ede58f65bb4b32788dcfabafbcb04f1dfab4fe66 mspeir Wed Apr 3 13:13:07 2019 -0700 Adding links for assay info icons in table header. diff --git src/hg/cirm/gateway/htdocs/projects.html src/hg/cirm/gateway/htdocs/projects.html index ed6e838..bc50ed5 100755 --- src/hg/cirm/gateway/htdocs/projects.html +++ src/hg/cirm/gateway/htdocs/projects.html @@ -1,1216 +1,1221 @@ <!DOCTYPE html> <!--#set var="TITLE" value="CIRM Stem Cell Hub Projects" --> <!--#set var="ROOT" value="" --> <!--#include virtual="$ROOT/inc/header.html" --> <div class="cirm-page-body"> <div class="cirm-page-title back-light-blue" style="//background: #1E90FF;"> <h5 class="cirm-page-title-text">Projects initiated and funded by the CESCG</h5> </div> <!--<p class="lead">Research themes</p>--> <!--<div class="table-responsive scrollable-table" style="/*padding-right: 80px;*/">--> <div class="" style="/*padding-right: 80px;*/"> <div class="row" style="background:#fff; border:1px solid #ed217c; padding: 10px; margin: 10px 0; position: relative"> <div class="col-12"> <div class="row"> <p class="lead text-dark-blue">Legend:</p> </div> <div class="row"> <div class="col-4"> <i class="fas fa-braille fa-lg text-dark-blue" aria-hidden="true"></i> - Plate-based sequencing (e.g. SMART-seq2) </div> <div class="col-4"> <i class="fas fa-tint fa-lg text-dark-blue" aria-hidden="true"></i> - Droplet-based sequencing (e.g. 10X) </div> <div class="col-4"> <i class="fas fa-database fa-lg text-dark-blue" aria-hidden="true"></i> - Online Data Archive (e.g. GEO) </div> </div> <div class="row"> <div class="col-4"> <i class="fas fa-file-alt fa-lg text-dark-blue" aria-hidden="true"></i> - PubMed Link </div> <div class="col-4"> <i class="fas fa-file-download fa-lg text-dark-blue" aria-hidden="true"></i> - SC Hub File Download </div> <div class="col-4"> <i class="fas fa-table fa-lg text-dark-blue" aria-hidden="true"></i> - SC Hub Metadata Download </div> </div> </div> </div><br> <table class="table table-hover table-header-rotated" style="overflow: visible"> <thead> <tr> <th style="width: 1%;" class="text-nowrap"><br>Research Theme</th> <th style="width: 1%;" class="text-nowrap">Lab</th> <th style="width: 1%;" class="text-nowrap ">Data Set</th> - <th style="width: 1%;" class="text-dark-blue text-nowrap">Single cell <a href="#" + <th style="width: 1%;" class="text-dark-blue text-nowrap">Single cell <a href="https://en.wikipedia.org/wiki/Single-cell_analysis" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" - data-placement="top" data-container="body" data-html="true" title="" - data-content="It is possible to assay individual cells from a population to + data-placement="top" data-container="body" data-html="true" title="It is possible to assay individual cells from a population to learn more about the cells making up a community, also known as studying the - <em>cellular heterogenetity</em>."><i class="fas fa-info-circle" + <em>cellular heterogenetity</em>." + data-content="Click the info icon to read more on Wikipedia."><i class="fas fa-info-circle" aria-hidden="true"></i></a></th> <th style="width: 1%;" class="rotate-45 text-dark-pink"><div><span><a - href="#" data-toggle="popover" data-trigger="hover" class="popoveradjust" - data-placement="top" data-container="body" data-html="true" title="" - data-content="Whole genome sequencing."><i class="fas fa-info-circle" + href="https://en.wikipedia.org/wiki/Whole_genome_sequencing" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" + data-placement="top" data-container="body" data-html="true" title="Whole genome sequencing." + data-content="Click the info icon to read more on Wikipedia."><i class="fas fa-info-circle" aria-hidden="true"></i></a> WGS</span</div></th> <th style="width: 1%;" class="text-nowrap rotate-45 - text-dark-pink"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-dark-pink"><div><span><a href="https://www.illumina.com/techniques/sequencing/dna-sequencing/targeted-resequencing/amplicon-sequencing.html" + target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="A method for sequencing a specific - region of interest. Similar to AMP-seq."><i class="fas + data-html="true" title="A method for sequencing a specific + region of interest. Similar to AMP-seq." data-content="Click the info icon to read more on the Illumina website."><i class="fas fa-info-circle" aria-hidden="true"></i></a> Amplicon-seq</span</div></th> <th style="width: 1%;" class="rotate-45 - text-light-blue"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-light-blue"><div><span><a href="https://www.ncbi.nlm.nih.gov/pubmed/19015660" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="Some RNA-seq is done on bulk tissue, + data-html="true" title="Some RNA-seq is done on bulk tissue, though for this project much of it is done on single cells. The icons in the single cell column indicate how the cells were handled to generate the RNA-seq - data."