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Bruce Martin 13246cb6d1 add more datasets (#1618) 
* add more datasets

* add more about links
2020-07-10 14:55:55 -07:00

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---
title: cellxgene.cziscience.com
subtitle: cellxgene.cziscience.com
layout: default
---
# cellxgene.cziscience.com
Chan Zuckerberg has an online repository of public single-cell datasets for exploration with cellxgene.
If you have a public dataset which you would like hosted for visualization on this site,
with a link to embed on your own site, please drop us a note at <mailto:cellxgene@chanzuckerberg.com>.
<table class="fixed-layout">
<thead style="width: 100%">
<tr>
<th>cellxgene link</th>
<th>More Information</th>
</tr>
</thead>
<tbody style="width: 100%">
<tr>
<td><a href="https://cellxgene.cziscience.com/d/krasnow_lab_human_lung_cell_atlas_10x-1.cxg/" target="_blank">Krasnow Lab Human Lung Cell Atlas, 10X</a></td>
<td>
<a href="http://cmgm-new.stanford.edu/krasnow/">Krasnow Lab</a>,
<a href="https://github.com/krasnowlab/hlca">HLCA website</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/krasnow_lab_human_lung_cell_atlas_smartseq2-2.cxg/" target="_blank">Krasnow Lab Human Lung Cell Atlas, Smart-seq2</a></td>
<td>
<a href="http://cmgm-new.stanford.edu/krasnow/">Krasnow Lab</a>,
<a href="https://github.com/krasnowlab/hlca">HLCA website</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/human_cell_landscape-3.cxg/" target="_blank">Human Cell Landscape</a></td>
<td>
<a href="https://person.zju.edu.cn/en/ggj">Guo Lab</a>,
<a href="http://bis.zju.edu.cn/HCL/">HCL website</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/human_fetal_liver_single_cell_transcriptome-13.cxg/" target="_blank">Human fetal liver single cell transcriptome data</a></td>
<td>
<a href="https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-7407/">E-MTAB-7407</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/cell_atlas_of_thymic_development-14.cxg/" target="_blank">A cell atlas of human thymic development defines T cell repertoire formation</a></td>
<td>
<a href="https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-8581/">E-MTAB-8581</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/cellular_census_of_human_lungs_alveoli_and_parenchyma-15.cxg/" target="_blank">A cellular census of human lungs identifies novel cell states in health and in asthma - parenchyma</a></td>
<td>
<a href="https://asthma.cellgeni.sanger.ac.uk/">asthma.cellgeni.sanger.ac.uk</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/cellular_census_of_human_lungs_nasal-16.cxg/" target="_blank">A cellular census of human lungs identifies novel cell states in health and in asthma - nasal</a></td>
<td>
<a href="https://asthma.cellgeni.sanger.ac.uk/">asthma.cellgeni.sanger.ac.uk</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/cellular_census_of_human_lungs_bronchi-17.cxg/" target="_blank">A cellular census of human lungs identifies novel cell states in health and in asthma - bronchi</a></td>
<td>
<a href="https://asthma.cellgeni.sanger.ac.uk/">asthma.cellgeni.sanger.ac.uk</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/ischaemic_sensitivity_of_human_tissue_by_single_cell_RNA_seq_lung-18.cxg/" target="_blank">Ischaemic sensitivity of human tissue by single cell RNA seq - lung</a></td>
<td>
<a href="https://data.humancellatlas.org/explore/projects/c4077b3c-5c98-4d26-a614-246d12c2e5d7">HCA</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/ischaemic_sensitivity_of_human_tissue_by_single_cell_RNA_seq_spleen-19.cxg/" target="_blank">Ischaemic sensitivity of human tissue by single cell RNA seq - spleen</a></td>
<td>
<a href="https://data.humancellatlas.org/explore/projects/c4077b3c-5c98-4d26-a614-246d12c2e5d7">HCA</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/ischaemic_sensitivity_of_human_tissue_by_single_cell_RNA_seq_oesophagus-20.cxg/" target="_blank">Ischaemic sensitivity of human tissue by single cell RNA seq - oesophagus</a></td>
<td>
<a href="https://data.humancellatlas.org/explore/projects/c4077b3c-5c98-4d26-a614-246d12c2e5d7">HCA</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/spatio_temporal_immune_zonation_of_the_human_kidney-21.cxg/" target="_blank">Spatio-temporal immune zonation of the human kidney</a></td>
<td>
