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.
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7,721 Samples
Search ?Search uses keyword matching across catalog text fields. A matching record may contain the term in metadata such as dataset keys, titles, studies, organs, diseases, techniques, or identifiers, not only in the currently visible field.
Examples Study ID HNSCC_41616773 Modality Spatial transcriptomics Technique Xenium Organ breast Disease state primary cancer Disease detail breast cancer
Filter scope 7,721 matches · sample view
Customized columns 7
Sample table columns Selections persist in the URL and manifest download.
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All records 7,721 matches 7,508 curated 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. Curation ?Curated records have standardized ontology labels and normalized metadata. Source records are ingested but not fully standardized yet.
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV19 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Healthy/control CosMx 2,355 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV2 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 4,864 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV20 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Healthy/control CosMx 3,271 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV21 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Healthy/control CosMx 5,165 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV3 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 3,697 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV4 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 5,284 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV5 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 4,446 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV6 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 6,271 T1T2T3T1T2T3T1T2T3 Curated
UlcerativeColitisRun1_38374043__CosMx_SMI__Run1__FOV9 UlcerativeColitis_38374043 CosMx 960-plex Run 1 Large intestine Non-cancer disease CosMx 4,192 T1T2T3T1T2T3T1T2T3 Curated
XeniumBrain_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Brain_Alzheimers_With_Addon Xenium Human Brain Gene Expression Panel showcase Brain Healthy/control Xenium 44,955 T1T2T3T1T2T3T1T2T3 Curated
XeniumBrain_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Brain_Glioblastoma_With_Addon Xenium Human Brain Gene Expression Panel showcase Brain Primary cancer Xenium 40,887 T1T2T3T1T2T3T1T2T3 Curated
XeniumBrain_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Brain_Healthy_With_Addon Xenium Human Brain Gene Expression Panel showcase Brain Non-cancer disease Xenium 24,406 T1T2T3T1T2T3T1T2T3 Curated
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_IDC Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 574,852 Curated
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 Curated
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 Curated
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 Curated
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_ILC Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 356,746 Curated
XeniumBreast_10xGenomics__Xenium__Xenium_V1_FFPE_Human_Breast_ILC_With_Addon Xenium Human Breast Gene Expression Panel 10x Genomics showcase Breast Primary cancer Xenium 365,604 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S1_Bot Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 254,480 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S1_Mid Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 375,529 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S1_Top Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 209,467 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S2_Bot Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 358,519 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S2_Mid Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 380,739 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S2_Top Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Healthy/control Xenium 301,854 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S3_Bot Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 150,145 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S3_Mid Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 373,150 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S3_Top Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 308,531 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S4_Bot Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 201,955 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S4_Mid Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 335,709 Curated
XeniumBreastJanesick_10xGenomics__Xenium__Human_Breast_Biomarkers_S4_Top Xenium Human Breast Gene Expression Panel bioRxiv biomarker showcase Breast Primary cancer Xenium 192,898 Curated
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Brain_GBM_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Brain Primary cancer Xenium 816,769 Curated
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Colorectal_Cancer_Addon_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Large intestine Primary cancer Xenium 388,175 Curated
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Ductal_Adenocarcinoma_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Pancreas Primary cancer Xenium 235,099 Curated
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Lung_Cancer_Addon_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Lung Primary cancer Xenium 161,000 Curated
XeniumImmune_10xGenomics__Xenium__Xenium_V1_Human_Ovarian_Cancer_Addon_FFPE Xenium Human Immuno-Oncology Profiling Panel showcase Ovary Primary cancer Xenium 247,636 Curated
XeniumLung_10xGenomics__Xenium__Xenium_Preview_Human_Lung_Cancer_With_Add_on_2_FFPE Xenium Human Lung Gene Expression Panel showcase Lung Primary cancer Xenium 531,165 Curated
XeniumLung_10xGenomics__Xenium__Xenium_Preview_Human_Non_diseased_Lung_With_Add_on_FFPE Xenium Human Lung Gene Expression Panel showcase Lung Healthy/control Xenium 295,883 Curated
XeniumLung_10xGenomics__Xenium__Xenium_V1_Human_Lung_Cancer_FFPE Xenium Human Lung Gene Expression Panel showcase Lung Primary cancer Xenium 278,659 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hBone_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Musculoskeletal Healthy/control Xenium 33,801 T1T2T3T1T2T3T1T2T3 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hBoneMarrow_acute_lymphoid_leukemia_section Xenium Human Multi-Tissue and Cancer Panel showcase Bone marrow Primary cancer Xenium 225,906 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hBoneMarrow_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Bone marrow Healthy/control Xenium 84,518 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hHeart_nondiseased_section_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Heart Healthy/control Xenium 26,366 T1T2T3T1T2T3T1T2T3 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hKidney_cancer_section Xenium Human Multi-Tissue and Cancer Panel showcase Kidney Primary cancer Xenium 56,510 T1T2T3T1T2T3T1T2T3 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hKidney_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Kidney Healthy/control Xenium 97,560 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hLiver_cancer_section_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Liver Primary cancer Xenium 162,628 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hLiver_nondiseased_section_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Liver Healthy/control Xenium 239,271 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hLung_cancer_section Xenium Human Multi-Tissue and Cancer Panel showcase Lung Primary cancer Xenium 150,365 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hLymphNode_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Lymphoid tissue Healthy/control Xenium 377,985 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hPancreas_Cancer_Add_on_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Pancreas Primary cancer Xenium 190,965 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hPancreas_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Pancreas Healthy/control Xenium 103,901 Curated