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Cell
871
Nucleus
653
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Asap
43
Bgee
40
Cellxgene
2,045
Single cell portal
176
Sort
Most cells
Fewest cells
2304
datasets
Bgee
146,133 cells
•
Ton et al., 2023
An atlas of rabbit development as a model for single-cell comparative genomics
Explore
h5ad
Oryctolagus cuniculus
Oryctolagus cuniculus
Mononuclear cytotrophoblast cell
+33
Mononuclear cytotrophoblast cell
Extraembryonic tissue
+3
Extraembryonic tissue
Embryo stage
Embryo stage
Normal
Normal
Mixed sex
Mixed sex
10x genomics v3
10x genomics v3
Organism
Oryctolagus cuniculus
Cell type
Mononuclear cytotrophoblast cell
Mesothelial cell of epicardium
Cns neuron (sensu vertebrata)
Epithelial cell of thyroid gland
Endodermal cell
Vein endothelial cell
Trophoblast cell
Fetal cardiomyocyte
Endocardial cell
Epithelial cell
Primordial germ cell
Bone marrow hematopoietic cell
Mesenchymal cell
Obsolete somatic cell
Neurecto-epithelial cell
Epiblast cell
Embryonic cell (metazoa)
Amniocyte
Erythroid lineage cell
Mesodermal cell
Progenitor cell
Extraembryonic cell
Megakaryocyte-erythroid progenitor cell
Lateral mesodermal cell
Migratory neural crest cell
Surface ectodermal cell
Syncytiotrophoblast cell
Mesothelial cell
Ectodermal cell
Notochordal cell
Neuron
Neural crest cell
Paraxial cell
Endothelial cell
Tissue
Extraembryonic tissue
Conceptus
Embryo
Yolk sac
Developmental stage
Embryo stage
Disease
Normal
Sex
Mixed sex
Technology
10x genomics v3
Suspension type
Related Links
ebi.ac.uk
CELLxGENE
145,995 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
Oligodendrocyte
Dorsolateral prefrontal cortex
Dorsolateral prefrontal cortex
78-year-old stage
+20
78-year-old stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte
Tissue
Dorsolateral prefrontal cortex
Developmental stage
78-year-old stage
80 year-old and over stage
72-year-old stage
83-year-old stage
85-year-old stage
81-year-old stage
82-year-old stage
42-year-old stage
86-year-old stage
70-year-old stage
75-year-old stage
50-year-old stage
89-year-old stage
68-year-old stage
29-year-old stage
77-year-old stage
69-year-old stage
88-year-old stage
87-year-old stage
80-year-old stage
84-year-old stage
Disease
Dementia
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
Alzheimer's Disease Research Center
Adult Changes in Thought Study
BRaIN-lab
AD knowledge portal:syn26223298
AWS Open Data:allen-sea-ad-atlas
Allen Brain Map:seattle-alzheimers-disease
Single Cell Portal
143,330 cells
Explore
Mus musculus
Mus musculus
Fibroblast
+38
Fibroblast
Influenza
+1
Influenza
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Fibroblast
Olfactory receptor cell
Plasmablast
Schwann cell
Osteoclast
Sustentacular cell
Neural progenitor cell
Ionocyte
Mast cell
Group 2 innate lymphoid cell
Smooth muscle cell
Neutrophil
Epithelial cell
Stromal cell
Alpha-beta t cell
Oligodendrocyte
Dendritic cell
B cell
Gamma-delta t cell
Chondrocyte
Tuft cell
Pericyte
Hematopoietic stem cell
Precursor b cell
Plasmacytoid dendritic cell
Goblet cell
Vomeronasal sensory neuron
Cd8-positive, alpha-beta t cell
Granulocyte monocyte progenitor cell
Natural killer cell
Macrophage
Ciliated epithelial cell
Group 3 innate lymphoid cell
Osteoblast
Monocyte
Basal cell
Cd4-positive, alpha-beta t cell
Serous secreting cell
Endothelial cell
Tissue
Developmental stage
Disease
Influenza
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
143,015 cells
•
Srivatsan et al., 2020
Massively multiplex chemical transcriptomics at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Cultured cell
Cultured cell
A-549
A-549
Normal
Normal
Sci-plex
Sci-plex
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Cultured cell
Tissue
A-549
Developmental stage
Disease
Normal
Sex
Technology
Sci-plex
Suspension type
Nucleus
Related Links
Github:cole-trapnell-lab/sci-plex
GEO series:GSE139944
CELLxGENE
142,816 cells
