cgi-bin/about/release_20040301.pl

   1 use strict;
   2 use CXGN::Page;
   3 my $page=CXGN::Page->new('release_20040301.html','html2pl converter');
   4 $page->header('About The Sol Genomics Network');
   5 print<<END_HEREDOC;
   6
   7   <center>
   8
   9
  10   <table summary="" width="720" cellpadding="0" cellspacing="0"
  11   border="0">
  12     <tr>
  13       <td>
  14         <h4>Release Notes March 1, 2004</h4><b>Summary</b>
  15 <ol>
  16 <li>New datasets -- eggplant, petunia and pepper ESTs and
  17         unigene builds.</li>
  18 <li>International Solanaceae Project Page -- A new version
  19         of the whitepaper is available!</li>
  20 <li>Updated toolbar and user interface</li>
  21 <li>Physical map data updated</li>
  22 <li>SGN people directory</li>
  23 <li>SOL Forum mailing list</li>
  24 <li>Bulk download facility</li>
  25 <li>FTP site</li>
  26 <li>Improved search interface</li>
  27 </ol>
  28
  29         <p><b>Detailed descriptions</b></p>
  30 <ol>
  31 <li><p>New datasets -- ESTs from Pepper, Petunia and
  32         Eggplant added, Potato build updated.</p>
  33
  34         <p>We have added EST data from pepper, petunia and
  35         eggplant. The pepper data was kindly submitted by Prof.
  36         Doil Choi of the KRIBB institute (http://www.kribb.re.kr)
  37         in Korea; the petunia data was kindly provided by Prof
  38         David Clark of University of Florida and Cornell
  39         University; and the eggplant data was supplied by Prof.
  40         Steven Tanksley of Cornell University. In addition, the
  41         potato unigene build was re-run with new sequences kindly
  42         provided by Robin Buell of TIGR, USA. We would like to
  43         sincerely thank these researchers for making their data
  44         available through SGN.</p>
  45 </li>
  46 <li><p>International Solanaceae Project (SOL) page</p>
  47
  48         <p>The International Solanaceae Project (SOL) page is
  49         available at http://sgn.cornell.edu/solanaceae-project/.
  50         SOL is an initiative that will create a coordinated network
  51         of knowledge about the Solanaceae family aimed at answering
  52         two of the most important questions about life and
  53         agriculture, namely (1) How can a common set of
  54         genes/proteins give rise to such a wide range of
  55         morphologically and ecologically distinct organisms that
  56         occupy our planet? and (2) How can a deeper understanding
  57         of the genetic basis of diversity be harnessed to better
  58         meet the needs of society in an environmentally-friendly
  59         way? In addition, the page contains information on the
  60         meeting in Dulles, Virginia last November and provides
  61         downloads for a number of documents, such as the SOL
  62         whitepaper draft, information and guidelines for the tomato
  63         sequencing project, and transcripts from the Dulles
  64         meeting. More information will be available soon, so check
  65         back frequently.</p>
  66 </li>
  67 <li><p>Updated toolbar and user interface</p>
  68
  69         <p>We continue to make improvements to the user interface,
  70         hopefully without causing too many disruptive changes. We
  71         have improved the toolbar with a better layout of the
  72         menus, which are now pull-down menus for easier direct
  73         access to the most important pages from any page. In
  74         addition, there is now a quick search feature which
  75         searches the entire database contents with one simple
  76         search. We have re-arranged some of the pages and added
  77         more help files and a data overview page
  78         (http://sgn.cornell.edu/content/sgn_data.pl). The
  79         search page was also overhauled and now has a more
  80         functional layout. Please let us know what you think of
  81         these changes.</p>
  82 </li>
  83 <li><p>Physical Map Data</p>
  84
  85         <p>We have integrated the results from almost 700 overgo
  86         markers linking the genetic map to the physical map. The
  87         results can be viewed graphically at
  88         http://sgn.cornell.edu/cview/map.pl?map_id=1&amp;physical=1.