><i class="fas fa-info-circle" aria-hidden="true"></i></a> + data." data-content="Click info icon to read a review paper of RNA-seq (2009)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> RNA-seq</span></div></th> <th style="width: 1%;" class="rotate-45 - text-light-blue"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-light-blue"><div><span><a href="https://www.ncbi.nlm.nih.gov/pubmed/22081020" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="Genotyping method. Based on capturing and - sequencing specifc regions of the genome."><i class="fas + data-html="true" title="Genotyping method. Based on capturing and + sequencing specifc regions of the genome." data-content="Click info icon to read the Capture-seq paper (2011)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> Capture-seq</span></div></th> <th style="width: 1%;" class="rotate-45 - text-light-blue"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-light-blue"><div><span><a href="https://www.ncbi.nlm.nih.gov/pubmed/23783272" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="A method to distinguish RNA from different - subcellular fractionations"><i class="fas + data-html="true" title="A method to distinguish RNA from different + subcellular fractionations." data-content="Click info icon to read the Frac-seq paper (2013)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> Frac-seq</span></div></th> <th style="width: 1%;" class="text-nowrap rotate-45 - text-light-green"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-light-green"><div><span><a href="https://en.wikipedia.org/wiki/ChIP-sequencing" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="Used to profile histone modifications." + data-html="true" title="Used to profile histone modifications." data-content="Click the info icon to read more on Wikipedia." ><i class="fas fa-info-circle" aria-hidden="true"></i></a> broad-ChIP-seq</span></div></th> <th style="width: 1%;" class="text-nowrap rotate-45 - text-light-green"><div><span><a href="#" data-toggle="popover" data-trigger="hover" + text-light-green"><div><span><a href="https://en.wikipedia.org/wiki/ChIP-sequencing" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" - data-html="true" title="" data-content="Used to profile transcription factor (TF) - binding sites."><i class="fas + data-html="true" title="Used to profile transcription factor (TF) + binding sites." data-content="Click the info icon to read more on Wikipedia."><i class="fas fa-info-circle" aria-hidden="true"></i></a> narrow-ChIP-seq</span></div></th> <th style="width: 1%;" class="rotate-45 text-light-green"><div><span><a - href="https://www.ncbi.nlm.nih.gov/pubmed/28973448" data-toggle="popover"r + href="https://www.ncbi.nlm.nih.gov/pubmed/28973448" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Targeted chromatin ligation sequencing. Used in epigenetics to capture histone modification patterns low-cell count experiments." data-content="Click the - info icon to see the paper (2017)"><i + info icon to read the TCL-seq paper (2017)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> TCL-seq</span></div></th> <th style="width: 1%;" class="rotate-45 text-light-green"><div><span><a - href="" data-toggle="popover" data-trigger="hover" class="popoveradjust" - data-placement="top" data-container="body" data-html="true" title="" - data-content="Whole genome bisulfite sequencing. A method for looking at - methylation throughout the genome."><i class="fas fa-info-circle" + href="https://en.wikipedia.org/wiki/Whole_genome_bisulfite_sequencing" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" + data-placement="top" data-container="body" data-html="true" title="Whole genome bisulfite sequencing. A method for looking at + methylation throughout the genome." + data-content="Click the info icon to read more on Wikipedia."><i class="fas fa-info-circle" aria-hidden="true"></i></a> WGBS</span></div></th> <th style="width: 1%;" class="rotate-45 text-light-green"><div><span><a href="https://www.ncbi.nlm.nih.gov/pubmed/16224102" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Reduced-representation Bisulifite Sequencing to determine methylation of - promoter sites" data-content="Click the info icon to see the paper (2005)"><i + promoter sites" data-content="Click the info icon to read the RRBS paper (2005)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> RRBS</th> <th style="width: 1%;" class="rotate-45 text-light-green"><div><span><a - href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4374986/" target="_blank" + href="https://www.ncbi.nlm.nih.gov/pubmed/25559105" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Transposase-Accessible Chromatin with high throughput sequencing" - data-content="Click the info icon to see the ATAC-seq publication."><i class="fas + data-content="Click the info icon to read the ATAC-seq paper (2015)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> ATAC-seq</span></div></th> <th style="width: 1%;" class="rotate-45 text-light-green"><div><span><a - href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3149993/" target="_blank" + href="https://www.ncbi.nlm.nih.gov/pubmed/20461051" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Assay to determine spatial organization of chromatin" data-content="Click the info icon - to see the Hi-C paper (2010)."