•
Reichart et al., 2022
Pathogenic variants damage cell composition and single cell transcription in cardiomyopathies
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast of cardiac tissue
Fibroblast of cardiac tissue
Heart left ventricle
+3
Heart left ventricle
Third decade stage
+7
Third decade stage
Non-compaction cardiomyopathy
+3
Non-compaction cardiomyopathy
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast of cardiac tissue
Tissue
Heart left ventricle
Apex of heart
Interventricular septum
Heart right ventricle
Developmental stage
Third decade stage
Postnatal stage
Sixth decade stage
Fourth decade stage
Eighth decade stage
Fifth decade stage
Pediatric stage
Seventh decade stage
Disease
Non-compaction cardiomyopathy
Arrhythmogenic right ventricular cardiomyopathy
Dilated cardiomyopathy
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
Github:heiniglab/DCM_heart_cell_atlas
Zenodo record:6962685#.YuyuihxBzKE
EGA Study:EGAS00001006374
CELLxGENE
142,362 cells
•
Braun et al., 2023
Comprehensive cell atlas of the first-trimester developing human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+11
Fibroblast
Cerebellum
Cerebellum
Carnegie stage 20
+4
Carnegie stage 20
Normal
Normal
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast
Neuroblast (sensu vertebrata)
Neuroblast (sensu nematoda and protostomia)
Cell
Glioblast
Oligodendrocyte
Neuroplacodal cell
Macrophage
Erythrocyte
Radial glial cell
Neuron
Neural crest cell
Tissue
Cerebellum
Developmental stage
Carnegie stage 20
15th week post-fertilization stage
13th week post-fertilization stage
12th week post-fertilization stage
9th week post-fertilization stage
Disease
Normal
Sex
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
EGA dataset:EGAD00001006049
Github:linnarsson-lab/developing-human-brain?tab=readme-ov-file
CELLxGENE
142,215 cells
•
Krienen et al., 2023
A marmoset brain cell census reveals regional specialization of cellular identities
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Gabaergic neuron
Gabaergic neuron
Primary motor cortex
+11
Primary motor cortex
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Gabaergic neuron
Tissue
Primary motor cortex
Primary visual cortex
Dorsolateral prefrontal cortex
Primary somatosensory cortex
Brodmann (1909) area 25
Temporal cortex
Temporal lobe
Secondary visual cortex
Primary auditory cortex
Brodmann (1909) area 23
Prefrontal cortex
Parietal cortex
Developmental stage
Prime adult stage
Late adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
NeMo archive:dat-1je0mn3
submit.brainimagelibrary.org
Single Cell Portal
141,522 cells
Explore
Mus musculus
Mus musculus
Cell
Cell
Normal
Normal
Mixed sex
Mixed sex
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Cell
Tissue
Developmental stage
Disease
Normal
Sex
Mixed sex
Technology
10x 3' v2
Suspension type
CELLxGENE
141,401 cells
•
Novella-Rausell et al., 2023
A comprehensive mouse kidney atlas enables rare cell population characterization and robust marker discovery
Explore
h5ad
Mus musculus
Mus musculus
Fibroblast
+29
Fibroblast
Cortex of kidney
+5
Cortex of kidney
2-month-old stage
+5
2-month-old stage
Normal
Normal
Male
Male
10x 3' transcription profiling
+4
10x 3' transcription profiling
Nucleus
+1
Nucleus
Organism
Mus musculus
Cell type
Fibroblast
Kidney loop of henle thin descending limb epithelial cell
Kidney glomerular epithelial cell
Kidney efferent arteriole endothelial cell
Kidney collecting duct epithelial cell
Epithelial cell of proximal tubule
Podocyte
Renal alpha-intercalated cell
Kidney connecting tubule epithelial cell
Neutrophil
Kidney afferent arteriole endothelial cell
Kidney loop of henle cortical thick ascending limb epithelial cell
Vasa recta descending limb cell
Dendritic cell
B cell
Renal beta-intercalated cell
Pericyte
Kidney loop of henle thin ascending limb epithelial cell
Kidney distal convoluted tubule epithelial cell
Mesangial cell
