{"id":694,"date":"2023-08-28T12:00:40","date_gmt":"2023-08-28T12:00:40","guid":{"rendered":"https:\/\/terrabioappdev.wpenginepowered.com\/single-cell-portal-accelerates-genomics-research-with-terra\/"},"modified":"2023-12-27T04:55:59","modified_gmt":"2023-12-27T04:55:59","slug":"single-cell-portal-accelerates-genomics-research-with-terra","status":"publish","type":"post","link":"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/","title":{"rendered":"Single Cell Portal Accelerates Genomics Research with Terra"},"content":{"rendered":"<p><a href=\"https:\/\/singlecell.broadinstitute.org\/single_cell\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">Single Cell Portal<\/span><\/a><span style=\"font-weight: 400;\"> (SCP) is an online portal for sharing single-cell genomics data that is built on top of Terra. Through its searchable database of single-cell studies, interactive visualizations, and sharing tools, SCP supports single-cell researchers throughout the research process. SCP recently published a\u00a0 <\/span><a href=\"https:\/\/www.biorxiv.org\/content\/10.1101\/2023.07.13.548886v1\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">whitepaper\u00a0<\/span><\/a><span style=\"font-weight: 400;\"> that lays out how the Portal provides this support &#8211; this post summarizes the highlights.<\/span><\/p>\n<p><b>Navigating a growing amount of data<\/b><\/p>\n<p><span style=\"font-weight: 400;\">Single-cell research is a growing field, with an exponential growth in publications since 2009.<\/span><\/p>\n<p><img fetchpriority=\"high\" decoding=\"async\" class=\"wp-image-1680 aligncenter\" src=\"https:\/\/terra.bio\/wp-content\/uploads\/2023\/12\/Fig1.png\" alt=\"\" width=\"563\" height=\"393\" \/><\/p>\n<p><span style=\"font-weight: 400;\">These data are a powerful tool, but they also pose a challenge for researchers seeking to integrate these findings into their own work: it&#8217;s hard to sift through hundreds of papers a year to find the data that are relevant. Researchers trying to share their data may also struggle to reach the right audience.\u00a0<\/span><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><span style=\"font-weight: 400;\">SCP helps researchers navigate these challenges to find and share data more easily.<\/span><\/p>\n<p><img decoding=\"async\" class=\"alignnone wp-image-1678\" src=\"https:\/\/terra.bio\/wp-content\/uploads\/2023\/12\/CoverFigure.png\" alt=\"\" width=\"1336\" height=\"698\" \/><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><\/p>\n<p><b>Sparking an idea<\/b><\/p>\n<p><span style=\"font-weight: 400;\">SCP\u2019s database provides access to over 500 single-cell studies. Advanced search tools make it easy to zero in on the studies that are relevant to a particular research area. For example, researchers can search by disease, organ, cell type, gene, and library preparation protocol, depending on their questions.\u00a0<\/span><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><span style=\"font-weight: 400;\">SCP\u2019s interactive visualizations make it easy to explore these datasets, even if researchers don\u2019t have a computational background. This allows users to answer key questions that a static paper figure couldn\u2019t answer, and often more quickly than reading a paper would allow.\u00a0<\/span><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><b>Fine-tuning your data<\/b><\/p>\n<p><span style=\"font-weight: 400;\">SCP is also a valuable tool for collaborations between computational and non-computational researchers. For example, a computational biologist described how SCP bridges the \u201cwetlab-drylab divide\u201d between collaborators in <\/span><a href=\"https:\/\/terra.bio\/single-cell-portal-for-collaborations\/\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">Single Cell Portal for collaborations<\/span><\/a><span style=\"font-weight: 400;\">: once computationalists upload analysis results to a private SCP study, wet-lab collaborators can explore the data and provide feedback on how to adjust the analysis \u2013 without ever having to touch R or a command line.<\/span><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><b>Sharing results<\/b><\/p>\n<p><span style=\"font-weight: 400;\">Once the data are finalized, making them public on SCP increases the work\u2019s impact. An SCP study invites other researchers to engage deeply with the data, exploring it interactively and using it as a reference for patterns observed across studies. Researchers can even download the data \u2013 which are hosted within a FISMA-compliant boundary on Terra \u2013 and integrate those data into their own analyses.