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 (snmC-... Publication DOI 0500e103-38db-456d-9c3f-b96b8a693ab2 Homo sapiens	34'722 cells x 59'273 genes	h5ad 3.22 GB	Not in ASAP	Details
cellxgene sc	DNA methylation of brain cells -- non-CG methylation of Non-neuronal Cells (s... Publication DOI 8f83f50e-c091-4095-8456-a7acf6c9d423 Homo sapiens	34'722 cells x 59'273 genes	h5ad 4.13 GB	Not in ASAP	Details
cellxgene sc	Periphery - Cell Types of the Human Retina and Its Organoids at Single-Cell R... Publication DOI ccfdcad0-7104-46b9-addf-fd66a2a15907 Homo sapiens	34'723 cells x 55'446 genes	h5ad 273 MB	Not in ASAP	Details
broad_scp sc	Genomic and transcriptomic correlates of immunotherapy response within the tu... SCP1332 Homo sapiens	34'742 cells x 34'196 genes	counts_table 382 MB	Not in ASAP	Details
cellxgene sc	Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis Publication DOI 4dd00779-7f73-4f50-89bb-e2d3c6b71b18 Homo sapiens	34'772 cells x 59'474 genes	h5ad 213 MB	Not in ASAP	Details
cellxgene sc	Nasal scRNA-Seq Dataset Publication DOI e3cc5b85-62ec-4add-bee3-73c8fd11e59d Homo sapiens	34'833 cells x 32'118 genes	h5ad 360 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in mouse: Puck_191204_17 Publication DOI cd3c693e-64e1-4009-a941-ba3f340c7434 Mus musculus	34'844 cells x 21'973 genes	h5ad 22.8 MB	Not in ASAP	Details
cellxgene sc	Dissection: Cerebral cortex (Cx) - Posterior intermediate orbital gyrus (POrG... Publication DOI d582f63a-3c88-4e38-8cd3-8682dbe40f64 Homo sapiens	34'919 cells x 58'232 genes	h5ad 412 MB	Not in ASAP	Details
cellxgene sc	Dissection: Extended amygdala (EXA) - Bed nucleus of stria terminalis and nea... Publication DOI 1b767f95-d0a0-4a3d-b394-cc665d86c3dc Homo sapiens	34'933 cells x 58'232 genes	h5ad 385 MB	Not in ASAP	Details
cellxgene sc	snRNA-seq of human optic nerve and optic nerve head - endothelial cells 374edd6c-e163-461d-a036-d0dbbca7e8db Homo sapiens	34'934 cells x 35'477 genes	h5ad 285 MB	ASAP100	Details
cellxgene sc	Dissection: Cerebral cortex (Cx) - Frontal agranular insular cortex - FI Publication DOI 421e5f54-5de7-425f-b399-34ead0651ce1 Homo sapiens	34'949 cells x 58'232 genes	h5ad 515 MB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA-seq of rat microglia in monoculture and in coculture with neu... Publication DOI E-MTAB-10030 Rattus norvegicus	35'002 cells	h5ad 792 MB	Not in ASAP	Details
broad_scp sc	A Cell Atlas Of the Chick Retina Based on Single Cell Transcriptomics SCP1159 Gallus gallus	35'026 cells x 17'457 genes	counts_table 1.84 GB	Not in ASAP	Details
ebi_sc sc	Single nucleus RNA sequencing in mouse brown adipose tissue at room temperatu... Publication DOI E-MTAB-8562 Mus musculus	35'096 cells	h5ad 442 MB	Not in ASAP	Details
cellxgene sc	Spatial transcriptomics in mouse: Puck_191204_15 Publication DOI a8a58bc5-8c4c-46fa-b54e-35b64dba658d Mus musculus	35'132 cells x 21'074 genes	h5ad 22.1 MB	Not in ASAP	Details
cellxgene sc	L4IT - neocortex: Human variation study (HVS) Publication DOI 9ea52f85-a35e-4b5b-9207-e2f1de7dbbcd Homo sapiens	35'171 cells x 18'736 genes	h5ad 3 GB	Not in ASAP	Details
cellxgene sc	A single-cell and spatially-resolved atlas of human breast cancers - T_cells Publication DOI 933497dc-7592-4532-9056-b9941547b3ac Homo sapiens	35'214 cells x 28'468 genes	h5ad 164 MB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA sequencing of adult Drosophila ovary identifies transcription... Publication DOI E-GEOD-146040 Drosophila melanogaster	35'215 cells	h5ad 470 MB	Not in ASAP	Details
cellxgene sc	Dissection: Amygdaloid complex (AMY) - basolateral nuclear group (BLN) - baso... Publication DOI fe1a73ab-a203-45fd-84e9-0f7fd19efcbd Homo sapiens	35'285 cells x 58'232 genes	h5ad 383 MB	Not in ASAP	Details
cellxgene sc	Dissection: Cerebral cortex (Cx) - Supraparietal lobule (SPL) - Posterosuperi... Publication DOI 639ffc23-14db-4060-9027-3c90314200f8 Homo sapiens	35'290 cells x 58'232 genes	h5ad 432 MB	Not in ASAP	Details
cellxgene sc	Dissection: Head of hippocampus (HiH) - Uncal DG-CA4 Publication DOI 4724c395-0c46-46d2-81f7-60fd271fb488 Homo sapiens	35'350 cells x 58'232 genes	h5ad 330 MB	Not in ASAP	Details
ebi_sc sc	Single cell RNA-Seq of the mouse heart in response to chronic stress Publication DOI E-MTAB-8810 Mus musculus	35'356 cells	h5ad 1 GB	Not in ASAP	Details
cellxgene sc	Dissection: Cerebral cortex (Cx) - Caudal cingulate gyrus (CgGC) - A23 Publication DOI e5b1115b-a486-49bb-bda3-8261822836e0 Homo sapiens	35'359 cells x 58'232 genes	h5ad 351 MB	Not in ASAP	Details
ebi_sc sc	Single-cell RNA-seq of CD4+ Treg and Tmem cells from different tissues in mou... Publication DOI E-MTAB-7311 Mus musculus	35'470 cells	h5ad 736 MB	Not in ASAP	Details
cellxgene sc	Intratumoral heterogeneity in recurrent pediatric pilocytic astrocytomas be884a28-0eac-4eca-9c23-1294a93cf56e Homo sapiens	35'637 cells x 28'157 genes	h5ad 170 MB	ASAP132	Details