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
geo sc	A single-cell and spatial immune atlas of chronic antibody-mediated rejection... GSE328870 Homo sapiens	—	rds 1.88 GB	Not in ASAP	Details
geo sc	Performance evaluation of Arabidopsis scRNA-seq sample processing strategies GSE300264 Arabidopsis thaliana	—	rds 1.89 GB	Not in ASAP	Details
geo sc	Single cell sequencing of APECED patient and Healthy control peripheral blood... GSE339254 Homo sapiens	—	rds 1.9 GB	Not in ASAP	Details
hca sc	A Cellular Atlas of Pitx2-Dependent Cardiac Development. Publication DOI 7027adc6-c9c9-46f3-84ee-9badc3a4f53b::4a50dc51-0a52-5a98-a295-323ca12b8442 Mus musculus	—	loom 1.9 GB	Not in ASAP	Details
hca sc	Reconstructing the human first trimester fetal-maternal interface using singl... Publication DOI f83165c5-e2ea-4d15-a5cf-33f3550bffde::0e8af267-4d85-503e-8d0a-a7895da7cf6a Homo sapiens	—	loom 1.91 GB	Not in ASAP	Details
allen_abc sc	SEA-AD-Multiregion-10X / LEC-10X (Allen Brain Cell Atlas 20260711) LEC-10X Homo sapiens	—	h5ad 1.91 GB	Not in ASAP	Details
hca sc	The landscape of immune dysregulation in Crohn's disease revealed through sin... Publication DOI cae461de-ecbd-482f-a5d4-11d607fc12ba::6c7b3f36-b91a-4085-888a-444aca098f27 Homo sapiens	—	mtx 1.93 GB	Not in ASAP	Details
geo sc	Mutant IDH1 blocks neutropoiesis by repressing myeloid progenitor programs [s... GSE330314 Mus musculus	—	rds 1.93 GB	Not in ASAP	Details
hca sc	A single cell immune cell atlas of human hematopoietic system cc95ff89-2e68-4a08-a234-480eca21ce79::eb1b1979-f4d8-5a60-8c01-d1e476d2afd0 Homo sapiens	—	loom 1.95 GB	Not in ASAP	Details
geo sc	Lamins gate nuclear and chromatin structures for cardiomyocyte maturation gen... GSE330100 Mus musculus	—	rds 1.95 GB	Not in ASAP	Details
allen_abc sc	Consensus-WMB-Macosko-10X / Macosko-10X-TH (Allen Brain Cell Atlas 20260711) Macosko-10X-TH Mus musculus	—	h5ad 1.95 GB	Not in ASAP	Details
hca sc	A Cellular Atlas of Pitx2-Dependent Cardiac Development. Publication DOI 7027adc6-c9c9-46f3-84ee-9badc3a4f53b::47bb1a13-c36c-5c6c-bdad-9f546552daa4 Mus musculus	—	loom 1.96 GB	Not in ASAP	Details
hca sc	Single-cell RNA sequencing reveals the heterogeneity of liver-resident immune... Publication DOI 559bb888-7829-41f2-ace5-2c05c7eb81e9::28064157-b16a-5779-b79f-69efad529b23 Homo sapiens	—	loom 1.96 GB	Not in ASAP	Details
hca sc	The emergent landscape of the mouse gut endoderm at single-cell resolution Publication DOI 4e6f083b-5b9a-4393-9890-2a83da8188f1::67ecaa78-8178-557b-9630-98984146b787 Mus musculus	—	loom 1.96 GB	Not in ASAP	Details
geo sc	Timestamp tracing delineates thymic regulatory T cell ontogeny in native cond... GSE274125 Mus musculus	—	rds 1.96 GB	Not in ASAP	Details
hca sc	A Cellular Atlas of Pitx2-Dependent Cardiac Development. Publication DOI 7027adc6-c9c9-46f3-84ee-9badc3a4f53b::1da23db9-170b-5336-bf47-cf12380708c6 Mus musculus	—	loom 1.96 GB	Not in ASAP	Details
hca sc	Stress-induced RNA–chromatin interactions promote endothelial dysfunction Publication DOI 87d52a86-bdc7-440c-b84d-170f7dc346d9::fdd6b41d-1a5c-5ae3-b75d-bd73ad56de5e Homo sapiens	—	loom 1.98 GB	Not in ASAP	Details
hca sc	The emergent landscape of the mouse gut endoderm at single-cell resolution Publication DOI 4e6f083b-5b9a-4393-9890-2a83da8188f1::40856ed7-4f39-561c-943f-5aadcfd420ed Mus musculus	—	loom 1.99 GB	Not in ASAP	Details
geo sc	ZFP36L2 orchestrates stress-adaptive plasticity in intestinal regeneration an... GSE336564 Homo sapiens	—	h5ad 1.99 GB	Not in ASAP	Details
hca sc	scRNA-seq assessment of the human lung, spleen, and esophagus tissue stabilit... Publication DOI c4077b3c-5c98-4d26-a614-246d12c2e5d7::8df996ea-9657-5ca2-a182-1c983f742629 Homo sapiens	—	loom 2.01 GB	Not in ASAP	Details
hca sc	Tabula Muris: Transcriptomic characterization of 20 organs and tissues from M... Publication DOI e0009214-c0a0-4a7b-96e2-d6a83e966ce0::607df156-9363-59c0-b101-5a15c8b5b726 Mus musculus	—	loom 2.02 GB	Not in ASAP	Details
allen_abc sc	Consensus-WMB-Macosko-10X / Macosko-10X-HPF (Allen Brain Cell Atlas 20260711) Macosko-10X-HPF Mus musculus	—	h5ad 2.05 GB	Not in ASAP	Details
hca sc	A single cell immune cell atlas of human hematopoietic system cc95ff89-2e68-4a08-a234-480eca21ce79::902ac276-d7bf-5ae2-b89d-f80096a0b310 Homo sapiens	—	loom 2.05 GB	Not in ASAP	Details
geo sc	Shifts in embryonic oxygen levels cue heterochrony in limb initiation [scRNA-... GSE298624 Mus musculus	—	rds 2.05 GB	Not in ASAP	Details
broad_scp sc	CRS combined SCP2182	—	rds 2.06 GB	Not in ASAP	Details