63a95bfe1026e5097a22bf8d334c4de4380cb9a5 mspeir Wed Apr 3 14:03:49 2019 -0700 Adding links to download files for a dataset to projects page. refs #23124 diff --git src/hg/cirm/gateway/htdocs/projects.html src/hg/cirm/gateway/htdocs/projects.html index bc50ed5..44f92da 100755 --- src/hg/cirm/gateway/htdocs/projects.html +++ src/hg/cirm/gateway/htdocs/projects.html @@ -284,31 +284,36 @@ 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> + class="fas fa-database" aria-hidden="true"></i></a> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27kriegsteinBrainOrganoids1%27%20" + 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></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> @@ -361,31 +366,35 @@ 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> + aria-hidden="true"></i></a> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27kriegsteinRadialGliaStudy1%27%20" + 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></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> @@ -398,31 +407,35 @@ <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> + aria-hidden="true"></i></a> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27kriegstein6k%27%20" + 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></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> @@ -475,35 +488,35 @@ 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" + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27quakeBrainGeo1%27%20" 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> + <i class="fas fa-file-download" 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 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> @@ -518,31 +531,36 @@ 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> + class="fas fa-database" aria-hidden="true"></i> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27quakeGlioblastomaGeo1%27%20" + 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></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> @@ -798,31 +816,31 @@ <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> + <td colspan="100%">Blood stem cells</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 @@ -844,55 +862,65 @@ <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> + data-content="Investigating erythoid maturation with RNA-seq."></i><br> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27cornErythroidMaturation%27%20" + 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></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"><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> + >RISPR off-target cleavage sites using GUIDE-seq, Amplicon-seq and Capture-seq."></i><br> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27cornOffTarget%27%20" + 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></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"><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> @@ -1106,73 +1134,85 @@ 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> + class="fas fa-database" aria-hidden="true"></i></a> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27quakePancreas1%27%20" + 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></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> - <!-- + data-content="Analysis of the spatial distribution of single mRNA + molecules measured by in situ sequencing on human fetal + pancreas at three developmental time points–80, 87 and + 117 days post-fertilization"></i> <br> - <a href="https://www.ncbi.nlm.nih.gov/pubmed/26060301" target="_blank" + <a href="https://www.nature.com/articles/s41598-019-41951-2" 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-container="body" data-html="true" title="Riu L et al. 2019. + Modeling Spatial Correlation of Transcripts with Application to Developing Pancreas. Nature Scientific Reports." data-content="View publication from this dataset"><i class="fas fa-file-alt" - aria-hidden="true"></i></a> + 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> - --> + --> + <a href="../cgi-bin/cdwWebBrowse?browseFiles_facet_op=resetAll&browseFiles_facet_fieldName=&browseFiles_facet_fieldVal=&cdwCommand=browseFiles&cdwFile_filter=data_set_id%3D%27quakeFetalPancreasSpatial%27%20" + 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></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>