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 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.
PulmonaryFibrosis_39901013__Xenium__VUILD110 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 97,221 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD115 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 58,850 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD141 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 13,526 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD142 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 1,114 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD48LF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 9,498 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD48MF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 3,558 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD49 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 8,918 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD58 PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 3,711 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD78LF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 13,125 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD78MF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 29,202 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD91LF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 13,463 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD91MF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 9,980 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD96LF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 31,727 T1T2T3T1T2T3T1T2T3 Curated
PulmonaryFibrosis_39901013__Xenium__VUILD96MF PulmonaryFibrosis_39901013 · Xenium Lung Non-cancer disease Xenium 36,615 T1T2T3T1T2T3T1T2T3 Curated
SCN_41720090__MERFISH__202408121157_humanbrainAP1615_VMSC03601_region_0 SCN_41720090 · MERFISH / MERSCOPE Brain Healthy/control MERFISH 6,953 T1T2T3T1T2T3T1T2T3 Curated
SCN_41720090__Visium_HD__slice46_HD_expand_cell_4_10genes SCN_41720090 · Visium HD Brain Healthy/control Visium HD 16,123 T1T2T3T1T2T3T1T2T3 Curated
SPATCH_41107232__CosMx_SMI__SPATCH_CosMx_COAD SPATCH_41107232 · CosMx SMI / NanoString SMI Large intestine Primary cancer CosMx 292,371 Curated
SPATCH_41107232__CosMx_SMI__SPATCH_CosMx_HCC SPATCH_41107232 · CosMx SMI / NanoString SMI Liver Primary cancer CosMx 237,030 Curated
SPATCH_41107232__CosMx_SMI__SPATCH_CosMx_OV SPATCH_41107232 · CosMx SMI / NanoString SMI Ovary Primary cancer CosMx 289,272 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_CosMx_COAD SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Large intestine Primary cancer CODEX 251,078 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_CosMx_HCC SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Liver Primary cancer CODEX 160,879 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_CosMx_OV SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Ovary Primary cancer CODEX 264,005 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Stereo-seq_COAD SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Large intestine Primary cancer CODEX 165,142 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Stereo-seq_HCC SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Liver Primary cancer CODEX 141,376 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Stereo-seq_OV SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Ovary Primary cancer CODEX 325,192 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Xenium_COAD SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Large intestine Primary cancer CODEX 266,625 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Xenium_HCC SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Liver Primary cancer CODEX 132,648 Curated
SPATCH_41107232__PCF_CODEX__SPATCH_PCF_Xenium_OV SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion Ovary Primary cancer CODEX 263,757 Curated
SPATCH_41107232__Stereo_seq__SPATCH_Stereo-seq_COAD SPATCH_41107232 · Stereo-seq / Stereo-seq Spatial Transcriptomics Large intestine Primary cancer Stereo 361,260 Curated
SPATCH_41107232__Stereo_seq__SPATCH_Stereo-seq_HCC SPATCH_41107232 · Stereo-seq / Stereo-seq Spatial Transcriptomics Liver Primary cancer Stereo 390,774 Curated
SPATCH_41107232__Stereo_seq__SPATCH_Stereo-seq_OV SPATCH_41107232 · Stereo-seq / Stereo-seq Spatial Transcriptomics Ovary Primary cancer Stereo 319,366 Curated
SPATCH_41107232__Xenium__SPATCH_Xenium_COAD SPATCH_41107232 · Xenium Large intestine Primary cancer Xenium 405,927 Curated
SPATCH_41107232__Xenium__SPATCH_Xenium_HCC SPATCH_41107232 · Xenium Liver Primary cancer Xenium 271,687 Curated
SPATCH_41107232__Xenium__SPATCH_Xenium_OV SPATCH_41107232 · Xenium Ovary Primary cancer Xenium 410,193 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_C_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,120 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_C_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,800 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_C_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,851 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,584 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,782 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_LATE_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,509 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_B_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 29,500 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_B_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 36,918 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_B_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 33,728 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_B_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 52,884 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_C_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,586 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_C_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,562 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_C_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,865 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_C_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,669 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,499 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,701 T1T2T3T1T2T3T1T2T3 Curated