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
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.
Filter scope 7,721 matches · sample view
Customized columns 6
Sample table columns Selections persist in the URL and manifest download.
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All records 7,721 matches Download sample CSV
Sample Organ Disease state ?Broad public sample state used for filtering and comparison. Technique Cells ?Number of individually resolved single-cell observations included for the record. Spatial module ?D, I, and T indicate Domains, Interaction, and Topology outputs. Tier badges show ready ontology levels when detailed availability is available.
BRCA_31959985__IMC__BaselTMA_SP43_50_X8Y1__gate328 BRCA_31959985 · IMC / Imaging Mass Cytometry Breast Healthy/control IMC 30 T1T2T3T1T2T3T1T2T3
NSCLC_38242124__IMC__178_B8,5 NSCLC_38242124 · IMC / Imaging Mass Cytometry Lymph node metastasis Primary cancer IMC 28 T1T2T3T1T2T3T1T2T3
NSCLC_38242124__IMC__88_A1,2 NSCLC_38242124 · IMC / Imaging Mass Cytometry Lymph node metastasis Primary cancer IMC 26 T1T2T3T1T2T3T1T2T3
BoneMarrow_38714197__PCF_CODEX__H10 BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 25 T1T2T3T1T2T3T1T2T3
BRCA_31959985__IMC__BaselTMA_SP42_145_X2Y4__gate238 BRCA_31959985 · IMC / Imaging Mass Cytometry Breast Healthy/control IMC 25 T1T2T3T1T2T3T1T2T3
CRC_41986711__CosMx_SMI__FOV_310 CRC_41986711 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 24 T1T2T3T1T2T3T1T2T3
CRC_41986711__CosMx_SMI__FOV_324 CRC_41986711 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 24 T1T2T3T1T2T3T1T2T3
CRC_41986711__CosMx_SMI__FOV_237 CRC_41986711 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 23 T1T2T3T1T2T3T1T2T3
NSCLC_38242124__IMC__178_C1,6 NSCLC_38242124 · IMC / Imaging Mass Cytometry Lymph node metastasis Primary cancer IMC 20 T1T2T3T1T2T3T1T2T3
BoneMarrow_38714197__PCF_CODEX__H26 BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 19 T1T2T3T1T2T3T1T2T3
BoneMarrow_38714197__PCF_CODEX__H35 BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 19 T1T2T3T1T2T3T1T2T3
CRC_41986711__CosMx_SMI__FOV_41 CRC_41986711 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 19 T1T2T3T1T2T3T1T2T3
NSCLC_38242124__IMC__178_A3,16 NSCLC_38242124 · IMC / Imaging Mass Cytometry Lymph node metastasis Primary cancer IMC 19 T1T2T3T1T2T3T1T2T3
NSCLC_38242124__IMC__86_B6,12 NSCLC_38242124 · IMC / Imaging Mass Cytometry Lymph node metastasis Primary cancer IMC 19 T1T2T3T1T2T3T1T2T3
BoneMarrow_38714197__PCF_CODEX__H37 BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 18 T1T2T3T1T2T3T1T2T3
BRCA_31959985__IMC__BaselTMA_SP41_52_X10Y2__gate080 BRCA_31959985 · IMC / Imaging Mass Cytometry Breast Healthy/control IMC 18 T1T2T3T1T2T3T1T2T3
BRCA_35122013__IMC__MB-0374__core1__image322 BRCA_35122013 · IMC / Imaging Mass Cytometry Breast Primary cancer IMC 13 T1T2T3T1T2T3T1T2T3
CRC_41986711__CosMx_SMI__FOV_150 CRC_41986711 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 11 T1T2T3T1T2T3T1T2T3
CosMx6k_Bruker__CosMx_SMI__CosMxLymphNode6k_Bruker Bruker CosMx 6k FFPE showcase Lymphoid tissue Healthy/control CosMx 1,852,946
DLBCL_41120574__CosMx_SMI__F2_1 DLBCL_41120574 · CosMx SMI / NanoString SMI Lymphoid tissue Primary cancer CosMx 1,551,666
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hTonsil_reactive_follicular_hyperplasia_section_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Lymphoid tissue Non-cancer disease Xenium 1,349,620
VisiumHD_p2_WholeSlide__Visium_HD__Visium_HD_11mm_Human_Colon_Cancer_Fresh_Frozen 10x Genomics Visium HD p2 WholeSlide showcase Large intestine Primary cancer Visium HD 1,302,549
CosMx64_Bruker__CosMx_SMI_protein__CosMxTonsil64_Bruker Bruker CosMx 64-protein FFPE showcase Lymphoid tissue Healthy/control CosMx-P 1,244,918