><i class="fas fa-info-circle" + to read the Hi-C paper (2010)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> Hi-C</span></div></th> <th style="width: 1%;" class="rotate-45 text-orange"><div><span><a - href="http://www.nature.com/nbt/journal/v33/n2/full/nbt.3117.html" + href="https://www.ncbi.nlm.nih.gov/pubmed/25513782" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Genome-wide Unbiased Identifications of double strand breaks (DSBs) Evaluated by Sequencing" - data-content="Click the info icon to see the paper (2014)."><i class="fas + data-content="Click the info icon to read the GUIDE-seq paper (2014)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> GUIDE-seq</span></div></th> <th style="width: 1%;" class="rotate-45 text-dark-blue"><div><span><a - href="#" + href="https://www.ncbi.nlm.nih.gov/pubmed/27365449" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" - data-placement="top" data-container="body" data-html="true" title="" - data-content="Includes a number of different imaging techniques and data types."><i class="fas + data-placement="top" data-container="body" data-html="true" + title="In this project, imaging is only used in the context of + spatial transcriptomics. Flourescent probes are used to + measure both the relative expression of specific genes and where these genes + are being activated." + data-content="Click info icon to read the Spatial Transcriptomics paper (2016)."><i class="fas fa-info-circle" aria-hidden="true"></i></a> Imaging</span></div></th> </tr> </thead> <tbody> <tr style="font-size: 75%"> <td colspan="3"></td> <td class="text-dark-blue text-nowrap"></td> <td colspan="2" class="text-dark-pink"></td> <td colspan="3" class="text-light-blue"></td> <td colspan="3" class="text-light-green text-center">Histone modification</td> <td colspan="2" class="text-light-green text-center">Methylome</td> <td colspan="2" class="text-light-green text-nowrap text-center">Chromatin<br>modeling</td> <td colspan="1" class="text-orange text-nowrap text-center">Gene editing<br>profiling</td> <td colspan="1" class="text-dark-blue"></td> </tr> <tr> <td colspan="3"></td> <td class="text-dark-blue text-nowrap"></td> <td colspan="2" class="text-dark-pink text-center">Genomics</td> <td colspan="3" class="text-light-blue text-center">Transcriptomics</td> <td colspan="7" class="text-light-green text-center">Epigenomics</td> <td colspan="1" class="text-orange"></td> <td colspan="1" class="text-dark-blue"></td> </tr> <tr> <td colspan="100%">Neurobiology</td> </tr> <!-- <tr> <td></td> <td class="lab text-nowrap">Smith</td> <td class="datasetid">labAssaySample</td> <td class="text-dark-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center">X <a href="#" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Capture-seq data" data-content="Information about this data set"><i class="fa fa-info-circle" aria-hidden="true"></i></a></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-orange text-center"><i class="fas fa-square" aria-hidden="true"></i></td> </tr> --> <tr> <td></td> <td class="lab text-nowrap"><a href="https://www.uclahealth.org/daniel-geschwind" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Daniel Geschwind, UCLA" data-content="The Geschwind lab is exploring how multiple distinct mutations lead to the convergent pathology of autism spectrum disorder. They are analyzing the iPSC organoids from the Pasca lab.">Geschwind</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i> / <a href="http://www.pascalab.org/" target="_blank" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Sergiu Pasca, Stanford" data-content="The Pasca lab is growing brain organoids with neurological disorders including deletions, duplications and triplications of 16p11.2, Timothy syndrome, epilepsy and mental retardation limited to female (EFMR).">Pasca</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i> </td> <td class="datasetid">geschwindNeurospheres1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Using iPSC-based models and neurosphere RNA-seq data to study autism spectrum disorder."></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/30573846" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Yoon SJ et al. 2019. Reliability of human cortical organoid generation. Nat Methods." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE93811" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'> View GSE93811" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE107771" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE107771" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE120700" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE120700" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="https://kriegsteinlab.ucsf.