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class="hero-section hero-section_image-bottom container"> <div class="hero-section__row row"> <div class="hero-section__content col-8 offset-2"> <div class="hero-section__breadcrumbs"> <div class="block block-layout-builder block-extra-field-blocknodesection-pagebreadcrumbs"> <nav class="breadcrumb" role="navigation" aria-labelledby="system-breadcrumb"> <h2 id="system-breadcrumb" class="visually-hidden">Breadcrumb</h2> <ol> <li> <a href="/">Home</a> </li> <li> <a href="/coronavirus/covid-19">Coronavirus</a> </li> </ol> </nav> </div> </div> <div class="hero-section__title"> <div class="block block-layout-builder block-field-blocknodesection-pagetitle"> <span class="field field--name-title field--type-string field--label-hidden"><h1>How the Broad community is responding to COVID-19</h1> </span> </div> </div> </div> </div> </div> <div class="content-section container"> <div class="content-section__main"> <div class="block block-layout-builder block-field-blocknodesection-pagefield-gsp-featured-description"> <div class="clearfix text-formatted field field--name-field-gsp-featured-description field--type-text-long field--label-hidden field__item"><style type="text/css">@media only screen and (max-width: 768px) { /* For mobile phones: */ .explainersnav { display: block; } .button { display:inline-block; float:left; margin:2px; width:100%;clear:both; } div.normalbody { display:block; clear:both; width:100%; padding-top:10px; } div.explainerimage { display:block; clear:both; width:100%; } } @media only screen and (min-width: 768px) { /* For big screens: */ div.explainerimage { width:50%; padding-right:10px; display:block; float:left; } } .explainersnav { padding:20px 0px; display:table; border-spacing:5px; border-collapse:separate; width:100%; margin-left:-5px; margin-right:-5px; table-layout: fixed; } .button { text-decoration: none !important; background-color: transparent; border: 3px solid #0f6db7; background: #0f6db7 none repeat scroll 0 0; color: #ffffff; display: inline-block; font-size: 15px; font-weight: 600; line-height: 17px; padding: 10px 10px; text-transform: uppercase; display:table-cell; text-align:center; vertical-align: middle; /*width:25%;*/ } .on{ border: 3px solid #f16642; background: #f16642 none repeat scroll 0 0; color: #ffffff; text-decoration: none !important; } a.button:hover { border: 3px solid #f16642; cursor:pointer; } h2.explainer { font-size: 40px; margin-top: 10px; margin-bottom: 2px; } a.explainerblk { color:#000000!important; } .video-responsive{ overflow:hidden; padding-bottom:56.25%; position:relative; height:0; } .video-responsive iframe{ left:0; top:0; height:100%; width:100%; position:absolute; } .normalbody { display:block; width:48%; float:right; padding-left:20px; } .normalbody p { font-size: 19px; line-height: 30px; padding:10px 0; } .normalbody p:first-of-type { padding:0px 0; } .caption { font-size: 19px; line-height: 30px; padding:10px 0; } p.blue-text-small { font-size: 19px; line-height: 30px; margin-top:-10px; } p.blue-text-small-p2 { font-size: 19px; line-height: 30px;margin-top:10px; } .videocontainer { width:45%; display:block; float:left; } </style><p><em><strong>Update June 12, 2023: COVID</strong>-19 is still with us, but the once-urgent need for PCR testing has subsided and can be addressed by other providers focused on diagnostics. So the Broad Institute is winding down its COVID-19 diagnostic testing program, with June 30, 2023 as the last day of operations. The Broad continues to conduct research and develop technologies to better understand, diagnose, and treat infectious diseases.</em></p> <p> </p> <p class="blue-text-small blue-text">As the COVID-19 pandemic presents increasing public health challenges, scientists from around the world have responded with openness and unprecedented speed, studying the SARS-CoV-2 virus and working to develop new diagnostic technologies, treatments, and tools for researchers. Scientists at the Broad Institute of MIT and Harvard are contributing to this global effort in a variety of ways.</p> <p class="blue-text-small-p2 blue-text">Learn more about data portals and analytic resources being developed by Broad data scientists and software engineers to support COVID-19-related research.</p> <p> </p> <div class="explainersnav" id="top" name="top"><a class="button off" href="/node/628096#top">Clinical Testing</a> <a class="button off" href="/node/628106#top">Diagnostics & therapeutics R&D</a> <a class="button off" href="/node/628241#top">Epidemiology & Surveillance</a> <a class="button off" href="/node/628116#top">Disease Biology</a> <a class="button on" href="/node/628126#top">Data & portals</a> <a class="button off" href="/node/628121#top">Videos & seminars</a></div> <h2 class="explainer">Data & portals</h2> <p> </p> <p><a class="explainerblk" href="https://www.broadinstitute.org/news/online-tool-tracks-mutations-covid-19-virus"><strong>COVID-19 CG enables SARS-CoV-2 mutation and lineage tracking by locations and dates of interest (Broad news story)</strong></a></p> <p><em>February 23, 2021</em></p> <p><a href="https://covidcg.org/" style="font-size: 19px;">COVID-19 CG</a><span style="font-size: 19px;"> is an open resource for tracking SARS-CoV-2 single-nucleotide variations (SNVs) and lineages while filtering by location, date, gene, and mutation of interest. COVID-19 CG provides significant time, labor, and cost-saving utility to diverse projects on SARS-CoV-2 transmission, evolution, emergence, immune interactions, diagnostics, therapeutics, vaccines, and intervention tracking. COVID-19 CG, developed by Albert Tian Chen, Alina Chan, Ben Deverman and colleagues, will be continually upgraded with new features for users to quickly and reliably pinpoint mutations as the virus evolves throughout the pandemic and in response to therapeutic and public health interventions.