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	DNA methylation of brain cells -- CG methylation of Non-neuronal Cells (snm3C... Publication DOI d6f3c096-a6f0-4e67-91ad-514bd286f13e Homo sapiens	83'674 cells x 59'273 genes	h5ad 9.59 GB	Not in ASAP	Details
cellxgene sc	DNA methylation of brain cells -- non-CG methylation of Non-neuronal Cells (s... Publication DOI e8d1c9cc-29e6-4b51-90f1-29e75de6098f Homo sapiens	83'674 cells x 59'273 genes	h5ad 11.8 GB	Not in ASAP	Details
cellxgene sc	snRNA-seq of human visceral adipose tissue - all cells Publication DOI 96baf2e0-60c5-48cf-b1d1-cba657851507 Homo sapiens	83'731 cells x 35'477 genes	h5ad 720 MB	Not in ASAP	Details
matkp sc	Human visceral adipocyte atlases uncover classical and specialized adipocytes... Publication DOI snRNA_Lazarescu2023_Humans_VAT Homo sapiens	83'731 cells	zip 831 MB	Not in ASAP	Details
ebi_sc sc	The Drosophila Brain on Cocaine at Single Cell Resolution Publication DOI E-GEOD-152495 Drosophila melanogaster	84'603 cells	h5ad 1 GB	Not in ASAP	Details
cellxgene sc	iPain Atlas TG All Cells - RNA Publication DOI 5d6d404a-86f9-419e-9928-56276904819c Mus musculus	84'658 cells x 26'028 genes	h5ad 573 MB	Not in ASAP	Details
cellxgene sc	Tabula Sapiens - Blood Publication DOI 983d5ec9-40e8-4512-9e65-a572a9c486cb Homo sapiens	85'233 cells x 60'606 genes	h5ad 2.39 GB	Not in ASAP	Details
cellxgene sc	Supercluster: Thalamic excitatory Publication DOI 8ba5453f-7fab-4702-a3a6-4021b1f31a7a Homo sapiens	85'546 cells x 58'232 genes	h5ad 1.3 GB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA-seq of of bone marrow derived mononuclear phagocytes derived ... Publication DOI E-CURD-100 Mus musculus	85'646 cells	h5ad 2.8 GB	Not in ASAP	Details
cellxgene sc	Stromal cells from integrated dataset of 20 donors Publication DOI 6202f287-c6f8-48f3-a296-8c8341251187 Homo sapiens	85'875 cells x 36'166 genes	h5ad 1.2 GB	Not in ASAP	Details
broad_scp sc	CELL ATLAS OF THE HUMAN FOVEA AND PERIPHERAL RETINA SCP839	86'253 cells x 23'773 genes	counts_table 1.35 GB	Not in ASAP	Details
cellxgene sc	HLiCA - human liver endothelial cells Publication DOI 375f79e2-4ae4-4016-8e5e-8b15f8cc7a41 Homo sapiens	86'530 cells x 32'624 genes	h5ad 995 MB	Not in ASAP	Details
cellxgene sc	Mucosal Atlas Publication DOI a22a3aeb-5e68-4084-8a45-94b42015adf8 Homo sapiens	87'000 cells x 35'377 genes	h5ad 517 MB	Not in ASAP	Details
cellxgene sc	pfc.a25.GAD Publication DOI 21064c09-d425-4e98-b1d2-11e0db474eb0 Callithrix jacchus	87'234 cells x 13'165 genes	h5ad 996 MB	Not in ASAP	Details
cellxgene sc	Astrocyte - DLPFC: Seattle Alzheimer's Disease Atlas (SEA-AD) Publication DOI 74d584f0-74fc-482e-b944-e76f29c1ab85 Homo sapiens	87'444 cells x 35'483 genes	h5ad 1.94 GB	Not in ASAP	Details
cellxgene sc	Myofiber (cells and nuclei) Publication DOI 551ad2bc-2e82-4541-8aab-849988d43752 Homo sapiens	87'522 cells x 32'375 genes	h5ad 432 MB	Not in ASAP	Details
cellxgene sc	Sub UMAP of the hindbrain Publication DOI 61a246fb-115a-4004-9899-af51d30fca51 Danio rerio	87'944 cells x 32'031 genes	h5ad 68.4 MB	Not in ASAP	Details
cellxgene sc	Esophagus Epithelium Publication DOI b07fb54c-d7ad-4995-8bb0-8f3d8611cabe Homo sapiens	87'947 cells x 23'472 genes	h5ad 715 MB	Not in ASAP	Details
ebi_sc sc	Adult Phenotypes and Gene Expression in the Brain at Single Cell Resolution A... Publication DOI E-GEOD-172231 Drosophila melanogaster	88'165 cells	h5ad 1.1 GB	Not in ASAP	Details
broad_scp sc	CD4+ T cells re-wire granuloma cellularity and regulatory networks, promoting... SCP2689 Macaca fascicularis	88'360 cells x 25'901 genes	h5ad 2.64 GB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA-seq of Endometrial Superficial biopsies and full depth uterin... Publication DOI E-MTAB-10287 Homo sapiens	88'748 cells	h5ad 2.4 GB	Not in ASAP	Details
ebi_sc sc	A single-cell transcriptome atlas of the ageing Drosophila brain - 10x dataset Publication DOI E-CURD-91 Drosophila melanogaster	88'809 cells	h5ad 1.2 GB	Not in ASAP	Details
cellxgene sc	Macaque: Great apes study Publication DOI e374c7eb-d99f-4196-adb3-726eb89a37d1 Macaca mulatta	89'136 cells x 19'784 genes	h5ad 769 MB	Not in ASAP	Details
cellxgene sc	Major cell cluster: T cells Publication DOI 9782622b-f589-418d-a53a-e7d841e90303 Mus musculus	89'429 cells x 45'525 genes	h5ad 695 MB	Not in ASAP	Details
cellxgene sc	All cells types from scRNA-seq of human primary sclerosing cholangitis patien... Publication DOI 02792605-4760-4023-82ad-40fc4458a5db Homo sapiens	89'637 cells x 32'596 genes	h5ad 1.04 GB	Not in ASAP	Details