  89         The purpose of this project was to develop a tomato
  90         physical map anchored to the genetic map and to identify
  91         the tomato BAC minimum tiling path for positional cloning
  92         and whole genome sequencing. 88,642 BAC clones from a
  93         Lycopersicon esculentum cv. Heinz 1706 BAC library with
  94         129,024 clones and roughly 15 genome equivalents generated
  95         Unambiguous fingerprints (Arizona Genome Institute). In
  96         order to anchor the fingerprinted BACs onto the tomato
  97         genetic map, overgo (overlapping oligonucleotide) probes
  98         were generated from a total of 1535 sequenced, mapped
  99         markers from the current high density tomato map. The map
 100         overview page is at
 101         http://sgn.cornell.edu/cview/index.pl
 102         .</p>
 103 </li>
 104 <li><p>SGN people directory</p>
 105
 106         <p>SGN has now a directory of people who are actively
 107         involved in Solanaceae research. The data can be searched
 108         and browsed on-line at
 109         http://sgn.cornell.edu/search/direct_search.pl?search=Directory.
 110         If you are in the database, a password should have been
 111         sent to you that allows you to modify and complete the
 112         information in your entry. If you are not yet in the
 113         database, you can add yourself at
 114         http://sgn.cornell.edu/solpeople/login.pl. You will
 115         have to create an account first and then you can add your
 116         information.</p>
 117 </li>
 118 <li><p>SOL-Forum mailing list</p>
 119
 120         <p>To better connect the solanaceae community, a new list
 121         has been made available that allows subscribed members to
 122         post messages to the list or ask questions to the
 123         community. You can subscribe to the list at
 124         http://caffeine.sgn.cornell.edu/mailman/listinfo/sol-forum.
 125         The scope of the list is solanaceae research and related
 126         topics. Please follow the guidelines of the list when
 127         posting to make this a useful tool for solanaceae
 128         researchers. Unsubscribing is possible at any moment.
 129         People who are not subscribe to the list cannot post
 130         messages, mainly because this prevents spammers from using
 131         the list.</p>
 132 </li>
 133 <li><p>Bulk download facility</p>
 134
 135         <p>SGN now has a bulk download facility that allows you to
 136         download data using lists of clone names, unigene ids, and
 137         microarray identifiers. You can specify the information
 138         that you would like to download, including associated clone
 139         names, associated unigene ids, sequence data and much more.
 140         Before downloading the data to your disk in tab delimited
 141         or fasta formats, you can browse the data on line. The bulk
 142         download is linked from the toolbar on every page and is
 143         directly available at:
 144         http://sgn.cornell.edu/bulk/input.pl.</p>
 145 </li>
 146 <li><p>FTP site</p>
 147
 148         <p>SGN now has an FTP site that allows you to download
 149         complete datasets. The ftp site is linked from the bulk
 150         download page (rightmost tab) and can also be accessed via
 151         ftp://ftp.sgn.cornell.edu using a web browser or ftp
 152         client. The FTP site is structured into folders that group
 153         datasets by type of data. Marker data, EST sequences,
 154         unigene sequences and much more can be downloaded. More
 155         data will be added to the FTP site in the coming months so
 156         check back frequently.</p>
 157 </li>
 158 <li><p>Improved searches</p>
 159 The database search interface has been improved in the following ways:
 160 <ul>
 161 <li>the different searches are now separated by 'tabs' for
 162         better navigation</li>
 163 <li>you can now search the unigenes using TIGR
 164         identifiers</li>
 165 <li>a library search has been added that allows you to search
 166         by name, organism, source tissue, development stage,
 167         etc.</li>
 168 </ul>
 169 </li>
 170 </ol>
 171       </td>
 172     </tr>
 173   </table>
 174
 175 </center>
 176 END_HEREDOC
 177 $page->footer();