</span></p> <p> </p> <p><a class="explainerblk" href="https://www.medrxiv.org/content/10.1101/2020.11.20.20227355v1" target="_blank"><strong><span class="explainerblk">Single cell profiling of COVID-19 patients: an international data resource from multiple tissues <em>(preprint)</em></span></strong></a></p> <p><em>November 23, 2020</em></p> <div> <div class="normalbody" style="width:100%;float: none; padding-left: 0px !important;"> <p>With its high-resolution view of the cellular and molecular underpinnings of biological processes, single-cell genomics can help improve the understanding of COVID-19. Early foundational work utilized existing data to characterize the putative target cells of SARS-CoV-2 samples from diverse organs, but these efforts were limited to samples derived from uninfected donors and other previously sampled disease indications. Jose Ordovas-Montanes, Alex Shalek, Alexandra-Chloe Villani, and others in the Chan Zuckerberg Initiative Single-Cell COVID-19 Consortia created and shared a single-cell data resource (<a href="http://https://www.covid19cellatlas.org/index.patient.html">covid19cellatlas.org</a>) derived from samples from COVID-19 patients, with the goal of accelerating our collective understanding of COVID-19.</p> <p> </p> </div> </div> <div> <div class="normalbody" style="width:100%;float: none; padding-left: 0px !important;"> <p> </p> </div> </div> <p><strong><span class="explainerblk">SARS-CoV-2 viral genomics workspace on Terra, containing data and analysis workflows from ongoing genomic epidemiological analysis of COVID-19 in Massachusetts</span></strong></p> <p><em>August 26, 2020</em></p> <div> <div class="normalbody" style="width:100%;float: none; padding-left: 0px !important;"> <p>Broad鈥檚 viral genomics group and <a href="https://www.broadinstitute.org/node/119531/">Data Sciences Platform</a> have created a <a href="https://app.terra.bio/#workspaces/pathogen-genomic-surveillance/COVID-19_Broad_Viral_NGS" target="_blank">public Terra workspace</a> containing 772 high quality (>98 percent complete) SARS-CoV-2 genomes collected from COVID-19 cases in Massachusetts. This dataset is described in this <a href="https://www.medrxiv.org/content/10.1101/2020.08.23.20178236v1" target="_blank">preprint</a> and <a href="https://www.broadinstitute.org/node/643951/">blog post</a>. The analysis workflows contained in the workspace allow researchers to perform reference-based SARS-CoV-2 genome assembly, phylogenetic analysis, and data submissions to NCBI GenBank. Both the phylogenetic analysis and GenBank submission workflows can operate on genomes that were assembled within <a href="https://app.terra.bio/" target="_blank">Terra</a> or imported from external assembly software. The data is also available in <a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA622837" target="_blank">NCBI GenBank</a> and visualized on <a href="http://nextstrain.org./" target="_blank">NextStrain.org</a>, as well as <a href="https://auspice.broadinstitute.org/" target="_blank">auspice.broadinstitute.org</a>.</p> <p> </p> </div> </div> <p><strong><a class="explainerblk" href="https://youtu.be/RIrJcq7SHRo" target="_blank">How the Single Cell Portal team is supporting COVID-19 research</a></strong></p> <p><em>April 22, 2020 </em></p> <div> <div class="explainerimage"> <div class="video-responsive"> <iframe allow="accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture" allowfullscreen frameborder="0" height="315" src="https://www.youtube.com/embed/RIrJcq7SHRo" width="560"></iframe></div> </div> <div class="normalbody"> <p>A video Q&A with Vicky Li Horst and Tim Tickle of the Broad鈥檚 <a href="/node/119531">Data Sciences Platform</a> about how scientists studying individual cells are collaborating with the <a href="https://singlecell.broadinstitute.org/single_cell" target="_blank">Single Cell Portal</a> team to advance COVID-19 research.</p> </div> </div> <div class="floatleft"> <p> </p> <p><strong><span class="explainerblk">Terra and Single Cell Portal teams release new COVID-19 resource pages</span></strong></p> <p><em>April 8, 2020</em></p> <div> <div class="explainerimage" style="display:none;"> <div class="video-responsive"> <iframe allow="accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture" allowfullscreen frameborder="0" height="315" src="https://www.youtube.com/embed//YTLINK" width="560"></iframe></div> </div> <div class="normalbody" style="width:100%;float: none; padding-left: 0px!important;"> <p>As scientists around the world analyze COVID-19 data, the Terra and Single Cell Portal teams in the Broad <a href="http://www.broadinstitute.org/node/119531/">Data Sciences Platform</a> (DSP) are prioritizing work to support the efforts. In collaboration with Broad scientists, these DSP teams have created the infrastructure for processing, analyzing, and sharing COVID-19 viral genomic data and single-cell sequencing data. Read more on the newly released COVID-19 resource pages from <a href="https://terra.bio/covid19" target="_blank">Terra</a> and the <a href="https://singlecell.broadinstitute.org/single_cell/covid19">Single Cell Portal</a>.</p> </div> </div> </div> </div> </div> </div> </div> <div class="content-section container"> <div class="content-section__main"> <div class="views-element-container block block-views block-views-blocknews-b-latest-bottom"> <div class="latest-bottom-wrapper"> <h3>Latest news</h3> <div class="view view-news view-id-news view-display-id-b_latest_bottom js-view-dom-id-c6e41dae3960f91b1fa7ff4088c10eaa748109d0caac36a5c7b5f3eb19c101d5"> <div class="view-content"> <div class="views-row"> <article about="/news/alex-rives-joins-faculty-broad-institute-and-mit" class="node node--type-long-story node--promoted node--view-mode-teaser-latest-bottom"> <div class="node__content"> <div class="teaser-news"> <div class="teaser-news__image teaser-news__image_top"> <div 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