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Cell Type
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Tissue
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Developmental Stage
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Disease
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Sex
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Technology
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Suspension Type
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Cell
893
Nucleus
659
Data Source
0
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
CELLxGENE
20,868 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Homo sapiens
Homo sapiens
Kidney loop of henle thick ascending limb epithelial cell
+9
Kidney loop of henle thick ascending limb epithelial cell
Renal medulla
Renal medulla
50-year-old stage
50-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney interstitial fibroblast
Leukocyte
Kidney proximal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Macrophage
Blood vessel smooth muscle cell
Endothelial cell
Kidney collecting duct intercalated cell
Kidney distal convoluted tubule epithelial cell
Tissue
Renal medulla
Developmental stage
50-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
GEO series:GSE190094
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
Github:marshalljamie/Kidney-Slide-seq
CELLxGENE
20,866 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Homo sapiens
Homo sapiens
Kidney loop of henle thick ascending limb epithelial cell
+8
Kidney loop of henle thick ascending limb epithelial cell
Renal medulla
Renal medulla
56-year-old stage
56-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney interstitial fibroblast
Leukocyte
Kidney collecting duct principal cell
Macrophage
Blood vessel smooth muscle cell
Endothelial cell
Kidney collecting duct intercalated cell
Kidney distal convoluted tubule epithelial cell
Tissue
Renal medulla
Developmental stage
56-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
GEO series:GSE190094
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
CELLxGENE
20,858 cells
•
Apostolov et al., 2024
Profiling of epithelial functional states and fibroblast phenotypes in hormone therapy-naïve localised prostate cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Club-like cell of the urethral epithelium
+5
Club-like cell of the urethral epithelium
Prostate gland
Prostate gland
62-year-old stage
+14
62-year-old stage
Prostatic acinar adenocarcinoma
Prostatic acinar adenocarcinoma
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Club-like cell of the urethral epithelium
Prostate neuroendocrine cell
Epithelial cell of prostate
Basal cell of prostate epithelium
Luminal cell of prostate epithelium
Ciliated epithelial cell
Tissue
Prostate gland
Developmental stage
62-year-old stage
54-year-old stage
59-year-old stage
64-year-old stage
46-year-old stage
68-year-old stage
60-year-old stage
75-year-old stage
63-year-old stage
61-year-old stage
72-year-old stage
45-year-old stage
69-year-old stage
70-year-old stage
71-year-old stage
Disease
Prostatic acinar adenocarcinoma
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE145843
CELLxGENE
20,855 cells
•
Madissoon et al., 2022
A spatially resolved atlas of the human lung characterizes a gland-associated immune niche
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of artery
+3
Endothelial cell of artery
Lung
+4
Lung
66-year-old stage
+8
66-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
+2
10x 3' v2
Cell
+1
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of artery
Blood vessel endothelial cell
Pulmonary artery endothelial cell
Vein endothelial cell
Tissue
Lung
Trachea
Upper lobe of left lung
Lower lobe of left lung
Bronchus
Developmental stage
66-year-old stage
59-year-old stage
64-year-old stage
Seventh decade stage
75-year-old stage
35-year-old stage
Sixth decade stage
58-year-old stage
29-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 5' transcription profiling
10x 3' v3
Suspension type
Cell
Nucleus
Related Links
ArrayExpress BioStudies:E-MTAB-11640
Bioimage Archive:S-BIAD570
Sanger Dataset:5locationslung
ENA Project:PRJEB52292
HumanCellAtlas:957261f7-2bd6-4358-a6ed-24ee080d5cfc
CELLxGENE
20,779 cells
•
Yayon et al., 2024
A spatial human thymus cell atlas mapped to a continuous tissue axis
Explore
h5ad
Homo sapiens
Homo sapiens
Thymic fibroblast type 2
+2
Thymic fibroblast type 2
Thymus
Thymus
14th week post-fertilization stage
+12
14th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 5' v2
+3
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Thymic fibroblast type 2
Thymic fibroblast type 1
Fibroblast
Tissue
Thymus
Developmental stage
14th week post-fertilization stage
10-month-old stage
15th week post-fertilization stage
6-month-old stage
20th week post-fertilization stage
24th week post-fertilization stage
2-year-old stage
13th week post-fertilization stage
12th week post-fertilization stage
18th week post-fertilization stage
17th week post-fertilization stage
3-month-old stage
Newborn stage (0-28 days)
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 3' v2
10x 5' v1
10x 3' v3
Suspension type
Cell
Related Links
Github:Teichlab/thymus_spatial_atlas/tree/main
Bioimage Archive:S-BIAD1257
ENA Project:PRJEB77091
ebi.ac.uk
GEO series:GSE271304
GEO series:GSE206710
ccgg.ugent.be
Github:Teichlab/TissueTag
EGA dataset:EGAD00001015384
CELLxGENE
20,741 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Near-projecting glutamatergic cortical neuron