Natural killer cell
Macrophage
Kidney loop of henle medullary thick ascending limb epithelial cell
Kidney loop of henle epithelial cell
Macula densa epithelial cell
Kidney collecting duct principal cell
T cell
Glomerular endothelial cell
Kidney cortex tubule cell
Endothelial cell
Tissue
Cortex of kidney
Outer medulla of kidney
Kidney
Renal medulla
Inner medulla of kidney
Renal glomerulus
Developmental stage
2-month-old stage
12-week-old stage
8-week-old stage
Postnatal stage
Mature stage
Prime adult stage
Disease
Normal
Sex
Male
Technology
10x 3' transcription profiling
10x 3' v3
Dronc-seq
Drop-seq
10x 3' v2
Suspension type
Nucleus
Cell
Single Cell Portal
139,978 cells
Explore
🔧
Cell type:
Invalid ontology prefix 'UBERON'. Expected one of: CL, FBbt, WBbt, ZFA
Homo sapiens
Homo sapiens
Fibroblast
+14
Fibroblast
Normal
Normal
10x 3' v1
10x 3' v1
Organism
Homo sapiens
Cell type
Fibroblast
Schwann cell
Astrocyte
Myelinating schwann cell
Melanocyte
Oligodendrocyte precursor cell
Oligodendrocyte
B cell
Vascular associated smooth muscle cell
Pigmented epithelial cell
Pericyte
Natural killer cell
Macrophage
Microglial cell
T cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v1
Suspension type
CELLxGENE
139,978 cells
•
Monavarfeshani et al., 2023
Transcriptomic analysis of the ocular posterior segment completes a cell atlas of the human eye
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+15
Fibroblast
Cranial nerve ii
+5
Cranial nerve ii
74-year-old stage
+12
74-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Schwann cell
Astrocyte
Myelinating schwann cell
Melanocyte
Oligodendrocyte precursor cell
Oligodendrocyte
B cell
Vascular associated smooth muscle cell
Pigmented epithelial cell
Pericyte
Natural killer cell
Macrophage
Microglial cell
T cell
Endothelial cell
Tissue
Cranial nerve ii
Peripheral region of retina
Pigmented layer of retina
Sclera
Optic disc
Macula lutea
Developmental stage
74-year-old stage
72-year-old stage
53-year-old stage
30-year-old stage
50-year-old stage
77-year-old stage
33-year-old stage
69-year-old stage
76-year-old stage
67-year-old stage
65-year-old stage
71-year-old stage
47-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
ncbi.nlm.nih.gov
BroadInstitute Single-Cell Portal:SCP2310/transcriptomic-analysis-of-the-ocular-posterior-segment-completes-a-cell-atlas-of-the-human-eye-ocular-atlas
HumanCellAtlas:1c5eaabf-075b-4b7a-a9e6-07792c2034b3
BroadInstitute Single-Cell Portal:SCP2298/transcriptomic-analysis-of-the-ocular-posterior-segment-completes-a-cell-atlas-of-the-human-eye
CELLxGENE
139,054 cells
•
Jorstad et al., 2023
Transcriptomic cytoarchitecture reveals principles of human neocortex organization
Explore
h5ad
Homo sapiens
Homo sapiens
L6b glutamatergic cortical neuron
+17
L6b glutamatergic cortical neuron
Primary auditory cortex
Primary auditory cortex
42-year-old stage
+4
42-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L6b glutamatergic cortical neuron
Lamp5 gabaergic interneuron
Astrocyte of the cerebral cortex
Corticothalamic-projecting glutamatergic cortical neuron
Pvalb chandelier gabaergic interneuron
Vip gabaergic interneuron
Oligodendrocyte precursor cell
Caudal ganglionic eminence derived interneuron
L2/3-6 intratelencephalic projecting glutamatergic neuron
Oligodendrocyte
Cerebral cortex endothelial cell
Pvalb gabaergic interneuron
Sncg gabaergic interneuron
Sst gabaergic interneuron
L5 extratelencephalic projecting glutamatergic cortical neuron
Near-projecting glutamatergic cortical neuron
Vascular leptomeningeal cell
Microglial cell
Tissue
Primary auditory cortex
Developmental stage
42-year-old stage
50-year-old stage
29-year-old stage
60-year-old stage
43-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:AllenInstitute/human_cross_areal
Allen Brain Map Atlases:rnaseq/human-multiple-cortical-areas-smart-seq
NeMo archive:dat-rg2rc5m
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