<a href="https://www.kidneycellatlas.org/">www.kidneycellatlas.org</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/fetal_maternal_interface_10x-22.cxg/" target="_blank">Reconstructing the human first trimester fetal-maternal interface using single cell transcriptomics - 10x</a></td>
<td>
<a href="https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-6701/">E-MTAB-6701</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/fetal_maternal_interface_smartseq2-23.cxg/" target="_blank">Reconstructing the human first trimester fetal-maternal interface using single cell transcriptomics - SmartSeq2</a></td>
<td>
<a href="https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-6701/">E-MTAB-6701</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/gut_cell_atlas-24.cxg/" target="_blank">Gut Cell Atlas</a></td>
<td>
<a href="https://www.gutcellatlas.org/">www.gutcellatlas.org</a>,
<a href="https://www.covid19cellatlas.org/">covid19cellatlas.org</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_atlas_of_peripheral_immune_response_to_SARS_CoV_2_infection-25.cxg/" target="_blank">A single-cell atlas of the peripheral immune response to severe COVID-19</a></td>
<td>
<a href="https://blishlab.sites.stanford.edu/">Blish Lab</a>,
<a href="https://www.medrxiv.org/content/10.1101/2020.04.17.20069930v1">medRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Atlas_of_Healthy_and_SHIV_Infected_Non_Human_Primate_Lung_and_Ileum_ACE2+_Cells_ileum-12.cxg/" target="_blank">Atlas of Healthy and SHIV-Infected Non-Human Primate Lung and Ileum ACE2+ Cells - Ileum</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP807/atlas-of-healthy-and-shiv-infected-non-human-primate-lung-and-ileum-ace2-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Atlas_of_Healthy_and_SHIV_Infected_Non_Human_Primate_Lung_and_Ileum_ACE2+_Cells_lung-11.cxg/" target="_blank">Atlas of Healthy and SHIV-Infected Non-Human Primate Lung and Ileum ACE2+ Cells - Lung</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP807/atlas-of-healthy-and-shiv-infected-non-human-primate-lung-and-ileum-ace2-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Allergic_inflammatory_memory_in_human_respiratory_epithelial_progenitor_cells_epithelial-10.cxg/" target="_blank">Allergic inflammatory memory in human respiratory epithelial progenitor cells - epithelial cells</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP253/allergic-inflammatory-memory-in-human-respiratory-epithelial-progenitor-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Allergic_inflammatory_memory_in_human_respiratory_epithelial_progenitor_cells_scraping-9.cxg/" target="_blank">Allergic inflammatory memory in human respiratory epithelial progenitor cells - nasal scrapings</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP253/allergic-inflammatory-memory-in-human-respiratory-epithelial-progenitor-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Allergic_inflammatory_memory_in_human_respiratory_epithelial_progenitor_cells_surgical-8.cxg/" target="_blank">Allergic inflammatory memory in human respiratory epithelial progenitor cells - surgical</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP253/allergic-inflammatory-memory-in-human-respiratory-epithelial-progenitor-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Allergic_inflammatory_memory_in_human_respiratory_epithelial_progenitor_cells_nasalsss-26.cxg/" target="_blank">Allergic inflammatory memory in human respiratory epithelial progenitor cells - nasal SSS</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP253/allergic-inflammatory-memory-in-human-respiratory-epithelial-progenitor-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/ACE2_and_TMPRSS2_expression_in_human_non_inflamed_terminal_ileum_epithelial-7.cxg/" target="_blank">ACE2 and TMPRSS2 expression in human non-inflamed terminal ileum - epithelial cells</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP812/ace2-and-tmprss2-expression-in-human-non-inflamed-terminal-ileum?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/ACE2_and_TMPRSS2_expression_in_human_non_inflamed_terminal_ileum-6.cxg/" target="_blank">ACE2 and TMPRSS2 expression in human non-inflamed terminal ileum</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP812/ace2-and-tmprss2-expression-in-human-non-inflamed-terminal-ileum?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Human_Lung_HIV_TB_Co_infection_ACE2+_Cells-5.cxg/" target="_blank">Human Lung HIV-TB Co-infection ACE2+ Cells</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP814/human-lung-hiv-tb-co-infection-ace2-cells?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Epithelial_Cells_in_NHP_mTB_Granuloma_and_Uninvolved_Lung-4.cxg/" target="_blank">Epithelial Cells in NHP mTB Granuloma and Uninvolved Lung</a></td>
