scAtria single-cell spatial atlas resource

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View by ?Dataset view shows one row per deployed dataset. Sample view shows one row per sample and is better for organ, disease, and spatial availability checks.
Dataset Sample
View mode ?Cards are for quick scanning. Tables are denser and better for comparison, sorting, and column customization.
Card Table
61 Datasets
Search ?Search is user-initiated: type one keyword or several comma-separated keywords, then click Search keyword. Commas search alternatives, for example breast cancer, HNSCC, Xenium.
Examples Study ID HNSCC_41616773 Modality Spatial transcriptomics Technique Xenium Organ breast Disease state primary cancer Disease detail breast cancer
Filter scope 61 matches · dataset view
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Customized columns 8
Dataset table columns Selections persist in the URL and manifest download.
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Modality: Spatial transcriptomics × 61 matches 49 curated
Dataset Organs ?For mixed datasets, fractions show sample counts per organ. Disease state ?Broad public sample state summarized across the dataset. Technique Samples Cells ?Number of individually resolved single-cell observations included for the dataset. Spatial module ?Spatial availability is summarized from module- and tier-level outputs for the dataset. Curation ?Curated records have standardized ontology labels and normalized metadata. Source records are ingested but not fully standardized yet.
CRC_42167227 · CosMx SMI / NanoString SMI
CRC_42167227__CosMx_SMI
Brain 2/45 Liver 30/45 Lung 10/45 Peritoneum 3/45
Metastatic cancer 45
CosMx 45 1,874,376
0/45
 Source
DLBCL_41120574 · CosMx SMI / NanoString SMI
DLBCL_41120574__CosMx_SMI
Lymphoid tissue 6
Primary cancer 6
CosMx 6 3,512,019
0/6
 Source
HGSOC_38570491 · CosMx SMI / NanoString SMI
HGSOC_38570491__CosMx_SMI
Ovary 1
Primary cancer 1
CosMx 1 39,959
0/1
 Source
IgAN_38898271 · Xenium
IgAN_38898271__Xenium
Kidney 1
Non-cancer disease 1
Xenium 1 30,802
0/1
 Source
Liver_41986723 · MERFISH / MERSCOPE
Liver_41986723__MERFISH
Liver 2
Healthy/control 2
MERFISH 2 310,412
0/2
 Source
MIBC_42126225 · Xenium
MIBC_42126225__Xenium
Bladder 5
Primary cancer 5
Xenium 5 131,875
0/5
 Source
Melanoma_40457060 · CosMx SMI / NanoString SMI
Melanoma_40457060__CosMx_SMI
Skin 2
Primary cancer 2
CosMx 2 18,462
0/2
 Source
NSCLC_40220761 · CosMx SMI / NanoString SMI
NSCLC_40220761__CosMx_SMI
Lung 6
Primary cancer 6
CosMx 6 350,199
0/6
 Source
Oral_41663813 · Xenium
Oral_41663813__Xenium
Head and neck 44
Non-cancer disease 29/44 Healthy/control 15/44
Xenium 44 710,477
0/44
 Source
PDAC_41916312 · Xenium
PDAC_41916312__Xenium
Pancreas 1
Primary cancer 1
Xenium 1 77,695
0/1
 Source
RheumatoidArthritis_39609125 · CosMx SMI / NanoString SMI
RheumatoidArthritis_39609125__CosMx_SMI
Musculoskeletal 20
Non-cancer disease 20
CosMx 20 110,567
0/20
 Source