Published data collections

A cell atlas of human thymic development defines T cell repertoire formation

https://doi.org/10.1126/science.aay3224Deposited data# 255,901 cells

A human breast atlas integrating single-cell proteomics and transcriptomics

https://doi.org/10.1016/j.devcel.2022.05.003Deposited data# 52,681 cells

A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates

https://doi.org/10.1016/j.cell.2022.11.005Deposited data# 142,247 cells

A molecular cell atlas of the human lung from single cell RNA sequencing

https://doi.org/10.1038/s41586-020-2922-4Deposited data# 75,071 cells

A molecular single-cell lung atlas of lethal COVID-19

https://doi.org/10.1038/s41586-021-03569-1Deposited data# 116,313 cells

A single-cell and spatially resolved atlas of human breast cancers

https://doi.org/10.1038/s41588-021-00911-1Deposited data# 100,064 cells

A single-cell atlas of human and mouse white adipose tissue

https://doi.org/10.1038/s41586-022-04518-2Deposited data# 166,149 cells

A single-cell atlas of the peripheral immune response in patients with severe COVID-19

https://doi.org/10.1038/s41591-020-0944-yDeposited data# 44,721 cells

A single-cell comparison of adult and fetal human epicardium defines the age-associated changes in epicardial activity

https://doi.org/10.1038/s44161-022-00183-wDeposited data# 60,668 cells

A spatially resolved single cell genomic atlas of the adult human breast

https://doi.org/10.1038/s41586-023-06252-9Deposited data# 831,677 cells

An integrated cell atlas of the lung in health and disease

https://doi.org/10.1038/s41591-023-02327-2Deposited data# 584,944 cells

Blood and immune development in human fetal bone marrow and Down syndrome

https://doi.org/10.1038/s41586-021-03929-xDeposited data# 156,947 cells

Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution

https://doi.org/10.1016/j.cell.2020.08.013Deposited data# 98,348 cells

Cells of the adult human heart

https://doi.org/10.1038/s41586-020-2797-4Deposited data# 486,134 cells

Cells of the human intestinal tract mapped across space and time

https://doi.org/10.1038/s41586-021-03852-1Deposited data# 428,469 cells

Developmental cell programs are co-opted in inflammatory skin disease

https://doi.org/10.1126/science.aba6500Deposited data# 195,739 cells

Distinct microbial and immune niches of the human colon

https://doi.org/10.1038/s41590-020-0602-zDeposited data# 41,650 cells

Dysregulated lung stroma drives emphysema exacerbation by potentiating resident lymphocytes to suppress an epithelial stem cell reservoir

https://doi.org/10.1016/j.immuni.2023.01.032Deposited data# 57,747 cells

HCA kidney seed network: University of Michigan

https://explore.data.humancellatlas.org/projects/29ed827b-c539-4f4c-bb6b-ce8f9173dfb7Deposited data# 48,783 cells

Immunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19

https://doi.org/10.1126/sciimmunol.abd1554Deposited data# 59,572 cells

Integrated analysis of multimodal single-cell data

https://doi.org/10.1016/j.cell.2021.04.048Deposited data# 161,764 cells

Integrated analysis of multimodal single-cell data (version 2)

https://doi.org/10.1016/j.cell.2021.04.048Deposited data# 584,884 cells

Integrated scRNA-Seq Identifies Human Postnatal Thymus Seeding Progenitors and Regulatory Dynamics of Differentiating Immature Thymocytes

https://doi.org/10.1016/j.immuni.2020.03.019Deposited data# 71,732 cells

Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis

https://doi.org/10.1016/j.cell.2019.06.029Deposited data# 34,772 cells

Local and systemic responses to SARS-CoV-2 infection in children and adults

https://doi.org/10.1038/s41586-021-04345-xDeposited data# 659,197 cells

Mapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancer

https://doi.org/10.1016/j.ccell.2022.11.001Deposited data# 270,855 cells

Multi-scale spatial mapping of cell populations across anatomical sites in healthy human skin and basal cell carcinoma

https://doi.org/10.1073%2Fpnas.2313326120Deposited data# 152,189 cells

Multiomic Profiling of Human Clonal Hematopoiesis Reveals Genotype and Cell-Specific Inflammatory Pathway Activation