DLBCL_41120574__CosMx_SMI__F3_1 DLBCL_41120574 · CosMx SMI / NanoString SMI Lymphoid tissue Primary cancer CosMx 1,169,484
Xenium5k_10xGenomics__Xenium__Xenium_Prime_Human_Ovary_FF 10x Genomics Xenium Prime 5K showcase Ovary Primary cancer Xenium 1,157,659
MERFISH_500_Vizgen__MERFISH__MERFISHProstateCancerP2 MERFISH 500-plex Vizgen showcase Prostate Primary cancer MERFISH 993,825
Visium_HD_10xGenomics__Visium_HD__Visium_HD_Human_Tonsil_Fresh_Frozen 10x Genomics Visium HD showcase Lymphoid tissue Healthy/control Visium HD 959,759
cHL_41923627__MIBI_TOF__R1 cHL_41923627 · MIBI-TOF / Multiplexed Ion Beam Imaging Lymphoid tissue Primary cancer MIBI 949,716
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_IDC_Big_1 Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 892,966
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_IDC_Big_2 Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 885,523
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hTonsil_follicular_lymphoid_hyperplasia_section_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Lymphoid tissue Non-cancer disease Xenium 864,388
MERFISH_500_Vizgen__MERFISH__MERFISHUterineCancerP1 MERFISH 500-plex Vizgen showcase Uterus/Cervix Primary cancer MERFISH 843,285
P4 CervicalCancer_CmTSA_41807362 CervicalCancer_CmTSA_41807362__CmTSA__CervicalCancer_CmTSA_41807362_P4 Uterus/Cervix Primary cancer CmTSA 840,956
Xenium5k_10xGenomics__Xenium__Xenium_Prime_Cervical_Cancer_FFPE 10x Genomics Xenium Prime 5K showcase Uterus/Cervix Primary cancer Xenium 840,387
MERFISH_500_Vizgen__MERFISH__MERFISHLungCancerP2 MERFISH 500-plex Vizgen showcase Lung Primary cancer MERFISH 836,739
MERFISH_500_Vizgen__MERFISH__MERFISHColonCancerP2 MERFISH 500-plex Vizgen showcase Large intestine Primary cancer MERFISH 817,588
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Brain_GBM_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Brain Primary cancer Xenium 816,769
MERFISH_500_Vizgen__MERFISH__MERFISHUterineCancerP2_ROCostain MERFISH 500-plex Vizgen showcase Uterus/Cervix Primary cancer MERFISH 758,506
MERFISH_500_Vizgen__MERFISH__MERFISHUterineCancerP2_RACostain MERFISH 500-plex Vizgen showcase Uterus/Cervix Primary cancer MERFISH 741,749
P3 CervicalCancer_CmTSA_41807362 CervicalCancer_CmTSA_41807362__CmTSA__CervicalCancer_CmTSA_41807362_P3 Uterus/Cervix Primary cancer CmTSA 723,581
MERFISH_500_Vizgen__MERFISH__MERFISHProstateCancerP1 MERFISH 500-plex Vizgen showcase Prostate Primary cancer MERFISH 721,668
Atera_10xGenomics__Atera__WTA_Preview_FFPE_Cervical_Cancer 10x Genomics Atera showcase Uterus/Cervix Primary cancer Atera 717,576
MERFISH_500_Vizgen__MERFISH__MERFISHBreastCancerP1 MERFISH 500-plex Vizgen showcase Breast Primary cancer MERFISH 713,121
Xenium5k_10xGenomics__Xenium__Xenium_Prime_Human_Lymph_Node_Reactive_FFPE 10x Genomics Xenium Prime 5K showcase Lymphoid tissue Non-cancer disease Xenium 708,983
MERFISH_815_Vizgen__MERFISH__MERFISH815ColonCancerFFPE_R1 MERFISH 815-plex Vizgen showcase Large intestine Primary cancer MERFISH 703,879
Xenium5k_10xGenomics__Xenium__Xenium_Prime_Breast_Cancer_FFPE 10x Genomics Xenium Prime 5K showcase Breast Primary cancer Xenium 699,110
MERFISH_500_Vizgen__MERFISH__MERFISHColonCancerP1 MERFISH 500-plex Vizgen showcase Large intestine Primary cancer MERFISH 677,451
CosMxWTx_Bruker__CosMx_SMI__CosMxBreastCancerWTx_Bruker Bruker CosMx WTx FFPE showcase Breast Primary cancer CosMx 645,251
MERFISH_500_Vizgen__MERFISH__MERFISHLiverCancerP2 MERFISH 500-plex Vizgen showcase Liver Primary cancer MERFISH 598,141
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_IDC_With_Addon Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 576,963