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	Mucosal Immune Atlas Publication DOI 8a95341f-f023-4bff-a1d5-52c7003ab65a Homo sapiens	23'064 cells x 35'377 genes	h5ad 114 MB	Not in ASAP	Details
broad_scp sc	Mouse Bone Marrow Stroma in Emergent Leukemia SCP362	23'092 cells x 27'998 genes	counts_table 159 MB	Not in ASAP	Details
cellxgene sc	Dissection: Myelencephalon (medulla oblongata) (Mo) - medullary reticular for... Publication DOI f9034091-2e8f-4ac6-9874-e7b7eb566824 Homo sapiens	23'120 cells x 58'232 genes	h5ad 224 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in the healthy human kidney: Puck_200113_08 Publication DOI 7139f99f-c610-43b8-bb06-4280acb1c987 Homo sapiens	23'145 cells x 24'148 genes	h5ad 16.8 MB	Not in ASAP	Details
cellxgene sc	Single-soma transcriptomics of tangle-bearing neurons in Alzheimer’s disease ... Publication DOI 9813a1d4-d107-459e-9b2e-7687be935f69 Homo sapiens	23'197 cells x 32'330 genes	h5ad 221 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in mouse: Puck_191223_21 Publication DOI 79a44f62-811f-4a2f-89c7-9db3512274c5 Mus musculus	23'204 cells x 20'653 genes	h5ad 22.6 MB	Not in ASAP	Details
broad_scp sc	snRNA-seq of human epicardial, perivascular, and subcutaneous adipose tissue SCP3038 Homo sapiens	23'207 cells x 33'310 genes	rds 1.97 GB	Not in ASAP	Details
cellxgene sc	Human Immune Health Atlas DCs Publication DOI dade16db-a38b-41f5-95c8-7ec0238d17fc Homo sapiens	23'287 cells x 32'357 genes	h5ad 331 MB	Not in ASAP	Details
cellxgene sc	Dissection: Pons (Pn) - afferent nuclei of cranial nerves in pons - PnAN Publication DOI 77044335-0ac5-4406-9b3f-8cdd3656d67b Homo sapiens	23'349 cells x 58'232 genes	h5ad 124 MB	Not in ASAP	Details
cellxgene sc	Healthy - Small Intestine (second trimester) Publication DOI 6f30673d-0464-4d3c-9568-96a266a9b6f6 Homo sapiens	23'362 cells x 35'461 genes	h5ad 312 MB	Not in ASAP	Details
cellxgene sc	E9.5: 201104_36 Publication DOI 3d43c79a-c57e-4d63-adfc-52584912f82c Mus musculus	23'421 cells x 27'368 genes	h5ad 155 MB	Not in ASAP	Details
cellxgene sc	Atrial cardiomyocytes — Cells of the adult human heart Publication DOI 84f1a631-910b-4fbb-9f76-d915a07316d2 Homo sapiens	23'483 cells x 32'330 genes	h5ad 164 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in the healthy human kidney: Puck_200115_06 Publication DOI deb385b8-8030-42a4-af1f-aa28932c7344 Homo sapiens	23'510 cells x 25'480 genes	h5ad 28.5 MB	Not in ASAP	Details
broad_scp sc	Paired single-cell and spatial transcriptional profiling reveals a central os... Publication DOI SCP3268 Homo sapiens	23'577 cells x 14'882 genes	rds 1.36 GB	Not in ASAP	Details
cellxgene sc	visium UMAP - all samples Publication DOI 66025d4a-04e7-457b-b0a3-15832a669616 Homo sapiens	23'686 cells x 35'477 genes	h5ad 192 MB	Not in ASAP	Details
cellxgene sc	Neuron Publication DOI 81c79547-368d-411e-bce3-a851a819812a Mus musculus	23'729 cells x 20'210 genes	h5ad 230 MB	Not in ASAP	Details
cellxgene sc	Dissection: Cerebral cortex (Cx) - Perirhinal gyrus (PRG) - A35-A36 Publication DOI dd03ce70-3243-4c96-9561-330cc461e4d7 Homo sapiens	23'732 cells x 58'232 genes	h5ad 333 MB	Not in ASAP	Details
ebi_sc sc	A Cell Atlas of the Drosophila ovary Publication DOI E-GEOD-136162 Drosophila melanogaster	23'811 cells	h5ad 584 MB	Not in ASAP	Details
broad_scp sc	Metabolic stress primes cancer by rebalancing cell and tissue functions: Mous... SCP3354 Mus musculus	23'819 cells x 19'413 genes	rds 1.16 GB	Not in ASAP	Details
cellxgene sc	Major cell cluster: Mast cells Publication DOI abc8401d-d2e6-4467-9374-5579339a7365 Mus musculus	23'835 cells x 45'525 genes	h5ad 231 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in the healthy human kidney: Puck_200104_16 Publication DOI 43600c3c-6aa4-490a-bf80-bd74a52edfa4 Homo sapiens	23'857 cells x 22'929 genes	h5ad 16.8 MB	Not in ASAP	Details
cellxgene sc	Extended - Neural cells Publication DOI 7be23e52-e357-45d6-861f-31166913104e Homo sapiens	23'904 cells x 35'461 genes	h5ad 245 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in the healthy human kidney: Puck_200115_07 Publication DOI 0d049f5a-19b1-4055-a377-011a9570032c Homo sapiens	23'921 cells x 25'987 genes	h5ad 39.7 MB	Not in ASAP	Details
broad_scp sc	Induction of a regulatory myeloid program in bacterial sepsis and severe COVI... SCP1324 Homo sapiens	23'949 cells x 33'538 genes	counts_table 129 MB	Not in ASAP	Details
broad_scp sc	Aging promotes reorganization of the CD4 T cell landscape toward extreme regu... SCP490	24'007 cells x 27'998 genes	counts_table 28.4 MB	Not in ASAP	Details