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<!doctype html>
<html lang="en">
<head>
<script type="text/javascript" async="" src="https://www.google-analytics.com/analytics.js"></script>
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-125416607-1"></script>
<script>function gtag(){dataLayer.push(arguments)}window.dataLayer=window.dataLayer||[],gtag("js",new Date),gtag("config","UA-125416607-1")</script>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width,initial-scale=1,shrink-to-fit=no">
<meta name="theme-color" content="#000000">
<link href="https://fonts.googleapis.com/css?family=Roboto" rel="stylesheet">
<link rel="manifest" href="/manifest.json">
<link rel="shortcut icon" href="/Biohub_Roundel_only.png"><title>RVisualization</title>
<link href="/static/css/main.a0d75afd.css" rel="stylesheet">
</head>
<body>
<noscript>You need to enable JavaScript to run this app.</noscript>
<div id="root">
<div>
<header class="App-header">
<img scr=" " style="">
<h1 class ="App-title">RVisualization </h1>
</header>
<div>
<div style="max-width: 1000px; width: 100%; margin: auto; padding-left: 100px; padding-right: 100px; padding-top: 100px;">
<div id="abstract"><h2 style="margin-top: 60px; margin-bottom: 60px; color: rgb(0, 161, 224);">Abstract</h2>
<p style="font-size: 18px; line-height: 36px;">
<div><p>RVisualization is ... Technical approaches:</p>
<ul><li>microfluidic droplet-based 3’-end counting: provides ...a</li>
<li>FACS-based full length transcript analysis: ... and coverage.</li>
</ul>
<p>We hope this rich collection of annotated cells will be a useful resource for:</p>
<ul><li>Defining gene expression in previously poorly-characterized cell populations.</li>
<li>Validating findings in future targeted single-cell studies.</li>
<li>Developing of methods for integrating datasets (eg between the FACS and droplet experiments)...</li>
</ul>
<p>The peer reviewed article describing the analysis and findings is available on
<a href="https://www.nature.com/articles/s41586-018-0590-4" target="_blank">Nature.</a>
</p>
</div>
</p>
</div>
<div id="code">
<h2 style="margin-top: 60px; margin-bottom: 60px; color: rgb(0, 161, 224);">Code</h2>
<p style="font-size: 18px; line-height: 36px;">
<div>The code used to annotate cells, ... on
<a target="_blank" href="https://github.com/czbiohub/tabula-muris">github</a>.
</div>
</p>
</div>
<div id="data">
<h2 style="margin-top: 60px; margin-bottom: 60px; color: rgb(0, 161, 224);">Data</h2>
<p style="font-size: 18px; line-height: 36px;">
<div>Data for this project are accessible through
<a target="_blank" href="https://figshare.com/projects/Tabula_Muris_Transcriptomic_characterization_of_20_organs_and_tissues_from_Mus_musculus_at_single_cell_resolution/27733">Figshare</a>.
These include:<ul>
<li>Gene count tables derived from SMART-Seq2 RNAseq libraries prepared from individually FACS sorted cells...</li>
<li>Gene count files derived from cells prepared using the 10x...</li>
<li>Metadata for single cells (mouse id, sex, FACS setting, etc), along with annotations for the cells.</li>
<li>
<div>Robject files for easy loading with the
<a href="https://github.com/satijalab/seurat" target="_blank">Seurat</a> package, including annotations and...
</div>
</li>
<li>tSNE plots with the expression of the top 10 genes for each tissue projected onto the plot.</li>
</ul>
</div>
</p>
</div>
<div id="visualization"><h2 style="margin-top: 60px; margin-bottom: 60px; color: rgb(0, 161, 224);">Visualization</h2>
<p style="font-size: 18px; line-height: 36px;">Experts i... of ...active plots below.</p>
</div>
<br>
<div style="color: rgba(0, 0, 0, 0.87); background-color: rgb(255, 255, 255); transition: all 450ms cubic-bezier(0.23, 1, 0.32, 1) 0ms;
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box-shadow: rgba(0, 0, 0, 0.12) 0px 1px 6px, rgba(0, 0, 0, 0.12) 0px 1px 4px;
border-radius: 2px; height: 200px; max-width: 1000px; text-align: center;">
<div style="height: auto; overflow: auto;">
<div><table style="background-color: rgb(255, 255, 255); width: 100%; border-collapse: collapse;
border-spacing: 0px; table-layout: fixed; font-family: Roboto, sans-serif;">
<thead style="border-bottom: 1px solid rgb(224, 224, 224);">
<tr style="border-bottom: 1px solid rgb(224, 224, 224); color: rgba(0, 0, 0, 0.87); height: 48px;">
<th style="font-weight: normal; font-size: 20px; padding-left: 48px;
padding-right: 24px; height: 56px; text-align: left; white-space: nowrap;
text-overflow: ellipsis; color: rgb(158, 158, 158);
position: relative; background-color: inherit;">Method</th>
<th style="font-weight: normal; font-size: 20px; padding-left: 48px;
padding-right: 24px; height: 56px; text-align: left; white-space: nowrap;
text-overflow: ellipsis; color: rgb(158, 158, 158); position: relative;
background-color: inherit;">Tissue</th><th style="font-weight: normal;
font-size: 20px; padding-left: 24px; padding-right: 24px;
height: 56px; text-align: left; white-space: nowrap; text-overflow: ellipsis;
color: rgb(158, 158, 158); position: relative; background-color: inherit;">Color by</th></tr>
</thead>
</table>
</div>
<div style="height: inherit; overflow: hidden auto;">
<table style="background-color: rgb(255, 255, 255); width: 100%;
border-collapse: collapse; border-spacing: 0px;
table-layout: fixed; font-family: Roboto, sans-serif;"><tbody>
<tr style="color: rgba(0, 0, 0, 0.87); height: 48px;">
<td style="padding-left: 24px; padding-right: 24px;
