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.
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594 Samples
SearchFiltered ?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
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Search: NormalSkin_41872488 × 594 matches 572 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.
B011_Left Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Left Large intestine Healthy/control CODEX 20,504 T1T2T3T1T2T3T1T2T3 Curated
B011_Mid jejunum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Mid jejunum Small intestine Healthy/control CODEX 44,026 T1T2T3T1T2T3T1T2T3 Curated
B011_Proximal jejunum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Proximal jejunum Small intestine Healthy/control CODEX 30,724 T1T2T3T1T2T3T1T2T3 Curated
B011_Right Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Right Large intestine Healthy/control CODEX 20,382 T1T2T3T1T2T3T1T2T3 Curated
B011_Sigmoid Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Sigmoid Small intestine Healthy/control CODEX 21,201 T1T2T3T1T2T3T1T2T3 Curated
B011_Trans Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B011_Trans Large intestine Healthy/control CODEX 31,751 T1T2T3T1T2T3T1T2T3 Curated
B012_Duodenum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Duodenum Small intestine Healthy/control CODEX 31,219 T1T2T3T1T2T3T1T2T3 Curated
B012_Ileum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Ileum Small intestine Healthy/control CODEX 33,958 T1T2T3T1T2T3T1T2T3 Curated
B012_Left Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Left Large intestine Healthy/control CODEX 72,748 Curated
B012_Mid jejunum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Mid jejunum Small intestine Healthy/control CODEX 67,636 T1T2T3T1T2T3T1T2T3 Curated
B012_Proximal jejunum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Proximal jejunum Small intestine Healthy/control CODEX 32,520 T1T2T3T1T2T3T1T2T3 Curated
B012_Right Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Right Large intestine Healthy/control CODEX 25,403 T1T2T3T1T2T3T1T2T3 Curated
B012_Sigmoid Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Sigmoid Small intestine Healthy/control CODEX 51,593 T1T2T3T1T2T3T1T2T3 Curated
B012_Trans Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B012_Trans Large intestine Healthy/control CODEX 27,784 T1T2T3T1T2T3T1T2T3 Curated
Intestine_39843748__MERFISH__GSE280895_tgfb__KO Intestine_39843748 · MERFISH / MERSCOPE Small intestine Healthy/control MERFISH 234,586 Curated
Intestine_39843748__MERFISH__GSE280895_tgfb__WT Intestine_39843748 · MERFISH / MERSCOPE Small intestine Healthy/control MERFISH 235,495 Curated
Intestine_39843748__Xenium__GSE280895_human__human_05_r1 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 59,128 T1T2T3T1T2T3T1T2T3 Curated
Intestine_39843748__Xenium__GSE280895_human__human_05_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 61,896 T1T2T3T1T2T3T1T2T3 Curated
Intestine_39843748__Xenium__GSE280895_human__human_09_r1 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 44,654 T1T2T3T1T2T3T1T2T3 Curated
Intestine_39843748__Xenium__GSE280895_human__human_09_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 48,868 T1T2T3T1T2T3T1T2T3 Curated
Intestine_39843748__Xenium__GSE280895_perturb__SI_2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 239,393 Curated
Intestine_39843748__Xenium__GSE280895_perturb__SI_3 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 157,481 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day30_SI Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 251,218 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day30_SI_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 258,269 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day6_SI Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 322,464 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day6_SI_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 274,464 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day8_SI_Ctrl Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 272,699 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day8_SI_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 198,887 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day90_SI Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 255,440 Curated
Intestine_39843748__Xenium__GSE280895_timecourse__day90_SI_r2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 241,781 Curated
Intestine_39843748__Xenium__GSE280895_uninfected__segmentation_SI1 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 242,156 Curated
Intestine_39843748__Xenium__GSE280895_uninfected__segmentation_SI2 Intestine_39843748 · Xenium Small intestine Healthy/control Xenium 191,024 Curated
Melanoma_35363543__IMC__C4 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 3,167 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__C6 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,421 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__C7 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 3,349 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__D10 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,323 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__D9 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,765 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__E1 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,335 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__E2 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 1,920 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__I10 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,268 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__I6 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,853 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__I7 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,893 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__I8 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 1,946 T1T2T3T1T2T3T1T2T3 Curated
Melanoma_35363543__IMC__I9 Melanoma_35363543 · IMC / Imaging Mass Cytometry Skin Healthy/control IMC 2,700 T1T2T3T1T2T3T1T2T3 Curated
MERFISH_960_Vizgen__MERFISH__MERFISH960HuBrainS3_R1 MERFISH 960-plex Vizgen showcase Brain Healthy/control MERFISH 69,931 T1T2T3T1T2T3T1T2T3 Curated
ARKFrozen-62-PFC Neocortex_39779846 · MERFISH / MERSCOPE Neocortex_39779846__MERFISH__ARKFrozen-62-PFC Brain Healthy/control MERFISH 51,074 T1T2T3T1T2T3T1T2T3 Curated
ARKFrozen-65-V1 Neocortex_39779846 · MERFISH / MERSCOPE Neocortex_39779846__MERFISH__ARKFrozen-65-V1 Brain Healthy/control MERFISH 169,905 Curated
NIH-4365-BA10 Neocortex_39779846 · MERFISH / MERSCOPE Neocortex_39779846__MERFISH__NIH-4365-BA10 Brain Healthy/control MERFISH 52,483 T1T2T3T1T2T3T1T2T3 Curated
NIH-4392-BA17 Neocortex_39779846 · MERFISH / MERSCOPE Neocortex_39779846__MERFISH__NIH-4392-BA17 Brain Healthy/control MERFISH 26,593 T1T2T3T1T2T3T1T2T3 Curated
NIH-5900-BA17 Neocortex_39779846 · MERFISH / MERSCOPE Neocortex_39779846__MERFISH__NIH-5900-BA17 Brain Healthy/control MERFISH 56,343 T1T2T3T1T2T3T1T2T3 Curated