External catalog

Candidate datasets from CELLxGENE, Bgee, EBI single cell expression atlas, HCA, Broad Single Cell Portal, and GEO. Create an ASAP project from an entry that is not imported yet.

Broad SCP candidates are limited to public, non-embargoed studies under the SCP Terms of Service; redistributed data is for research use only.

Source	Dataset	Matrix	Format	ASAP	Actions
cellxgene sc	IBD and HC 10x Single-cell transcriptomics data Publication DOI 9bfecd44-e6b5-4072-9b64-cb7f0a117f88 Homo sapiens	46'700 cells x 32'354 genes	h5ad 175 MB	Not in ASAP	Details
cellxgene sc	Tabula Sapiens - Muscle Publication DOI 1c9eb291-6d31-47e1-96b2-129b5e1ae64f Homo sapiens	46'772 cells x 60'606 genes	h5ad 1.91 GB	Not in ASAP	Details
cellxgene sc	A single-cell multi-omic atlas spanning the adult rhesus macaque brain (cell ... Publication DOI e25e50f8-ed2a-4bb0-b6b6-1a4f4ea5af37 Macaca mulatta	46'814 cells x 29'060 genes	h5ad 68.7 MB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA-sequencing analysis of Arabidopsis roots Publication DOI E-GEOD-123013 Arabidopsis thaliana	46'991 cells	h5ad 1.1 GB	Not in ASAP	Details
ebi_sc sc	Global Dynamic Molecular Profiling of Stomatal Lineage Cell Development by Si... Publication DOI E-ENAD-49 Arabidopsis thaliana	46'997 cells	h5ad 875 MB	Not in ASAP	Details
cellxgene sc	progressive_plasticity_during_crc_metastasis_epithelial Publication DOI 829a3cd1-a466-49f1-b2e9-d3f6b7f392e2 Homo sapiens	47'107 cells x 25'344 genes	h5ad 715 MB	Not in ASAP	Details
broad_scp sc	Semaglutide and bariatric surgery induce distinct changes in the composition ... SCP2718 Mus musculus	47'180 cells x 22'311 genes	rds 81.6 MB	Not in ASAP	Details
cellxgene sc	L6 IT - DLPFC: Seattle Alzheimer's Disease Atlas (SEA-AD) Publication DOI 6437bc9c-16cb-46c8-8f79-9a7384a0212a Homo sapiens	47'373 cells x 35'483 genes	h5ad 2.39 GB	Not in ASAP	Details
cellxgene sc	Dissection: Pons (Pn) - efferent nuclei of cranial nerves in pons - PnEN Publication DOI 900fdf13-150d-4695-9f8c-4c09105ba2eb Homo sapiens	47'416 cells x 58'232 genes	h5ad 408 MB	Not in ASAP	Details
cellxgene sc	Urethral luminal epithelia are castration-insensitive cells of the proximal p... Publication DOI 2aef80da-acb4-4e15-8f7d-6c0322b86b2f Mus musculus	47'435 cells x 19'344 genes	h5ad 380 MB	Not in ASAP	Details
broad_scp sc	HCA LungMAP COVID-19 Brain SCP891	47'509 cells x 27 genes	counts_table 878 KB	Not in ASAP	Details
ebi_sc sc	A single cell transcriptome atlas of myeloid blood cell lineages in Drosophil... Publication DOI E-GEOD-141273 Drosophila melanogaster	47'876 cells	h5ad 905 MB	Not in ASAP	Details
broad_scp sc	Transcriptomic analysis of 22q11.2 deletion astrocytes SCP2865	47'891 cells	h5ad 10.1 GB	Not in ASAP	Details
cellxgene sc	All annotated cells from infection 1 Publication DOI 2ac76f1b-43ef-4271-8686-2f165570989f Homo sapiens	48'226 cells x 57'509 genes	h5ad 857 MB	Not in ASAP	Details
ebi_sc sc	A comprehensive series of temporal transcription factors in the fly visual sy... Publication DOI E-GEOD-167266 Drosophila melanogaster	48'228 cells	h5ad 1 GB	Not in ASAP	Details
cellxgene sc	Cellular and transcriptional diversity over the course of human lactation Publication DOI 0920bcb8-4b3a-4e9d-a353-56f529fd3b32 Homo sapiens	48'478 cells x 31'876 genes	h5ad 473 MB	Not in ASAP	Details
broad_scp sc	Impact of variants and vaccination on nasal immunity across three waves of SA... SCP2593 Homo sapiens	48'730 cells x 29'961 genes	rds 1.61 GB	Not in ASAP	Details
cellxgene sc	Single cell RNA-seq data from normal adult kidney tissue 0b4a15a7-4e9e-4555-9733-2423e5c66469 Homo sapiens	48'783 cells x 36'020 genes	h5ad 633 MB	Not in ASAP	Details
cellxgene sc	Dissection: Thalamus (THM) - posterior nuclear complex of thalamus (PoN) - la... Publication DOI d2514440-d747-4d8d-b2c7-b58ef8b71fbe Homo sapiens	48'856 cells x 58'232 genes	h5ad 475 MB	Not in ASAP	Details
broad_scp sc	Single cell transcriptomic analyses of human heart failure with preserved eje... SCP3342 Homo sapiens	48'866 cells x 36'601 genes	h5ad 3.53 GB	Not in ASAP	Details
cellxgene sc	Single-cell gene expression profiling of SARS-CoV-2 infected human cell lines... Publication DOI 4b9e0a15-c006-45d9-860f-b8a43ccf7d9d Homo sapiens	48'890 cells x 16'160 genes	h5ad 4.06 GB	Not in ASAP	Details
cellxgene sc	A single-cell multi-omic atlas spanning the adult rhesus macaque brain (cell ... Publication DOI f61d3b91-150e-40ac-83ba-9a7eae434cb6 Macaca mulatta	48'920 cells x 29'060 genes	h5ad 157 MB	Not in ASAP	Details
cellxgene sc	Tabula Sapiens - Ovary Publication DOI bb78adbb-1428-4468-bad0-63602bb974e9 Homo sapiens	48'951 cells x 60'606 genes	h5ad 1.69 GB	Not in ASAP	Details
cellxgene sc	3 healthy young and 3 healthy old bone marrow donors (Reference sample) Publication DOI cd4c96bb-ad66-4e83-ba9e-a7df8790eb12 Homo sapiens	49'057 cells x 461 genes	h5ad 56.7 MB	Not in ASAP	Details
broad_scp sc	In vivo Perturb-Seq reveals neuronal and glial abnormalities associated with ... SCP1184	49'067 cells x 27'998 genes	counts_table 1.04 GB	Not in ASAP	Details