height: 48px; text-align: left; font-size: 13px;
overflow: hidden; white-space: nowrap; text-overflow: ellipsis;
background-color: inherit;">
<div>
<div style="display: inline-block; font-size: 15px;
height: 48px; font-family: Roboto, sans-serif; outline: none;
position: relative; transition: all 450ms cubic-bezier(0.23, 1, 0.32, 1) 0ms;
width: auto;">
<div style="cursor: pointer; height: 100%; position: relative; width: 100%;">
<div style="box-sizing: border-box; content: " "; display: table;">
</div><div style="color: rgba(0, 0, 0, 0.87); height: 56px;
line-height: 56px; overflow: hidden; opacity: 1; position: relative;
padding-left: 24px; padding-right: 56px; text-overflow: ellipsis; top: 0px;
white-space: nowrap;">FACS</div>
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position: absolute; overflow: visible;
transition: all 450ms cubic-bezier(0.23, 1, 0.32, 1) 0ms;
width: 48px; height: 48px; fill: rgb(224, 224, 224);
right: 16px; top: 4px; background: none;">
<div>
<span style="height: 100%; width: 100%; position: absolute; top: 0px; left: 0px;
overflow: hidden; pointer-events: none; z-index: 1;">
</span>
<svg viewBox="0 0 24 24" style="display: inline-block; color: rgba(0, 0, 0, 0.87);
fill: inherit; height: 24px; width: 24px; user-select: none;
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<path d="M7 10l5 5 5-5z"></path>
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margin: -1px 24px; right: 0px; position: absolute;">
</div>
<div style="box-sizing: border-box; content: " "; clear: both; display: table;">
</div>
</div>
<div style="display: none;">
</div>
</div>
</div>
</td>
<td style="padding-left: 24px; padding-right: 24px; height: 48px;
text-align: left; font-size: 13px; overflow: hidden; white-space: nowrap;
text-overflow: ellipsis; background-color: inherit;">
<div>
<div style="display: inline-block; font-size: 15px; height: 48px;
font-family: Roboto, sans-serif; outline: none; position: relative;
transition: all 450ms cubic-bezier(0.23, 1, 0.32, 1) 0ms; width: auto;">
<div style="cursor: pointer; height: 100%; position: relative; width: 100%;">
<div style="box-sizing: border-box; content: " "; display: table;">
</div>
<div style="color: rgba(0, 0, 0, 0.87); height: 56px; line-height: 56px;
overflow: hidden; opacity: 1; position: relative; padding-left: 24px;
padding-right: 56px; text-overflow: ellipsis; top: 0px;
white-space: nowrap;">Bladder
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<div>
<span style="height: 100%; width: 100%; position: absolute; top: 0px; left: 0px;
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/span>
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<path d="M7 10l5 5 5-5z"></path>
</svg></div></button>
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<div style="box-sizing: border-box; content: " "; clear: both; display: table;"></div>
</div><div style="display: none;"></div>
</div>
</div></td><td style="padding-left: 24px; padding-right: 24px; height: 48px; text-align: left;
font-size: 13px; overflow: hidden; white-space: nowrap; text-overflow: ellipsis;
background-color: inherit;"><div value="gene"><div style="width: 100%;
background-color: rgb(0, 188, 212); white-space: nowrap; display: flex;">
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cursor: pointer; text-decoration: none; margin: 0px;
padding: 0px; outline: none; font-size: 14px;
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<div>
<div style="display: flex; flex-direction: column; align-items: center; justify-content: center;
height: 48px;">gene</div>
</div>
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display: inline-block; font-family: Roboto, sans-serif;
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text-decoration: none; margin: 0px; padding: 0px;
outline: none; font-size: 14px; font-weight: 500;
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width: 50%; text-transform: uppercase; background: none;">
<div><div style="display: flex; flex-direction: column; align-items: center; justify-content: center;
height: 48px;">metadata</div>
</div></button>
</div><div style="width: 100%;"><div style="left: 0%; width: 50%; bottom: 0px; display: block;
background-color: rgb(255, 64, 129); height: 2px; margin-top: -2px; position: relative;
transition: left 1s cubic-bezier(0.23, 1, 0.32, 1) 0ms;"></div></div><div><div style="width: 100%;
position: relative; text-align: initial;"><div><div style="display: inline-block; position: relative;
width: 256px;"><div style="font-size: 16px; line-height: 24px; width: 256px; height: 72px;
display: inline-block; position: relative; background-color: transparent;
font-family: Roboto, sans-serif; transition: height 200ms cubic-bezier(0.23, 1, 0.32, 1) 0ms;
cursor: auto;"><label for="undefined-undefined-TypeyourgeneieActb-47813" style="position: absolute;
line-height: 22px; top: 38px; transition: all 450ms cubic-bezier(0.23, 1, 0.32, 1) 0ms; z-index: 1;
transform: scale(0.75) translate(0px, -28px); transform-origin: left top; pointer-events: none;
user-select: none; color: rgba(0, 0, 0, 0.3);">Type your gene, i.e. Actb</label>
<input type="text" autocomplete="off" id="undefined-undefined-TypeyourgeneieActb-47813" value="Ins1"
style="padding: 0px; position: relative; width: 100%; border: none; outline: none;
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</div></button></div>
<script type="text/javascript" src="/static/js/main.dc69e4b2.js"></script>
</body>
</html>