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<div class="pre-content"><div><div class="bk_prnt"><p class="small">NCBI Bookshelf. A service of the National Library of Medicine, National Institutes of Health.</p><p>SNP FAQ Archive [Internet]. Bethesda (MD): National Center for Biotechnology Information (US); 2005-. </p></div><div class="messagearea bk_noprnt" style="margin-bottom:1.3846em "><ul class="messages"><li class="warn icon"><span class="icon">This publication is provided for historical reference only and the information may be out of date.</span></li></ul></div><div class="bk_prnt"><p style="color:red;"><strong>This publication is provided for historical reference only and the information may be out of date.</strong></p></div><div class="iconblock clearfix whole_rhythm no_top_margin bk_noprnt"><a class="img_link icnblk_img" title="Table of Contents Page" href="/books/n/helpsnpfaq/"><img class="source-thumb" src="/corehtml/pmc/pmcgifs/bookshelf/thumbs/th-helpsnpfaq-lrg.png" alt="Cover of SNP FAQ Archive" height="100px" width="80px" /></a><div class="icnblk_cntnt eight_col"><h2>SNP FAQ Archive [Internet].</h2><a data-jig="ncbitoggler" href="#__NBK573571_dtls__">Show details</a><div style="display:none" class="ui-widget" id="__NBK573571_dtls__"><div>Bethesda (MD): <a href="https://www.ncbi.nlm.nih.gov/" ref="pagearea=page-banner&targetsite=external&targetcat=link&targettype=publisher">National Center for Biotechnology Information (US)</a>; 2005-.</div></div><div class="half_rhythm"><ul class="inline_list"><li style="margin-right:1em"><a class="bk_cntns" href="/books/n/helpsnpfaq/">Contents</a></li></ul></div></div><div class="icnblk_cntnt two_col"><div class="pagination bk_noprnt"><a class="active page_link prev" href="/books/n/helpsnpfaq/GSTqck_GST_Defined/" title="Previous page in this title">< Prev</a><a class="active page_link next" href="/books/n/helpsnpfaq/GSTqck_Use_GST_frst/" title="Next page in this title">Next ></a></div></div></div></div></div>
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<div class="main-content lit-style" itemscope="itemscope" itemtype="http://schema.org/CreativeWork"><div class="meta-content fm-sec"><h1 id="_NBK573571_"><span class="title" itemprop="name">GST Features</span></h1><p class="small">Created: <span itemprop="datePublished">April 23, 2008</span>; Last Update: <span itemprop="dateModified">June 15, 2010</span>.</p><p><em>Estimated reading time: 1 minute</em></p></div><div class="body-content whole_rhythm" itemprop="text"><ul class="simple-list"><li><p><a href="#GSTqck_GST_Features.what_exactly_does_gs">What exactly does GST allow me to do?</a></p></li><li><p><a href="#GSTqck_GST_Features.isn_t_the_same_infor">Isn’t the same information and functionality you claim for GST available elsewhere on the NCBI website? What makes GST so special?</a></p></li><li><p><a href="#GSTqck_GST_Features.can_i_use_genome_wor">Can I use Genome Workbench to annotate SNP data for candidate genes?</a></p></li></ul><div><h4 id="GSTqck_GST_Features.what_exactly_does_gs">What exactly does GST allow me to do?</h4><blockquote><p>The Genome Workbench (Gbench) SNP Tools (GST) are utilities completely integrated into the Gbench program that allow you to view and analyze SNP data using Gbench applications. Using GST you will be able to:</p><ul><li class="half_rhythm"><div>Show significant SNPs in a Genome-Wide Association Study</div></li><li class="half_rhythm"><div>List SNPs in a given region</div></li><li class="half_rhythm"><div>Filter SNPs based on the bitfield properties described in <a href="ftp://ftp.ncbi.nlm.nih.gov/snp/specs/dbSNP_bitField_v3.pdf" ref="pagearea=body&targetsite=external&targetcat=link&targettype=ftp">the dbSNP bitfield .pdf</a></div></li><li class="half_rhythm"><div>The Gbench program itself provides many additional tools:</div></li></ul><p>Database Searches (Nucleotide, Entrez Gene, Entrez Genome)</p><p>Annotation Comparison View</p><p>FASTA Text View</p><p>Feature Table View</p><p>Graphical (Alignment) View</p><p>Sequence Text View</p><p>You can find detailed information about Gbench tools and how to use them at the <a href="/projects/gbench/help.html" ref="pagearea=body&targetsite=external&targetcat=link&targettype=uri">Genome Workbench Help site</a>. (<b>04/23/08</b>)</p></blockquote></div><div><h4 id="GSTqck_GST_Features.isn_t_the_same_infor">Isn’t the same information and functionality you claim for GST available elsewhere on the NCBI website? What makes GST so special?</h4><blockquote><p>Other NCBI web services will show you publicly available data. GST can show you both public and private data. You can use GST to check your private data against publicly available data to better understand your research. (<b>04/23/08</b>)</p></blockquote></div><div><h4 id="GSTqck_GST_Features.can_i_use_genome_wor">Can I use Genome Workbench to annotate SNP data for candidate genes?</h4><blockquote><p>At this time, users of Genome Workbench (GBench) cannot edit annotations such as SNPs within the application. Gbench will, however, allow users to import and load annotations using GFF, Feature table, or other supported formats so that they can see custom features/SNPs displayed.</p><p>Here are references for a few of the file formats:</p><p>
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<a href="http://www.sanger.ac.uk/Software/formats/GFF/GFF_Spec.shtml#standard_feature_table" ref="pagearea=body&targetsite=external&targetcat=link&targettype=uri">GFF</a>
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</p><p>Feature-table:</p><p>
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