https://doi.org/10.1182/bloodadvances.2023011445Deposited data# 66,985 cells

Polybacterial intracellular coinfection of epithelial stem cells in periodontitis

https://doi.org/10.1101/2023.08.23.554343Deposited data# 105,918 cells

Prolonged cytopenia following CD19 CAR T cell therapy is linked with bone marrow infiltration of clonally expanded IFNγ-expressing CD8 T cells

https://doi.org/10.1016/j.xcrm.2023.101158Deposited data# 92,676 cells

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

https://doi.org/10.1038/s41467-018-06318-7Deposited data# 8,444 cells

Single cell analysis of mouse and human prostate reveals novel fibroblasts with specialized distribution and microenvironment interactions

https://doi.org/10.1002/path.5751Deposited data# 83,451 cells

Single cell derived mRNA signals across human kidney tumors

https://doi.org/10.1038/s41467-021-23949-5Deposited data# 31,839 cells

Single cell profiling of COVID-19 patients: an international data resource from multiple tissues

https://doi.org/10.1101/2020.11.20.20227355Deposited data# 59,506 cells

Single cell profiling of COVID-19 patients: an international data resource from multiple tissues

https://doi.org/10.1101/2020.11.20.20227355Deposited data# 97,499 cells

Single-cell Atlas of common variable immunodeficiency shows germinal center-associated epigenetic dysregulation in B-cell responses

https://doi.org/10.1038/s41467-022-29450-xDeposited data# 113,289 cells

Single-cell RNA sequencing unifies developmental programs of Esophageal and Gastric Intestinal Metaplasia

https://doi.org/10.1158/2159-8290.CD-22-0824Deposited data# 293,823 cells

Single-cell analyses of renal cell cancers reveal insights into tumor microenvironment, cell of origin, and therapy response

https://doi.org/10.1073/pnas.2103240118Deposited data# 29,129 cells

Single-cell analysis of human B cell maturation predicts how antibody class switching shapes selection dynamics

https://doi.org/10.1126/sciimmunol.abe6291Deposited data# 32,607 cells

Single-cell multi-omics analysis of the immune response in COVID-19

https://doi.org/10.1038/s41591-021-01329-2Deposited data# 647,366 cells

Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes

https://doi.org/10.7554/eLife.62522Deposited data# 46,500 cells

Single-cell reconstruction of follicular remodeling in the human adult ovary

https://doi.org/10.1038/s41467-019-11036-9Deposited data# 20,676 cells

Single-cell reconstruction of the early maternal–fetal interface in humans

https://doi.org/10.1038/s41586-018-0698-6Deposited data# 70,325 cells

Single-cell sequencing links multiregional immune landscapes and tissue-resident T cells in ccRCC to tumor topology and therapy efficacy

https://doi.org/10.1016/j.ccell.2021.03.007Deposited data# 167,283 cells

Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors

https://doi.org/10.1126/science.aat1699Deposited data# 40,268 cells

Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver

https://doi.org/10.1016/j.jhep.2023.12.023Deposited data# 195,417 cells

Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function

https://doi.org/10.1126/science.abl4290Deposited data# 209,126 cells

Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches

https://doi.org/10.1016/j.cell.2021.12.018Deposited data# 167,598 cells

Spatiotemporal immune zonation of the human kidney

https://doi.org/10.1126/science.aat5031Deposited data# 67,465 cells

The landscape of immune dysregulation in Crohn’s disease revealed through single-cell transcriptomic profiling in the ileum and colon

https://doi.org/10.1016/j.immuni.2023.01.002Deposited data# 720,633 cells

Time-resolved Systems Immunology Reveals a Late Juncture Linked to Fatal COVID-19

https://doi.org/10.1016/j.cell.2021.02.018Deposited data# 372,081 cells

Type I interferon autoantibodies are associated with systemic immune alterations in patients with COVID-19

https://doi.org/10.1126/scitranslmed.abh2624Deposited data# 600,929 cells

mRNA COVID-19 vaccine elicits potent adaptive immune response without the acute inflammation of SARS-CoV-2 infection

https://doi.org/10.1016/j.isci.2023.108572Deposited data# 195,632 cells

scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation

https://doi.org/10.1186/s13059-019-1906-xDeposited data# 239,222 cells