<td>
<a href="https://singlecell.broadinstitute.org/single_cell/study/SCP806/epithelial-cells-in-nhp-mtb-granuloma-and-uninvolved-lung?scpbr=the-alexandria-project">Single Cell Portal</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_EC-49.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_SFG-50.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Superior Frontal Gyrus</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_EC_astrocytes-51.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Astrocytes in EC</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_EC_excitatoryNeurons-52.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Excitatory Neurons in EC</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_EC_inhibitoryNeurons-53.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Inhibitory Neurons in EC</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_EC_microglia-54.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Microglia in EC</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_SFG_astrocytes-55.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Astrocytes in SFG</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_SFG_excitatoryNeurons-56.cxg/
" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Excitatory Neurons in SFG</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_SFG_inhibitoryNeurons-57.cxg/" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Inhibitory Neurons in SFG</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/kampmann_lab_human_AD_snRNAseq_SFG_microglia-58.cxg/" target="_blank">Selective Neuronal Vulnerability in Alzheimer's Disease: Microglia in SFG</a></td>
<td>
<a href="https://kampmannlab.ucsf.edu/">Kampmann Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.04.04.025825v2">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_gene_expression_profiling_of_SARS_CoV_2_infected_human_cell_lines_H1299-27.cxg/" target="_blank">Single-cell gene expression profiling of SARS-CoV-2 infected human cell lines - H1299</a></td>
<td>
<a href="https://www.mdc-berlin.de/landthaler#t-single-cellsars-cov-2">Landthaler Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.05.05.079194v1">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_gene_expression_profiling_of_SARS_CoV_2_infected_human_cell_lines_Calu_3-28.cxg/" target="_blank">Single-cell gene expression profiling of SARS-CoV-2 infected human cell lines - Calu-3</a></td>
<td>
<a href="https://www.mdc-berlin.de/landthaler#t-single-cellsars-cov-2">Landthaler Lab</a>,
<a href="https://www.biorxiv.org/content/10.1101/2020.05.05.079194v1">BioRxiv preprint</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_drug_screening_a549-42.cxg/" target="_blank">Single-cell drug screening - A549</a></td>
<td>
<a href="https://github.com/cole-trapnell-lab/sci-plex">Trapnell Lab Github</a>,
<a href="https://science.sciencemag.org/content/367/6473/45">Science</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_drug_screening_k562-43.cxg/" target="_blank">Single-cell drug screening - K562</a></td>
<td>
<a href="https://github.com/cole-trapnell-lab/sci-plex">Trapnell Lab Github</a>,
<a href="https://science.sciencemag.org/content/367/6473/45">Science</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.cziscience.com/d/Single_cell_drug_screening_mcf7-44.cxg/" target="_blank">Single-cell drug screening - MCF7</a></td>
<td>
<a href="https://github.com/cole-trapnell-lab/sci-plex">Trapnell Lab Github</a>,
<a href="https://science.sciencemag.org/content/367/6473/45">Science</a>
</td>
</tr>
<tr>
<td><a href="https://cellxgene.prod.single-cell.czi.technology/d/Molecular_atlas_of_cell_types_and_zonation_in_the_brain_vasculature-48.cxg/" target="_blank">A molecular atlas of cell types and zonation in the brain vasculature</a></td>
<td>
<a href="http://betsholtzlab.org/VascularSingleCells/database.html">Betsholtz Lab</a>,
<a href="https://www.nature.com/articles/nature25739">Nature</a>
</td>
</tr>
</tbody>
</table>
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