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Japanese Genotype-phenotype Archive
<!DOCTYPE html> <html lang="en"> <head> <meta charset="UTF-8" /> <meta property="og:title" content="Japanese Genotype-phenotype Archive" /> <meta property="og:url" content="https://www.ddbj.nig.ac.jp/jga/index-e.html" /> <meta property="og:description" content="IntroductionThe Japanese Genotype-phenotype Archive (JGA) is a service for perma..." /> <meta property6="og:image" content="/images/thumbnail/logo_ddbj_fb.png" /> <meta name="viewport" content="width=device-width, initial-scale=1.0" /> <title>Japanese Genotype-phenotype Archive</title> <script async src="https://www.google-analytics.com/analytics.js"></script> <script src="https://code.jquery.com/jquery-3.5.0.js" integrity="sha256-r/AaFHrszJtwpe+tHyNi/XCfMxYpbsRg2Uqn0x3s2zc=" crossorigin="anonymous"></script> <script src="https://cdnjs.cloudflare.com/ajax/libs/jquery.hoverintent/1.10.1/jquery.hoverIntent.min.js" integrity="sha512-gx3WTM6qxahpOC/hBNUvkdZARQ2ObXSp/m+jmsEN8ZNJPymj8/Jamf8+/3kJQY1RZA2DR+KQfT+b3JEB0r9YRg==" crossorigin="anonymous"></script> <script src="https://cdnjs.cloudflare.com/ajax/libs/spin.js/4.1.0/spin.min.js" integrity="sha512-CbohqWjAgarTqRHcX1MbwkF2pujwbsCee1PABpnBWC+VqSldvlNEEI5+4OSsR/HbFQOFFpwY2YvZZNjBMxNnXg==" crossorigin="anonymous"></script> <script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/jquery.colorbox/1.6.4/jquery.colorbox-min.js"></script> <script type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/jquery-deparam/0.5.3/jquery-deparam.min.js"></script> <script type="text/javascript" src="https://www.ddbj.nig.ac.jp/assets/js/jquery.trace.js"></script> <script type="text/javascript" src="https://www.ddbj.nig.ac.jp/assets/js/jquery.json_search.js"></script> <link rel="icon" href="https://www.ddbj.nig.ac.jp/assets/images/favicon_ddbj.ico"> <link rel="stylesheet" href="https://www.ddbj.nig.ac.jp/assets/css/colorbox.css" /> <link rel="stylesheet" href="https://www.ddbj.nig.ac.jp/assets/css/main.css" /> <link rel="alternate" type="application/rss+xml" title="My Site RSS" href="/feed.xml" /> <script src="https://www.ddbj.nig.ac.jp/assets/js/main.js"></script> </head> <body data-category="jga"> <script src="https://www.ddbj.nig.ac.jp/assets/js/ddbj_common_framework.js" id="DDBJ_common_framework" style="display: block; height: 40px;" data-bottom-menu="true" data-ddbj-home-page="true" data-search="true" ></script> <section class="top-news-view"> <div class="inner"> <ul> <li class="item"> <a href="https://www.ddbj.nig.ac.jp/news/en/2024-10-22-e">On Cyber Threats against DDBJ, a node of the International Nucleotide Sequence Database Collaboration</a> </li> <li class="item"> <a href="https://www.ddbj.nig.ac.jp/news/en/2024-11-22-e">(27th November 9:00-November 28th 12:00)Announcement of D-way/MSS suspension</a> </li> <li class="item"> <a href="https://www.ddbj.nig.ac.jp/news/en/">(12th December 8:00-20th December 12:00(JST)) Suspension of DDBJ services due to NIG supercomputer maintenance</a> </li> </ul> </div> </section> <div id="primary"> <div id="TopPageView"> <div class="inner"> <section class="maincolumn"> <header data-category="jga"> <h1 class="title">Japanese Genotype-phenotype Archive</h1> <div class="description"></div> </header> <nav class="tab-menu-view"> <ul class="tabmenucontainer"> <li class=" -current"> <a href="/jga/index-e.html">Home</a> </li> <li class=" -haschild"> <a href="https://humandbs.biosciencedbc.jp/en/data-use/all-researches">Browse researches at NBDC</a> <ul> <li> <a href="https://ddbj.nig.ac.jp/search">DDBJ Search</a> </li> </ul> </li> <li class=" -haschild"> <a href="/jga/submission-e.html">Submission</a> <ul> <li> <a href="/jga/submission-step-e.html">How to submit</a> </li> <li> <a href="/jga/download-e.html">How to access data</a> </li> <li> <a href="/jga/group-e.html">Groups</a> </li> <li> <a href="https://github.com/ddbj/submission-excel2xml/tree/main/example">Example submission</a> </li> <li> <a href="https://github.com/ddbj/pub/tree/master/docs/jga/xsd/">XML Schema</a> </li> </ul> </li> <li class=""> <a href="/faq/en/index-e.html?tag=jga">FAQ</a> </li> </ul> </nav> <nav class="breadcrumb-view"> <ul> <li> <a href="https://www.ddbj.nig.ac.jp/index-e.html">Home</a> </li> <li> <a href="https://www.ddbj.nig.ac.jp/jga/index-e.html">jga</a> </li> <li><a>Japanese