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index.php from eXtensible Genome Data Broker at Krugle


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<?php
if(empty($SITEDEF_H)){require('SITEDEF.php');}
if(empty($PARAM_H)){require('getPARAM.php');}
require('SSI_GDBprep.php');
virtual("${CGIPATH}SSI_GDBgui.pl/THREE_COLUMN_HEADER/" . $SSI_QUERYSTRING);
?>

<div id="main" align="center">
<P align="left">
<b><?php echo $SITENAMEshort; ?></b> is being developed as a part of our NSF-funded project
"<a href="https://www.fastlane.nsf.gov/servlet/showaward?award=0110254">PlantGDB - Plant Genome Database and Analysis Tools</a>"
(PI: <a href="http://gremlin1.zool.iastate.edu/~volker/">Volker Brendel</a>).
The purpose of this resource is to provide a convenient sequence-centered genome view for <I><?php echo $LATINORGN; ?></I>, with a
narrow focus on gene structure annotation.
</P>

<P align="left">
At <?php echo $SITENAMEshort; ?>, you can browse the genome or zoom in on your favorite genes, look at the current gene structure annotation and
compare it with cDNA and EST evidence, and (if necessary) contribute your corrections and comments directly to the database.
You can access all functions of <?php echo $SITENAMEshort; ?> over the web, but you can also download the entire database and interface and install
it off-line on your laptop, for example.
The premise of this design is that research on the genome-scale is greatly facilitated by a database
backend (with all the standard query capabilities) and nice viewing tools.
Please see our <A href="./prj/"><color="#0000FF">Projects</A> page for how collaborators and we have been
using this - and <A href="<?php echo $WEBMASTER; ?>"><color="#0000FF">let us know</A> if you have something to add! 
</P>

<P align="left">
If you are new to this site and would like a short introduction to the resource, please check out the
<A href="./site_map.php">Site Map</A>.
If you would like a more thorough introduction, please check our <a href="./tutorial/">Tutorials</A>.
And if you prefer to explore this resource by getting going right away, it would be best to start by
<A href='<?php echo "${CGIPATH}getRegion.pl";?>'>Browsing</A> the genome or having alook at the <A href="./prj/">Projects</A> page.
Enjoy!
</P>

<P align="left"><BR>
For legends and help using <?php echo $SITENAMEshort; ?>, click wherever you see the <img src=<?php echo "'${IMAGEDIR}helpINFO.gif'" ?> border=0> symbol.
</P>

<P align="left"><BR>
Links to other <?php echo $COMMONORGN2; ?> resources are in the left column, as are links to <?php echo $SITENAMEshort; ?> <A href="./prj/">Projects</A>,
<A href="./tutorial/">Tutorials</A>, underlying <A href="./resource.php/">Data & Methods</A>, and <A href="./download.php">Download</A> options.
The Noteworthy column on the right provides links to particular topics of interest and recent projects.
</P>
</div>

<?php
require('SSI_GDBprep.php');
virtual("${CGIPATH}SSI_GDBgui.pl/STANDARD_FOOTER/" . $SSI_QUERYSTRING);
?>




See more files for this project here

eXtensible Genome Data Broker

The xGDB project provides scientists with an online portal for the integration of diverse sources of genomic data. Portals allow researchers to effectively target a specific scientific question by customizing their interactions with available data.

Project homepage: http://sourceforge.net/projects/xgdb
Programming language(s): JavaScript,Perl,PHP
License: other

  Annotation/
    Showcase/
      03nov01/
        CDNA.png
        EST.png
        GBK.png
        UCA.png
        description.html
        ruler.png
      04mar11/
        CDNA.png
        EST.png
        GBK.png
        UCA.png
        description.html
        ruler.png
      GeneModelMerge/
        CDNA.png
        EST.png
        GBK.png
        UCA.png
        index.php
        ruler.png
      GeneModelSplit/
        CDNA.png
        EST.png
        GBK.png
        UCA.png
        index.php
        ruler.png
    gaeval/
      examples/
        altspl.png
        amb3.png
        amb5.png
        att.png
        cov0.png
        cov1.png
        cov2.png
        cov3.png
        cov4.png
        fission.png
        fussion.png
        ovext.png
        unext.png
      GLquery.css
      GLquery.js
      cps.php
      fig1.png
      fig2.png
      figa.png
      gaeval_lists.php
      index.php
    ATchr2.aln
    ATchr3.aln
    ATchr5.aln
    UCAlist.php
    index.php
    vector.php
  Interns/
    spring2004/
      Anna_pic.jpg
      DNA Re1.gif
      DNA Re2.gif
      Exampl3.gif
      Exampl4.gif
      Exampl5.gif
      Exampl6.gif
      Exampl7.gif
      Main P1.jpg
      Xin_pic.jpg
      expression.gif
      index.php
      replication.jpg
      transcription.gif
      transcription_mov.gif
      watson.gif
    index.php
  prj/
    BMBR03/
      IMM/
      VAR2/
      greenwhite_paper.gif
      help.html
      index.html
      list
      sm.png
    BXZ03B/
      AraSet/
      OsBAC/
      atac/
      img/
      index.php
      xc
    RHMB05PP/
      figure_S1.jpg
      figure_S1.php
      index.php
      method.php
      table_S1.php
      table_S2.php
      table_S3.php
      table_S4.php
    TBWB04/
      PLC/
      AtOs-Human-PLC-NJtree.pdf
      AtOs-Human-PLC-distances.txt
      AtOs-Human-PLC.aln
      AtOs-Human-PLC.fas
      Plant-Human-PLC-Matching-NJtree.pdf
      Plant-Human-PLC-Matching-distances.txt
      Plant-Human-PLC-Matching.aln
      Plant-Human-PLC-Matching.fas
      Plant-Human-PLC-NJtree.pdf
      Plant-Human-PLC-distances.txt
      Plant-Human-PLC.aln
      Plant-Human-PLC.fas
      index.php
      plc.png
    ZB03NAR/
      U12.php
      U12.png
      U12_at_ax_acc_new.gif
      U12_at_ax_branch_new.gif
      U12_at_ax_donor_new.gif
      U12_gt_ag_acc_new.gif
      U12_gt_ag_branch_new.gif
      U12_gt_ag_donor_new.gif
      U12_splice_signals.php
      index.php
      ins
      multi_align_nhx.html
    ZSB03PP/
      algnmnts/
      alternativeSplicing/
      data/
      img/
      non_canonical/
      novel/
      ESTclustering.php
      downstreamUTRintrons.php
      extendedCoverage.php
      geneAnnotationVScdna.php
      geneAnnotationVSest.php
      index.php
      miniexons.php
      ncSpliceSites.php
      novelGenes.php
      u12Introns.php
      upstreamUTRintrons.php
      virtualNorthern.php
    index.php
  tmp/
  tutorial/
    CHR5_GSQexample/
    HOWTO/
    lesson/
    GSQ_ATGDB.php
    UCA_ATGDB.php
    index.php
    uca_tutorial.1.gif
    uca_tutorial.2.gif
    uca_tutorial.3.gif
    uca_tutorial.4.gif
  GDBstyle.css
  URIservices.php
  download.php
  index.php
  resource.php
  site_map.php