\u00a0<\/span><\/p>\n<p><span style=\"color: #000000;\">\u00a0<\/span><b>Try it out!<\/b><\/p>\n<p><span style=\"color: #000000;\"><span style=\"font-weight: 400;\">If you\u2019re intrigued, you can learn more about how Single Cell Portal accelerates single-cell research by reading our <\/span><a href=\"https:\/\/www.biorxiv.org\/content\/10.1101\/2023.07.13.548886v1\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">whitepaper<\/span><\/a><span style=\"font-weight: 400;\">. You can also visit a <\/span><a href=\"https:\/\/singlecell.broadinstitute.org\/single_cell\/study\/SCP2271\/scp-visualizations-demo\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">demo study<\/span><\/a><span style=\"font-weight: 400;\"> to try out the Portal\u2019s interactive visualizations and check out our <\/span><a href=\"https:\/\/singlecell.zendesk.com\/hc\/en-us\/sections\/1260803061189-Setting-up-an-SCP-study\" target=\"_blank\" rel=\"noopener\"><span style=\"font-weight: 400;\">documentation <\/span><\/a><span style=\"font-weight: 400;\">for details on how to upload your own data to the Portal. <\/span><\/span><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Single Cell Portal (SCP) is an online portal for sharing single-cell genomics data that is built on top of Terra. Through its searchable database of single-cell studies, interactive visualizations, and sharing tools, SCP supports single-cell researchers throughout the research process. SCP recently published a\u00a0 whitepaper\u00a0 that lays out how the Portal provides this support &#8211; [&hellip;]<\/p>\n","protected":false},"author":58,"featured_media":697,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[119],"tags":[111,195,164,196,143],"class_list":["post-694","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-most-recent","tag-genomics","tag-portal","tag-single-cell","tag-terra","tag-visualization"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.0 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Single Cell Portal Accelerates Genomics Research with Terra - Terra<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Single Cell Portal Accelerates Genomics Research with Terra - Terra\" \/>\n<meta property=\"og:description\" content=\"Single Cell Portal (SCP) is an online portal for sharing single-cell genomics data that is built on top of Terra. Through its searchable database of single-cell studies, interactive visualizations, and sharing tools, SCP supports single-cell researchers throughout the research process. SCP recently published a\u00a0 whitepaper\u00a0 that lays out how the Portal provides this support &#8211; [&hellip;]\" \/>\n<meta property=\"og:url\" content=\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\" \/>\n<meta property=\"og:site_name\" content=\"Terra\" \/>\n<meta property=\"article:published_time\" content=\"2023-08-28T12:00:40+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2023-12-27T04:55:59+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/terra.bio\/wp-content\/uploads\/2023\/12\/SCP_logo_bogpost.png\" \/>\n\t<meta property=\"og:image:width\" content=\"895\" \/>\n\t<meta property=\"og:image:height\" content=\"217\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"author\" content=\"Leyla Tarhan\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Leyla Tarhan\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"2 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/#article\",\"isPartOf\":{\"@id\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\"},\"author\":{\"name\":\"Leyla Tarhan\",\"@id\":\"https:\/\/terra.bio\/#\/schema\/person\/8fa81a720f36a99643e444ca82d1af7a\"},\"headline\":\"Single Cell Portal Accelerates Genomics Research with Terra\",\"datePublished\":\"2023-08-28T12:00:40+00:00\",\"dateModified\":\"2023-12-27T04:55:59+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\"},\"wordCount\":443,\"commentCount\":0,\"publisher\":{\"@id\":\"https:\/\/terra.bio\/#organization\"},\"image\":{\"@id\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/terra.bio\/wp-content\/uploads\/2023\/12\/SCP_logo_bogpost.png\",\"keywords\":[\"genomics\",\"Portal\",\"single-cell\",\"Terra\",\"visualization\"],\"articleSection\":[\"Most Recent\"],\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"CommentAction\",\"name\":\"Comment\",\"target\":[\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/#respond\"]}]},{\"@type\":\"WebPage\",\"@id\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\",\"url\":\"https:\/\/terra.bio\/single-cell-portal-accelerates-genomics-research-with-terra\/\",\"name\":\"Single Cell Portal Accelerates Genomics Research with Terra - 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