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Arnold Kriegstein, UCSF" data-content="The Kriegstein lab is using single-cell RNA profiling to learn about the diverse population of cortical neurons.">Kriegstein</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid"><a href="/d/kriegsteinBrainOrganoids1">kriegsteinBrainOrganoids1</a> <i class="fas fa-info-circle" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Single-cell Brain Organoids" data-content="874 iPSC-derived brain organoid samples processed via single-cell RNA-seq." aria-hidden="true"></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/26406371" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Pollen AA et al. 2019. Establishing Cerebral Organoids as Models of Human-Specific Brain Evolution. Cell." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124299" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE124299" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"> </td> <td class="datasetid">kriegsteinBrainOrganoids2 <i class="fas fa-info-circle" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Single-cell Brain Organoids" data-content="Establishing Cerebral Organoids as Models of Human-Specific Brain Evolution" aria-hidden="true"></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/30735633" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Pollen AA et al. 2019. Establishing Cerebral Organoids as Models of Human-Specific Brain Evolution. Cell." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124299" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE124299" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="" data-content=""></a></td> <td class="datasetid"><a href="/d/kriegsteinRadialGliaStudy1" >kriegsteinRadialGliaStudy1</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="single-cell brain development" data-content="376 primary samples of fetal radial glial cells that were processed via single-cell RNA-seq."></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/26406371" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Pollen AA et al. 2015. Molecular identity of human outer radial glia during cortical development. Cell." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000989" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/projects/gap/images/dbGaP_logo_final.jpg' style='height: 2em;'> View phs000989" data-content="Click database icon to view on dbGaP"><i class="fas fa-database" aria-hidden="true"></i></a></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="" data-content=""></a></td> <td class="datasetid"><a href="/d/kriegstein6k">kriegstein6k</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="RNA-seq from 6,000 primary cells at UCSF."></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/29217575" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Nowakowski TJ et al. 2017. Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex. Science." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000989" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/projects/gap/images/dbGaP_logo_final.jpg' style='height: 2em;'> View phs000989" data-content="Click database icon to view on dbGaP"><i class="fas fa-database" aria-hidden="true"></i></a></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <!--<tr> <td></td> <td class="lab text-nowrap"><a href="https://med.stanford.edu/stemcell/about/Laboratories/clarke.html" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Michael F. Clarke, Stanford" data-content="The Clarke lab is collaborating with the Quake lab in exploring chromatin landscapes.">Clarke</a></td> <td class="datasetid"></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> </tr>--> <tr> <td></td> <!-- <a href="#" title="Dismissible popover" data-toggle="popover" data-trigger="focus" data-content="C">Click me</a> --> <td class="lab text-nowrap"><a href="https://quakelab.stanford.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Stephen Quake, Stanford University" data-content="The Quake lab is working on characterizing cell subpopulations of healthy and pathological tissues of the brain and pancreas. He is also looking at gene and epigenetic properties of organ lineages to compare stem cell differentiation hierarchy to normal tissues to elucidate mechanisms of pathogenesis.">Quake</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid"><a href="/d/quakeBrainGeo1">quakeBrainGeo1</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="" data-content="Examination of cell types in healthy human brain samples."></i><br> <!--<a href="https://cirm.ucsc.edu/cgi-bin/cdwGetFile/quakeBrainGeo1/summary/index.html" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="" data-content="View analysis of this dataset"><i class="fa fa-bar-chart" aria-hidden="true"></i></a> --> <a href="https://www.ncbi.nlm.nih.gov/pubmed/26060301" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Darmanis S et al. 2015. A survey of human brain transcriptome diversity at the single cell level. PNAS." