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
7,721 Samples
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 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.
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hSkin_nondiseased_section_1_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Skin Healthy/control Xenium 68,476 T1T2T3T1T2T3T1T2T3 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hSkin_nondiseased_section_2_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Skin Healthy/control Xenium 90,106 Curated
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 Curated
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 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_Human_Kidney_FFPE_Protein_updated Xenium Human Multi-Tissue and Cancer Panel showcase Kidney Primary cancer Xenium 465,534 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_Human_Ovary_Cancer_FF Xenium Human Multi-Tissue and Cancer Panel showcase Ovary Primary cancer Xenium 205,082 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_human_Pancreas_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Pancreas Primary cancer Xenium 140,702 Curated
XeniumMulti_10xGenomics__Xenium__Xenium_V1_humanLung_Cancer_FFPE Xenium Human Multi-Tissue and Cancer Panel showcase Lung Primary cancer Xenium 162,254 Curated
GSM5910280_Panel1_CW60220F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910280_Panel1_CW60220F-1_i Brain Non-cancer disease MERFISH 38,263 Source
GSM5910281_Panel1_CW60230E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910281_Panel1_CW60230E-1_i Brain Non-cancer disease MERFISH 33,845 Source
GSM5910282_Panel1_CW20012E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910282_Panel1_CW20012E-1_i Brain Non-cancer disease MERFISH 23,390 Source
GSM5910283_Panel1_CW60040F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910283_Panel1_CW60040F-1_i Brain Non-cancer disease MERFISH 16,178 Source
GSM5910284_Panel1_CW20053A-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910284_Panel1_CW20053A-1_i Brain Non-cancer disease MERFISH 34,305 Source
GSM5910285_Panel1_CW20069F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910285_Panel1_CW20069F-1_i Brain Non-cancer disease MERFISH 27,708 Source
GSM5910286_Panel1_CW60218E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910286_Panel1_CW60218E-1_i Brain Non-cancer disease MERFISH 38,964 Source
GSM5910287_Panel1_CW60219E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910287_Panel1_CW60219E-1_i Brain Non-cancer disease MERFISH 14,837 Source
GSM5910288_Panel1_CW60220F-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910288_Panel1_CW60220F-2_i Brain Non-cancer disease MERFISH 22,461 Source
GSM5910289_Panel1_CW60230E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910289_Panel1_CW60230E-2_i Brain Non-cancer disease MERFISH 6,717 Source
GSM5910290_Panel1_CW60218E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910290_Panel1_CW60218E-2_i Brain Non-cancer disease MERFISH 31,875 Source
GSM5910291_Panel1_CW60040F-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910291_Panel1_CW60040F-2_i Brain Non-cancer disease MERFISH 49,596 Source
GSM5910292_Panel2_CW60220F-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910292_Panel2_CW60220F-3_i Brain Non-cancer disease MERFISH 7,270 Source
GSM5910293_Panel2_CW60230E-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910293_Panel2_CW60230E-4_i Brain Non-cancer disease MERFISH 12,972 Source
GSM5910294_Panel2_CW20012E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910294_Panel2_CW20012E-2_i Brain Non-cancer disease MERFISH 20,583 Source
GSM5910295_Panel2_CW60219E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910295_Panel2_CW60219E-2_i Brain Non-cancer disease MERFISH 34,616 Source
GSM5910296_Panel2_CW60040F-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910296_Panel2_CW60040F-3_i Brain Non-cancer disease MERFISH 21,116 Source
GSM5910297_Panel2_CW20053A-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910297_Panel2_CW20053A-2_i Brain Non-cancer disease MERFISH 15,542 Source
GSM5910298_Panel2_CW20047D-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910298_Panel2_CW20047D-3_i Brain Non-cancer disease MERFISH 15,543 Source
GSM5910299_Panel2_CW60040F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910299_Panel2_CW60040F-4_i Brain Non-cancer disease MERFISH 21,137 Source
GSM5910300_Panel3_CW60040F-5_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910300_Panel3_CW60040F-5_i Brain Non-cancer disease MERFISH 8,181 Source
GSM5910301_Panel3_CW60219E-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910301_Panel3_CW60219E-3_i Brain Non-cancer disease MERFISH 34,963 Source
GSM5910302_Panel3_CW20012E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910302_Panel3_CW20012E-2_i Brain Non-cancer disease MERFISH 13,636 Source
GSM5910303_Panel3_CW20041A-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910303_Panel3_CW20041A-2_i Brain Non-cancer disease MERFISH 13,004 Source
GSM5910304_Panel3_CW20047D-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910304_Panel3_CW20047D-4_i Brain Non-cancer disease MERFISH 7,955 Source
GSM5910305_Panel3_CW60219E-3_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910305_Panel3_CW60219E-3_ii Brain Non-cancer disease MERFISH 34,178 Source
GSM5910306_Panel3_CW60230E-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910306_Panel3_CW60230E-4_i Brain Non-cancer disease MERFISH 34,839 Source
GSM5910307_Panel3_CW20012E-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910307_Panel3_CW20012E-2_ii Brain Non-cancer disease MERFISH 21,940 Source
GSM5910308_Panel3_CW20053A-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910308_Panel3_CW20053A-2_ii Brain Non-cancer disease MERFISH 16,419 Source
GSM5910309_Panel3_CW20053A-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910309_Panel3_CW20053A-2_ii Brain Non-cancer disease MERFISH 14,805 Source
GSM5910310_Panel3_CW60219E-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910310_Panel3_CW60219E-4_i Brain Non-cancer disease MERFISH 31,932 Source
GSM5910311_Panel3_CW60220F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910311_Panel3_CW60220F-4_i Brain Non-cancer disease MERFISH 19,819 Source
GSM5910312_Panel3_CW20047D-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910312_Panel3_CW20047D-3_i Brain Non-cancer disease MERFISH 18,343 Source
GSM5910313_Panel3_CW60040F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910313_Panel3_CW60040F-4_i Brain Non-cancer disease MERFISH 33,896 Source
GSM5910314_Panel4_CW60040F-5_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910314_Panel4_CW60040F-5_i Brain Non-cancer disease MERFISH 5,132 Source
GSM5910315_Panel4_CW20012E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910315_Panel4_CW20012E-2_i Brain Non-cancer disease MERFISH 4,893 Source
GSM5910316_Panel4_CW60220F-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910316_Panel4_CW60220F-3_i Brain Non-cancer disease MERFISH 10,538 Source
GSM5910317_Panel4_CW20012E-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910317_Panel4_CW20012E-2_ii Brain Non-cancer disease MERFISH 14,849 Source
GSM5910318_Panel4_CW60230E-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910318_Panel4_CW60230E-4_i Brain Non-cancer disease MERFISH 22,415 Source
GSM5910319_Panel4_CW20041A-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910319_Panel4_CW20041A-2_i Brain Non-cancer disease MERFISH 9,998 Source
GSM5910320_Panel4_CW20053A-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910320_Panel4_CW20053A-2_i Brain Non-cancer disease MERFISH 12,325 Source
GSM5910321_Panel4_CW20053A-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910321_Panel4_CW20053A-2_ii Brain Non-cancer disease MERFISH 12,854 Source