials</ulink> - step-by-step guide to queries
      </item>
      <item>
        <ulink url="examples.do">Query examples</ulink>
      </item>
      <item>
        <ulink url="doc/manual/manualIndex.xml">User Manual</ulink>
      </item>
    </section>





    <section>
      <heading>Current Data Sources</heading>
      <item>
        Genome Annotation for D. melanogaster and A. gambiae from Ensembl
        (<ulink url= "http://www.ensembl.org"></ulink>)
      </item> 
      
      <item>
        Orthologues between D. melanogaster and A. gambiae from Ensembl
        (<ulink url= "http://www.ensembl.org"></ulink>)
      </item>
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