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE67835" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE67835" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a> <a href="../cgi-bin/cdwWebBrowse?cdwCommand=browseFiles&browseFiles_facet_op=add&browseFiles_facet_fieldName=data_set_id&browseFiles_facet_fieldVal=quakeBrainGeo1" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="" data-content="Download from the Stem Cell Hub"> <i class="fas fa-file-download" aria-hidden="true"></i> </td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square text-light-blue" aria-hidden="true"></i></a></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <td class="datasetid"><a href="/d/quakeGlioblastomaGeo1">quakeGlioblastomaGeo1</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Characterizing the effects of glioblastoma on normal brain."></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/29091775/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Darmanis, S., et al. (2017). Single-Cell RNA-Seq Analysis of Infiltrating Neoplastic Cells at the Migrating Front of Human Glioblastoma. Cell Rep." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE84465" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE84465" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://yeolab.github.io/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Gene Yeo, UCSD" data-content="The Yeo lab is exploring how RNA localizes in certain parts of the cell, effecting differentiation, stress and neurodegeneration, particularly with regards to ALS (amytrophic lateral sclerosis).">Yeo</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">yeoRnaLocalization1 <i class="fas fa-info-circle" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Investigating ALS with Frac-seq" data-content="Global subcellular mRNA localization in differentiation, stress, and neurodegeneration."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td colspan="100%">Cardiac biology</td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://bruneaulab.gladstone.org/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Benoit Bruneau, UCSF" data-content="The Bruneau lab is investigating transcriptomic and epigenetic analysis of iPSC-derived cardiomyocytes at four stages of differentiation.">Bruneau</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">bruneauCardioEpigenetics1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="A study to discern basic gene regulating mechanisms of iPSC derived cardiomyocytes at four stages of differentiation."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <td class="datasetid">bruneauTbx5 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Using two different cardiac differentiation protocols, human gene expression programs are defined that are susceptible to TBX5 dosage at single cell resolution in iPSC-derived cardiomyocytes."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-tint fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://cardiology.ucsd.edu/research/labs/chi-lab/Pages/default.aspx" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Neil Chi, UCSD" data-content="The Chi lab is generating human cardiac stem cells and functional cardiomyocytes for cardiac and vascular regenerative repairs.">Chi</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">chiCardiomyocyte1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="Analysis of in vitro and in vivo human cardiovascular lineages" data-content="Discovery of gene regulatory networks that facilitate the differentiation of human pluripotent stem cells (hPSC) into ventricular and atrial cardiomyocyte (CM) lineages using single cell RNA-seq (scRNA-Seq) on cells derived from human hearts at different developmental stages."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-tint fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fa fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <td class="datasetid">chiMouseCardiomyocyte <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content=" To discover transcriptional networks that regulate the differentiation of mouse cardiovascular lineages."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-tint fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fa fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://frazer.ucsd.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Kelly Frazer, UCSD" data-content="The Frazer lab is focused on performing high-throughput phenotypic characterization of iPSC-derived cardiomyocytes from a diverse set of ethnicities to enable further genetic studies investigating the segregation of traits.">Frazer</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">frazerCardIps1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Generation of human iPSC and iPSC-derived cardiomyocytes from 222 individuals."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://www.salk.edu/scientist/katherine-jones/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Kathy Jones, The Salk Institute" data-content="The Jones lab is investigating the role of transcriptional regulators Yap1 and P-TEFb in human embryonic stem cell differentiation towards cardiomyocytes.">Jones</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">jonesYap1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Studying the role of Yap1 and P-TEFb in hESC Differentiation towards cardiomyocytes."