Near-projecting glutamatergic cortical neuron
Middle temporal gyrus
Middle temporal gyrus
43-year-old stage
+23
43-year-old stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Near-projecting glutamatergic cortical neuron
Tissue
Middle temporal gyrus
Developmental stage
43-year-old stage
68-year-old stage
88-year-old stage
86-year-old stage
82-year-old stage
83-year-old stage
60-year-old stage
75-year-old stage
80-year-old stage
77-year-old stage
Adult stage
89-year-old stage
78-year-old stage
72-year-old stage
80 year-old and over stage
81-year-old stage
87-year-old stage
84-year-old stage
65-year-old stage
85-year-old stage
50-year-old stage
29-year-old stage
69-year-old stage
70-year-old stage
Disease
Dementia
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
Adult Changes in Thought Study
BRaIN-lab
Allen Brain Map:seattle-alzheimers-disease
AWS Open Data:allen-sea-ad-atlas
Alzheimer's Disease Research Center
AD knowledge portal:syn26223298
CELLxGENE
20,689 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Mus musculus
Mus musculus
Kidney loop of henle thick ascending limb epithelial cell
+9
Kidney loop of henle thick ascending limb epithelial cell
Kidney
Kidney
6-month-old stage
6-month-old stage
Autosomal dominant polycystic kidney disease
Autosomal dominant polycystic kidney disease
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney interstitial fibroblast
Leukocyte
Kidney proximal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Macrophage
Blood vessel smooth muscle cell
Endothelial cell
Kidney collecting duct intercalated cell
Kidney distal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
6-month-old stage
Disease
Autosomal dominant polycystic kidney disease
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
CELLxGENE
20,680 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Basal cell of epidermis
+2
Basal cell of epidermis
Tongue
Tongue
4-week-old stage
+3
4-week-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Basal cell of epidermis
Keratinocyte
Langerhans cell
Tissue
Tongue
Developmental stage
4-week-old stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
CELLxGENE
20,676 cells
•
Fan et al., 2019
Single-cell reconstruction of follicular remodeling in the human adult ovary
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Ovary
Ovary
Adult stage
Adult stage
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Innate lymphoid cell
T cell
B cell
Theca cell
Smooth muscle cell
Stromal cell of ovary
Endothelial cell
Granulosa cell
Tissue
Ovary
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
UCSC Cell Browser:ovarian-follicle-recon
Github:johnmous/singleCell
GEO series:GSE118127
HumanCellAtlas:faeedcb0-e046-4be7-b1ad-80a3eeabb066
CELLxGENE
20,645 cells
•
Ulrich et al., 2024
Cellular heterogeneity and dynamics of the human uterus in healthy premenopausal women
Explore
h5ad
Homo sapiens
Homo sapiens
Myoepithelial cell
+4
Myoepithelial cell
Myometrium
+1
Myometrium
32-year-old stage
+7
32-year-old stage
Normal
Normal
Female
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Myoepithelial cell
Glandular secretory epithelial cell
Memory t cell
Luminal endometrial multiciliated epithelial cell
Epithelial cell
Tissue
Myometrium
Endometrium
Developmental stage
32-year-old stage
31-year-old stage
28-year-old stage
26-year-old stage
Young adult stage
23-year-old stage
29-year-old stage
37-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE260658
GEO series:GSE111976
ArrayExpress BioStudies:E-MTAB-10287
CELLxGENE
20,611 cells
•
Kedlian et al., 2024
Human skeletal muscle aging atlas
Explore
h5ad
Homo sapiens
Homo sapiens
Non-myelinating schwann cell
+5
Non-myelinating schwann cell
Intercostal muscle
Intercostal muscle
Fourth decade stage
+5
Fourth decade stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Non-myelinating schwann cell
Myelinating schwann cell
Tendon cell
Fibroblast of the aortic adventitia
Fibroblast
Perineurial cell
Tissue
Intercostal muscle
Developmental stage
Fourth decade stage
Seventh decade stage
Young adult stage
Sixth decade stage
Eighth decade stage
Third decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
muscleageingcellatlas.org
ArrayExpress BioStudies:E-MTAB-13874
CELLxGENE
20,587 cells
•
Li et al., 2023
Integrated multi-omics single cell atlas of the human retina
Explore
h5ad
Homo sapiens
Homo sapiens
Retinal ganglion cell
+2
Retinal ganglion cell
Fovea centralis
+3
Fovea centralis
62-year-old stage
+35
62-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Retinal ganglion cell
Off parasol ganglion cell
On parasol ganglion cell
Tissue
Fovea centralis
Macula lutea
Macula lutea proper
Peripheral region of retina
Developmental stage
62-year-old stage
43-year-old stage
32-year-old stage
66-year-old stage
21-year-old stage
34-year-old stage
30-year-old stage
64-year-old stage
68-year-old stage
88-year-old stage
86-year-old stage
83-year-old stage
60-year-old stage
75-year-old stage
77-year-old stage
74-year-old stage
63-year-old stage
76-year-old stage
27-year-old stage
78-year-old stage
72-year-old stage
Prime adult stage
67-year-old stage
47-year-old stage
81-year-old stage
52-year-old stage
Eighth decade stage
84-year-old stage
65-year-old stage
85-year-old stage
60-79 year-old stage
69-year-old stage
73-year-old stage
Late adult stage
90 year-old and over stage
71-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:RCHENLAB/HRCA_reproducibility
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