Genotype-phenotype Archive</a></li> </ul> </nav> <main class="md-content"> <h2 id="introduction">Introduction</h2> <p>The Japanese Genotype-phenotype Archive (JGA) is a service for permanent archiving and sharing of all types of individual-level genetic and de-identified phenotypic data resulting from biomedical research projects. The JGA contains exclusive data collected from individuals whose consent agreements authorize data release only for specific research use or to researchers. Strict protocols govern how information is managed, stored and distributed by the JGA. Once processed, all data are encrypted. Users can contact the JGA team from <a href="/contact-ddbj-e.html">here</a>.<br /> JGA services are provided in collaboration with the <a href="https://dbcls.rois.ac.jp/index-en.html">Database Center for Life Science (DBCLS)</a> of <a href="https://www.rois.ac.jp/en/index.html">Research Organization of Information and Systems</a>.</p> <h2 id="access">Data access</h2> <p>The JGA implements access-granting policy whereby the decisions of who will be granted access to the data resides with the <a href="http://humandbs.dbcls.jp/">DBCLS</a>. The users apply for data access to <a href="http://humandbs.dbcls.jp/">DBCLS</a> and the JGA will only facilitate secure access to the data once the information of a successful application process has been passed from the DBCLS to JGA.</p> <h2 id="submission">Data submission</h2> <p>The JGA accepts only de-identified data approved by DBCLS (<a href="/policies-e.html#submission-of-human-data">Data submission of human subjects research</a>). The users apply for data submission to <a href="http://humandbs.dbcls.jp/">DBCLS</a> and the JGA will only accept and process submissions once the information of a successful application process has been passed from the DBCLS to the JGA. Prior to data submission, the submitters should <a href="/contact-ddbj-e.html">contact the JGA</a>. A separate notification will then be sent to the submitter including the instructions of how to upload the data into JGA.</p> <p>After data submission the JGA team will process the data into databases and archive the original data files. The accepted data types include manufacturer-specific raw data formats from the array-based and new sequencing platforms. The processed data such as the genotype and structural variants or any summary level statistical analyses from the original study authors are stored in databases. The JGA also accepts and distributes any phenotype data associated with the samples. For other human biological data, please contact the <a href="http://humandbs.dbcls.jp/">Human Data Review Board Office</a>.</p> <h2 id="release">Data release</h2> <p>JGA submission is released after a <a href="https://humandbs.dbcls.jp/data-use/all-researches">hum research page</a> is published at the NBDC Human Database.</p> </main> <ul class="panel-view-container"> </ul> </section> <aside class="pickup-news-view"> <div class="container"> <h2 class="title">NEWS</h2> <ul class="list"> <li class="item"> <article class="news"> <a href="/news/en/2024-11-25-e.html"> <h3 class="title">(12th December 8:00 - 20th December 12:00(JST)) Suspension of DDBJ services due to NIG supercomputer maintenance</h3> <ul class="tag-list-view"> <li class="date"><time datetime="2024-11-25 09:00:00 +0900">2024/11/25</time></li> <li class="tag-view" data-tag="銉°兂銉嗐儕銉炽偣">銉°兂銉嗐儕銉炽偣</li> <li class="tag-view" data-tag="ddbj" title="Annotated/Assembled Sequences (DDBJ)">DDBJ</li> <li class="tag-view" data-tag="bioproject" title="BioProject">BioProject</li> <li class="tag-view" data-tag="biosample" title="BioSample">BioSample</li> <li class="tag-view" data-tag="dra" title="Sequence Read Archive (DRA)">DRA</li> <li class="tag-view" data-tag="gea" title="Genomic Expression Archive (GEA)">GEA</li> <li class="tag-view" data-tag="jga" title="Japanese Genotype-phenotype Archive (JGA)">JGA</li> <li class="tag-view" data-tag="agd" title="AMED Genome Group Sharing Database (AGD)">AGD</li> <li class="tag-view" data-tag="top" title="DDBJ Center">DDBJ Center</li> </ul> </a> </article> </li> </ul> <a class="arrowed-link" href="/news/en/index-e.html?tag=jga">more</a> </div> </aside> </div> </div> </div> <footer></footer> <div id="back-top"></div> </body> </html>