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Cell
890
Nucleus
655
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Asap
43
Bgee
40
Cellxgene
2,066
Single cell portal
179
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Most cells
Fewest cells
2328
datasets
CELLxGENE
54,934 cells
•
Domínguez Conde et al., 2022
Cross-tissue immune cell analysis reveals tissue-specific features in humans
Explore
h5ad
Homo sapiens
Homo sapiens
Pro-b cell
+7
Pro-b cell
Blood
+16
Blood
Eighth decade stage
+2
Eighth decade stage
Normal
Normal
Female
+1
Female
10x 5' v2
+2
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Pro-b cell
Naive b cell
Lymphocyte
Plasmablast
Plasma cell
Memory b cell
Precursor b cell
Germinal center b cell
Tissue
Blood
Ileum
Thymus
Mesenteric lymph node
Liver
Spleen
Skeletal muscle tissue
Caecum
Lung
Lamina propria
Transverse colon
Omentum
Sigmoid colon
Duodenum
Bone marrow
Jejunal epithelium
Thoracic lymph node
Developmental stage
Eighth decade stage
Seventh decade stage
Sixth decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 5' v1
10x 3' v3
Suspension type
Cell
Related Links
ArrayExpress BioStudies:E-MTAB-11536
pan-immune.cells.ucsc.edu
celltypist.org
BroadInstitute Single-Cell Portal:SCP1845
HumanCellAtlas:04e4292c-f62f-4098-ae9b-fd69ae002a90
Bgee
54,837 cells
•
Article
Explore
scRNA-Seq droplet-based processed expression values per cell population in Mus musculus (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Mus musculus (h5ad)
Mus musculus
Mus musculus
Bladder cell
+45
Bladder cell
Thymus
+11
Thymus
3-month-old stage
3-month-old stage
Normal
Normal
Female
+1
Female
10x genomics v2
10x genomics v2
Organism
Mus musculus
Cell type
Bladder cell
Basal cell of urothelium
Obsolete somatic cell
Ciliated epithelial cell
Basal cell of epithelium of trachea
Mesenchymal stem cell
Cardiac endothelial cell
Cardiac muscle cell
Pulmonary alveolar type 2 cell
Club cell
Kidney tubule cell
Leukocyte
Macrophage
Mesothelial cell
Endocardial cell
Stromal cell
Mast cell
Lung endothelial cell
Basal cell
Splenic macrophage
Fraction a pre-pro b cell
Monocyte
Basal cell of epidermis
Kidney collecting duct cell
Granulocyte
Fibroblast
Hepatocyte
Hematopoietic stem cell
Endothelial cell
Skeletal muscle satellite cell
Mesenchymal cell
B cell
Lung macrophage
Dendritic cell
Erythrocyte
Luminal cell of lactiferous duct
Fibroblast of cardiac tissue
T cell
Neuroendocrine cell
Fenestrated endothelial cell
Chondroblast
Smooth muscle cell
Keratinocyte
Natural killer cell
Tracheal epithelial cell
Ciliated cell
Tissue
Thymus
Liver
Spleen
Lung
Trachea
Mammary gland
Urinary bladder
Tongue
Limb muscle
Bone marrow
Adult mammalian kidney
Heart
Developmental stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP131661
CELLxGENE
54,753 cells
•
Ledergor et al., 2018
Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma
Explore
h5ad
Homo sapiens
Homo sapiens
Platelet
+7
Platelet
Bone marrow
Bone marrow
66-year-old stage
+12
66-year-old stage
Normal
+1
Normal
Female
+1
Female
Mars-seq
Mars-seq
Cell
Cell
Organism
Homo sapiens
Cell type
Platelet
Macrophage
Stromal cell
Monocyte
Primitive red blood cell
Conventional dendritic cell
Plasma cell
T cell
Tissue
Bone marrow
Developmental stage
66-year-old stage
57-year-old stage
62-year-old stage
64-year-old stage
67-year-old stage
40-year-old stage
Adult stage
59-year-old stage
58-year-old stage
68-year-old stage
61-year-old stage
51-year-old stage
84-year-old stage
Disease
Normal
Plasma cell myeloma
Sex
Female
Male
Technology
Mars-seq
Suspension type
Cell
Related Links
GEO series:GSE117156
HumanCellAtlas:a29952d9-925e-40f4-8a1c-274f118f1f51
CELLxGENE
54,313 cells
•
Chan et al., 2021
Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Epithelial cell
Epithelial cell
Axilla
+5
Axilla
70-year-old stage
+13
70-year-old stage
Small cell lung carcinoma
Small cell lung carcinoma
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Epithelial cell
Tissue
Axilla
Adrenal gland
Liver
Lung
Pleural effusion
Lymph node
Developmental stage
70-year-old stage
77-year-old stage
62-year-old stage
64-year-old stage
74-year-old stage
67-year-old stage
75-year-old stage
71-year-old stage
47-year-old stage
68-year-old stage
72-year-old stage
69-year-old stage
81-year-old stage
55-year-old stage
Disease
Small cell lung carcinoma
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
data.humantumoratlas.org
dbGaP Study:phs002371
Single Cell Portal
54,298 cells
Explore
Mus musculus
Mus musculus
Oligodendrocyte
+4
Oligodendrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Oligodendrocyte
Obsolete inhibitory neuron
Obsolete excitatory neuron
Brain microvascular endothelial cell
Astrocyte of the cerebellum
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD718) (section 197)
Corresponding registered brain section (MD718) (section 198)
Single Cell Portal
54,092 cells
Explore
Homo sapiens
Homo sapiens
Endothelial cell of lymphatic vessel
+8
Endothelial cell of lymphatic vessel
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Homo sapiens
Cell type
Endothelial cell of lymphatic vessel
Lymphocyte