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://snyderlab.stanford.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Mike Snyder, Stanford" data-content="The Snyder lab is investigating drug response of hypertrophic cardiomyopathy (HCM), dialated cardiomyopathy (DCM), and healthy (control) donors with a comprehensive survey combining iPSC-cardiac differentiation, drug treatment and genomic and transcriptomic analysis. ">Snyder</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i> / <a href="http://med.stanford.edu/wulab.html" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Joseph Wu, Stanford" data-content="The Wu lab is investigating patient-specific and disease-specific induced pluripotent stem cells (iPSCs) and their uses in drug discovery and clinical trials.">Wu</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">snyderCardIps1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="A comprehensive survey combining iPSC-cardiac differentiation, drug treatment, genomic, and transcriptomic analysis applied to these iPSC lines to assess the drug response of each individual patient."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td colspan="100%">Blood stem cells and therapeutics</td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://baldwin.scripps.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Kristin Baldwin, Scripps" data-content="The Baldwin lab is studying a matched set of iPSC lines from patients with cardiovascular disease.">Baldwin</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid text-nowrap">baldwin12PairedIpscCellLines1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="A study of the mutagenic effects of the induction process by comparing two different methods of induction using fribroblast-derived iPSC lines."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="https://cornlab.com/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Jacob Corn, UC Berkeley" data-content="The Corn lab is investigating fixing sickle cell anemia with CRISPR. Aim 1 of the Corn lab is to use RNA-seq to explore erythroid (red blood cell) maturation. Aim 2 is using boutique DNA-seq methods to investigate effets of using CRISPR.">Corn</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid"><a href="/d/cornErythroidMaturation">cornErythroidMaturation</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Investigating erythoid maturation with RNA-seq."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <td class="datasetid"><a href="/d/cornOffTarget">cornOffTarget</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Investigating CRISPR off-target cleavage sites using GUIDE-seq, Amplicon-seq and Capture-seq."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <td class="datasetid">cornHSPC <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Single cell RNA-seq of hematopoietic stem cells using 10X to identify hematopoietic stem and progenitor cells."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-tint fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://www.crooks-lab.com/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Gay Crooks, UCLA" data-content="The Crooks Lab is working to create a comprehensive transcriptome and epigenome map of human hematopoetic stem cell (HSC) ontogeny by comparing human hematopoietic tissues and cells derived from embryonic stem cells (ESCs).">Crooks</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">crooksHsc <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="RNA-seq data from fetal liver."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="http://stemcellphd.stanford.edu/faculty/irv-weissman.html" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Irv Weissman, Stanford" data-content="The Weissman lab is working on identifying and characterizing the progression of discrete changes, genetic and epigenetic, that leads to the generation of cancer stem cells (CSCs) from a variety of blood and solid tissue cancers.">Weissman</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">weissmanHcs1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Single-cell RNA-seq of the rare, blood-forming haematopoietic stem cells (HSCs) in bone marrow. Bone marrow cells were separated using FACS with sorting on standard, in-house developed markers."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td colspan="100%" class="">Molecular regulators of stem cells</td> </tr> <tr> <td></td> <td class="lab text-nowrap"> <a href="http://belmonte.salk.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Juan Carlos Izpisua-Belmonte, The Salk Insitute" data-content="The Belmonte lab is working to characterize the molecular dynamics of cells undergoing 4F-induced reprogramming in vivo in the mouse.">Belmonte</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">belmonteMouseDnmt3a <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Short-term reprogramming of mouse spleens in-vivo by low 4F induction using Doxycycline treatment, in DNMT3a deficient mice."