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Cell
896
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
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Most cells
Fewest cells
2346
datasets
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
Particle-templated instant partition sequencing
Particle-templated instant partition sequencing
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
Particle-templated instant partition sequencing
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
Parse evercode whole transcriptome v2
Parse evercode whole transcriptome v2
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
Parse evercode whole transcriptome v2
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
10x 5' v2
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
10x 5' v2
Suspension type
Cell
Related Links
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
Github:danledinh/scRNAseq-repo
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
Bd rhapsody whole transcriptome analysis
Bd rhapsody whole transcriptome analysis
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
Bd rhapsody whole transcriptome analysis
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
10x gene expression flex
10x gene expression flex
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
10x gene expression flex
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
CELLxGENE
7,750 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
Hive clx single-cell rnaseq solution
Hive clx single-cell rnaseq solution
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cytotoxic t cell
Plasmacytoid dendritic cell
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
Megakaryocyte
Cd14-low, cd16-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
Hive clx single-cell rnaseq solution
Suspension type
Cell
Related Links
Github:danledinh/scRNAseq-repo
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
Bgee
7,727 cells
•
Kurmangaliyev et al., 2019
Modular transcriptional programs separately define axon and dendrite connectivity
Explore
scRNA-Seq droplet-based processed expression values per cell population in Drosophila melanogaster (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Drosophila melanogaster (h5ad)
Drosophila melanogaster
Drosophila melanogaster
T5c neuron
+8
T5c neuron
Embryonic/larval optic lobe
Embryonic/larval optic lobe
Pupal stage p6
+1
Pupal stage p6
Normal
Normal
Female
Female
10x genomics v2
10x genomics v2
Organism
Drosophila melanogaster
Cell type
T5c neuron
T4c neuron
T4a neuron
T4d neuron
T5d neuron
T4b neuron
T5a neuron
T neuron
T5b neuron
Tissue
Embryonic/larval optic lobe
Developmental stage
Pupal stage p6
Pharate adult stage p8
Disease
Normal
Sex
Female
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP184201
CELLxGENE
7,726 cells
•
Duran et al., 2025
A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments
Explore
h5ad
Danio rerio
Danio rerio
Neutrophil
+3
Neutrophil
Multicellular anatomical structure
+1
Multicellular anatomical structure
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Neutrophil
Erythrocyte
Myeloid lineage restricted progenitor cell
Macrophage
Tissue
Multicellular anatomical structure
Blood
Developmental stage
Pharyngula:prim-15
Hatching:long-pec
Larval:protruding-mouth
Pharyngula:prim-25
Segmentation:26+ somites
Segmentation:14-19 somites
Hatching:pec-fin
Segmentation:20-25 somites
Pharyngula:high-pec
Pharyngula:prim-5
Disease
Normal
Sex
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
cole-trapnelllab.github.io
DOI:10.1038/s41586-023-06720-2
GEO series:GSE295164
CELLxGENE
7,689 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Choroid plexus epithelial cell
Choroid plexus epithelial cell
Anterior nuclear group
+19
Anterior nuclear group
42-year-old stage
+3
42-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Choroid plexus epithelial cell
Tissue
Anterior nuclear group
Pontine reticular formation
Intralaminar nuclear group
Nucleus of medulla oblongata
Pontine tegmentum
Midbrain nucleus
Hippocampal field
Septal nuclear complex
Cerebellar nuclear complex
Midbrain tectum
Pulvinar nucleus
Hypothalamus
Primary motor cortex
Spinal cord
Dentate gyrus of hippocampal formation
Mammillary body
Superior temporal gyrus
Superior parietal cortex
Lateral geniculate body
Nucleus of dorsal thalamus
Developmental stage
42-year-old stage
29-year-old stage
50-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
CELLxGENE
7,632 cells
•
Emont et al., 2022
A single-cell atlas of human and mouse white adipose tissue
Explore
h5ad
Mus musculus
Mus musculus
Endothelial cell of lymphatic vessel
+3
Endothelial cell of lymphatic vessel
Periovarian fat pad
+2
Periovarian fat pad
19-week-old stage
19-week-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Endothelial cell of lymphatic vessel
Endothelial cell
Smooth muscle cell
Pericyte
Tissue
Periovarian fat pad
Inguinal fat pad
Epididymal fat pad
Developmental stage
19-week-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
gitlab.com
GEO series:GSE176067
GEO series:GSE176171
dbGaP Study:phs002766
BroadInstitute Single-Cell Portal:SCP1376
Bgee
7,631 cells
•
Murat et al., 2022
The molecular evolution of spermatogenesis across mammals
Explore
scRNA-Seq droplet-based processed expression values per cell population in Macaca mulatta (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Macaca mulatta (h5ad)
Macaca mulatta
Macaca mulatta
Cell
+7
Cell
Testis
Testis
Normal
Normal
Male
Male
10x genomics v2
10x genomics v2
Organism
Macaca mulatta
Cell type
Cell
Early spermatid
Sertoli cell
Late spermatid
Male germ line stem cell
Obsolete somatic cell
Spermatocyte
Spermatogonium
Tissue
Testis
Developmental stage
Disease
Normal
Sex
Male
Technology
10x genomics v2
Suspension type
Related Links
ebi.ac.uk
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