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BioProject Overview
<!DOCTYPE html> <html lang="en"> <head> <meta charset="UTF-8" /> <meta property="og:title" content="BioProject Overview" /> <meta property="og:url" content="https://www.ddbj.nig.ac.jp/bioproject/overview-e.html" /> <meta property="og:description" content="Purpose of BioProjectAs measuring technologies dramatically advances in life sci..." /> <meta property6="og:image" content="/images/thumbnail/logo_ddbj_fb.png" /> <meta name="viewport" content="width=device-width, initial-scale=1.0" /> <title>BioProject Overview</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="bioproject"> <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/">(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"> <header id="PageHeader"> <div class="inner"> <div class="page-title"> <p class="title -normal">BioProject</p> </div> <nav class="tab-menu-view"> <ul class="tabmenucontainer"> <li class=""> <a href="/bioproject/index-e.html">Home</a> </li> <li class=" -haschild -current"> <a href="/bioproject/submission-e.html">Submission</a> <ul> <li> <a href="/bioproject/overview-e.html">Overview</a> </li> <li> <a href="/bioproject/project-info-e.html">Project Information</a> </li> </ul> </li> <li class=""> <a href="/faq/en/index-e.html?tag=bioproject">FAQ</a> </li> <li class=" -haschild"> <a href="http://ddbj.nig.ac.jp/search/">Search</a> <ul> <li> <a href="https://ddbj.nig.ac.jp/public/ddbj_database/bioproject/">Downloads</a> </li> </ul> </li> <li class=""> <a href="/bioproject/about-bioproject-e.html">About BioProject</a> </li> </ul> </nav> </div> </header> <section id="NavigationAndMainView"> <div class="inner"> <div class="subview"> <nav id="TableOfContents" class="internal-link"> </nav> </div> <section id="MainContentView" class="mainview"> <header class="header"> <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/bioproject/index-e.html">bioproject</a> </li> <li><a>BioProject Overview</a></li> </ul> </nav> <h1 class="title">BioProject Overview</h1> </header> <main class="md-content"> <h2 id="purpose">Purpose of BioProject</h2> <p>As measuring technologies dramatically advances in life sciences, vast and diverse data are submitted to public databases.<br /> The BioProject resource organizes both the projects and the data from those projects . This allows searching by characteristics of these projects, using the project description and project content across the databases.</p> <h2 id="project">Project</h2> <p>BioProject represents a submission, initiative, or group of data that is logically related in some manner, or is of interest to retrieve as a distinct dataset.<br /> By selecting <a href="/bioproject/project-info-e.html#Project_data_type">Project Data Types</a> (for example, “Genome Sequencing” and “Transcriptome or Gene Expression”), multiple studies can be merged into single project.<br /> In the project spanning multiple species, enter a taxonomic classification common to the species (e.g., genus name).</p> <h2 id="primary-and-umbrella">Primary and Umbrella projects</h2> <p>There are two basic types of projects; primary and umbrella projects.</p> <dl> <dt>Primary project:</dt> <dd>Submitted projects which are intended to represent and be linked to current or future data submissions. <span class="red">Primary projects can be kept private.</span></dd> <dt>Umbrella project:</dt> <dd>Administrative project that is created to group multiple projects that are related by a single effort from a single submitter or group of submitters. <span class="red">Umbrella projects cannot be kept private.</span></dd> </dl> <ul> <li>Submitted data can directly refer to primary projects but can not refer to umbrella projects. The data are linked to the umbrella project through the primary project.</li> <li>Submitted primary projects are not directly linked to other primary projects; they are linked indirectly by way of links to the umbrella project.</li> </ul> <h2 id="bioproject-hierarchy">BioProject hierarchy</h2> <p>Some large initiatives are represented by more than one layer of umbrella projects (see Figure B below); for instance, a top-most level may identify the largest definition of the collaboration; a second level of umbrella projects identify the primary categories of data production; and finally a third layer represents the projects that actually generate the data that is submitted.