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="https://fan.genetics.ucla.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Guoping Fan, UCLA" data-content="The Fan lab is working on identifying convergent target genes and signaling pathways perturbed in human overgrowth syndrome.">Fan</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">fanIcf1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="WGBS, RRBS, WGS, ChIP-seq, and RNA-seq on iPSCs generated from patients with human overgrowth syndrome."></i></td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="https://sanfordlab.mcdb.ucsc.edu/Sanford_Lab/Welcome.html" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Jeremy Sanford, UCSC" data-content="The Sanford lab is studying how alternative pre-mRNA splicing contributes to the regulation of gene expression and protein diversity.">Sanford</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">sanfordRnaRegulation1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="CLIP-seq and RNA-seq on human stem cells and human neural progenitor cells."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td colspan="100%">Pancreas</td> </tr> <tr> <td></td> <td class="lab text-nowrap"><a href="https://quakelab.stanford.edu/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Stephen Quake, Stanford University" data-content="The Quake lab is working on characterizing cell subpopulations of healthy and pathological tissues of the brain and pancreas. He is also looking at gene and epigenetic properties of organ lineages to compare stem cell differentiation hierarchy to normal tissues to elucidate mechanisms of pathogenesis.">Quake</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid"><a href="/d/quakePancreas1">quakePancreas1</a> <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content="Single cell transcriptome analysis of human pancreas reveals transcriptional signatures of aging and somatic mutation patterns." ></i><br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/28965763" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Enge M et al. 2017. Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Pattern. Cell." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81547" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE81547" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a> </td> <td class="text-dark-blue text-center"><i class="fas fa-braille fa-lg" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> <tr> <td></td> <td class="lab text-nowrap"></td> <!--<td class="datasetid"><a href="/d/quakeFetalPancreasSpatial">quakeFetalPancreasSpatial</a>--> <td class="datasetid">quakeFetalPancreasSpatial <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content=""></i> <!-- <br> <a href="https://www.ncbi.nlm.nih.gov/pubmed/26060301" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Enge M et al. 2017. Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Pattern. Cell." data-content="View publication from this dataset"><i class="fas fa-file-alt" aria-hidden="true"></i></a> <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81547" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="<img src='https://www.ncbi.nlm.nih.gov/geo/img/geo_main.gif' style='height: 2em;'>View GSE81547" data-content="Click database icon to view on GEO."><i class="fas fa-database" aria-hidden="true"></i></a> --> </td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> </tr> <tr> <td colspan="100%">Therapeutics</td> </tr> <tr class="last-row"> <td></td> <td class="lab text-nowrap"><a href="http://www.scripps.edu/loring/" target="_blank" data-toggle="popover" data-trigger="hover" data-placement="top" data-container="body" data-html="true" title="Jeanne Loring, Scripps" data-content="The Loring lab is carrying out preclinical studies to develop an autologous cell therapy for Parkinson's disease.">Loring</a> <i class="fas fa-external-link-alt icon-sm" aria-hidden="true"></i></td> <td class="datasetid">loringParkinsons1 <i class="fas fa-info-circle" aria-hidden="true" data-toggle="popover" data-trigger="hover" class="popoveradjust" data-placement="top" data-container="body" data-html="true" title="" data-content=" Genomics-based assays to determine if cells remain genomically-intact during differentiation for transplantation."></i></td> <td class="text-dark-blue text-center"></td> <td class="text-dark-pink text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-dark-pink text-center"></td> <td class="text-light-blue text-center"><i class="fas fa-square" aria-hidden="true"></i></td> <td class="text-light-blue text-center"></td> <td class="text-light-blue text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-light-green text-center"></td> <td class="text-orange text-center"></td> <td class="text-dark-blue text-center"></td> </tr> </tbody> </table> </div> </div> </div> </div> <!--#include virtual="$ROOT/inc/footer.html" -->