Macrophage
Mesothelial cell
Vascular associated smooth muscle cell
Fibroblast
Pericyte
Endothelial cell
Neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
53,040 cells
•
Liang et al., 2023
A multi-omics atlas of the human retina at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Off-bipolar cell
+1
Off-bipolar cell
Peripheral region of retina
+2
Peripheral region of retina
65-year-old stage
+4
65-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Off-bipolar cell
On-bipolar cell
Tissue
Peripheral region of retina
Fovea centralis
Macula lutea proper
Developmental stage
65-year-old stage
78-year-old stage
73-year-old stage
84-year-old stage
83-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
UCSC Cell Browser:retina-atac
GEO series:GSE226108
HumanCellAtlas:9c20a245-f2c0-43ae-82c9-2232ec6b594f
CELLxGENE
53,015 cells
•
Andrews et al., 2024
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Explore
h5ad
Homo sapiens
Homo sapiens
Periportal region hepatocyte
+2
Periportal region hepatocyte
Caudate lobe of liver
Caudate lobe of liver
Young adult stage
+2
Young adult stage
Normal
Normal
Female
+1
Female
10x 5' v1
+1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Periportal region hepatocyte
Midzonal region hepatocyte
Centrilobular region hepatocyte
Tissue
Caudate lobe of liver
Developmental stage
Young adult stage
Prime adult stage
Late adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
10x 3' v2
Suspension type
Cell
Related Links
nature.com
GEO series:GSE240429
GEO series:GSE115469
GEO series:GSE243977
GEO series:GSE247128
GEO series:GSE245620
CELLxGENE
52,681 cells
•
Gray et al., 2022
A human breast atlas integrating single-cell proteomics and transcriptomics
Explore
h5ad
Homo sapiens
Homo sapiens
Progenitor cell of mammary luminal epithelium
+5
Progenitor cell of mammary luminal epithelium
Breast
Breast
50-year-old stage
+12
50-year-old stage
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Progenitor cell of mammary luminal epithelium
Leukocyte
Basal cell
Vascular lymphangioblast
Fibroblast
Lactocyte
Tissue
Breast
Developmental stage
50-year-old stage
57-year-old stage
52-year-old stage
25-year-old stage
33-year-old stage
65-year-old stage
36-year-old stage
31-year-old stage
35-year-old stage
53-year-old stage
39-year-old stage
41-year-old stage
55-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE180878
synapse.org:#!Synapse:syn26560310
BroadInstitute Single-Cell Portal:SCP1731/a-human-breast-atlas-integrating-single-cell-proteomics-and-transcriptomics
HumanCellAtlas:9b876d31-0739-4e96-9846-f76e6a427279
CELLxGENE
52,650 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Neuron
Neuron
Gray matter of midbrain
+17
Gray matter of midbrain
50-year-old stage
+3
50-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Neuron
Tissue
Gray matter of midbrain
Dorsal tegmental nucleus
Substantia nigra
Globus pallidus
Parabrachial nucleus
Nucleus of medulla oblongata
Cerebellar nuclear complex
Temporal fusiform gyrus
Primary motor cortex
Pulvinar nucleus
Pontine tegmentum
Inferior olivary complex
Midbrain tectum
Mammillary body
Pontine reticular formation
Pontine nuclear group
Intralaminar nuclear group
Septal nuclear complex
Developmental stage
50-year-old stage
60-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
CELLxGENE
52,638 cells
•
Kumar et al., 2023
A spatially resolved single-cell genomic atlas of the adult human breast
Explore
h5ad
Homo sapiens
Homo sapiens
Vascular associated smooth muscle cell
+1
Vascular associated smooth muscle cell
Breast
Breast
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Vascular associated smooth muscle cell
Pericyte
Tissue
Breast
Developmental stage
Prime adult stage
Adult stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
breastatlas.org
GEO series:GSE195665
Github:navinlabcode/HumanBreastCellAtlas
HumanCellAtlas:1ffa2223-28a6-4133-a5a4-badd00faf4bc
CELLxGENE
52,623 cells
•
Russ et al., 2021
A harmonized atlas of mouse spinal cord cell types and their spatial organization
Explore
h5ad
Mus musculus
Mus musculus
Schwann cell
+12
Schwann cell
Spinocerebellar tract
+3
Spinocerebellar tract
23-day-old stage
+13
23-day-old stage
Normal
Normal
Female
+1
Female
Fluidigm c1-based library preparation
+5
Fluidigm c1-based library preparation
Nucleus
+1
Nucleus
Organism
Mus musculus
Cell type
Schwann cell
Astrocyte
Oligodendrocyte precursor cell
Glial cell
Oligodendrocyte
Arachnoid barrier cell
Committed oligodendrocyte precursor
Leptomeningeal cell
Microglial cell
Ependymal cell
Pericyte
Endothelial cell
Neuron
Tissue
Spinocerebellar tract
Lumbar spinal cord
Spinal cord
Dorsal horn of spinal cord
Developmental stage
23-day-old stage
21-day-old stage
Infant stage
27-day-old stage
25-day-old stage
24-day-old stage
4-week-old stage
22-day-old stage
1-week-old stage
Theiler stage 27
26-day-old stage
2-month-old stage
2-week-old stage
Immature stage
Disease
Normal
Sex
Female
Male
Technology
Fluidigm c1-based library preparation
10x 3' v1
Scrb-seq
Drop-seq
10x 3' v2
Split-seq
Suspension type
Nucleus
Cell
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