</p> <div class="figure"> <a class="group1" href="/assets/images/submission/bp_org.jpg" title="Schematic diagram of BioProject hierarchies. (A)Two layers. (B)Three layers."> <figure class="image"> <img src="/assets/images/submission/bp_org.jpg" alt="Schematic diagram of BioProject hierarchies. (A)Two layers. (B)Three layers." class="w450" /> <figcaption>Schematic diagram of BioProject hierarchies. (A)Two layers. (B)Three layers.</figcaption> </figure> </a> </div> <h2 id="release">Data release</h2> <div class="figure"> <a class="group1" href="/assets/images/submission/release_re.jpg" title="Triggering of data release between primary projects and data records."> <figure class="image"> <img src="/assets/images/submission/release_re.jpg" alt="Triggering of data release between primary projects and data records." class="w450" /> <figcaption>Triggering of data release between primary projects and data records.</figcaption> </figure> </a> </div> <ul> <li>You can “immediately release” or “hold” the registered primary project.</li> <li>The submitted primary project data can be kept private until the linked DDBJ/DRA/GEA/MetaboBank data made be public.</li> <li>Hold date of the project data cannot be specified.</li> <li>Primary project data are automatically released when the linked DDBJ/DRA/GEA/MetaboBank data are published.</li> <li>Publication of the primary project do not cause automatic release of the linked DDBJ/DRA/GEA/MetaboBank data.</li> <li>Under a primary project, publication of data does not cause the indirect release of the other data belong to the same project.</li> </ul> <p>FAQ: <a href="/faq/en/bp-bs-seq-release.html">How are linked BioProject/BioSample/sequence data released?</a></p> <div class="figure"> <a class="group1" href="/assets/images/submission/um_pri_visibility.jpg" title="Visibility of relationships between a public umbrella and primary projects."> <figure class="image"> <img src="/assets/images/submission/um_pri_visibility.jpg" alt="Visibility of relationships between a public umbrella and primary projects." class="w450" /> <figcaption>Visibility of relationships between a public umbrella and primary projects.</figcaption> </figure> </a> </div> <p><span class="red">An umbrella project cannot be kept private.</span></p> <p>An umbrella project can have public and private primary projects. Hierarchical relationship between the public umbrella project and the un-released primary project is invisible.</p> <p>Released project data are exchanged with the other two INSDC partners <a href="https://www.ncbi.nlm.nih.gov/bioproject">NCBI</a>and <a href="https://www.ebi.ac.uk/">EBI</a> BioProject databases.</p> <p>FAQ: <a href="/faq/en/request-release-e.html">How to request data release?</a></p> <h2 id="use-umbrella-project">Use an umbrella project</h2> <p>You can submit an umbrella project from the <a href="https://ddbj.nig.ac.jp/D-way/">D-way submission system</a> in the same way as primary project. To remind the DDBJ BioProject team, you need to enter “this is an umbrella project” in the <a href="/bioproject/project-info-e.html#Private_comments">Private comments to DDBJ staff</a>.<br /> Registered umbrella project cannot be kept private.</p> <p>To group primary projects under an umbrella, please follow the steps below. <br /> First, submit and release an umbrella project. If necessary, please share the assigned PRJDB number with relevant researchers.<br /> When submitting related primary projects, please provide the PRJDB number of parent umbrella in the <a href="/bioproject/project-info-e.html#Area_linked-project">Umbrella BioProject</a>. Released primary projects are automatically linked to the specified umbrella project.</p> <p>If you want to add already registered primary projects to the umbrella, please inform the PRJDB numbers of umbrella and related primary projects to the <a href="https://forms.gle/T7faNoDCvmQoTiWq9">DDBJ BioProject team</a>.</p> </main> </section> </div> </section> </div> <footer></footer> <div id="back-top"></div> </body> </html>