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.
SpinalCord_38513664__ISS__CNTRL_PEAK_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,978 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_L_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,335 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_T_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 3,776 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_T_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 2,461 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_T_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 2,469 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__CNTRL_PEAK_T_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 3,217 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_NS_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,281 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_NS_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,554 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_NS_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,898 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_NS_L_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,912 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_SO_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,100 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_SO_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,875 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_SO_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,919 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_EARLY_SO_L_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,731 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_C_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 9,804 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_C_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 7,766 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_C_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 8,832 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,525 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,270 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_LATE_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,758 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_B_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 34,541 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_B_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 39,215 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_B_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 39,814 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_B_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 54,943 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_C_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 7,429 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_C_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 8,366 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_C_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,483 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_C_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 10,013 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_L_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 11,651 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_L_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 9,269 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_L_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 11,418 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_L_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 9,265 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_T_R1 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 6,626 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_T_R2 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 5,288 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_T_R3 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,124 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__ISS__EAE_PEAK_T_R4 SpinalCord_38513664 · ISS / In Situ Sequencing Spinal cord Non-cancer disease ISS 4,957 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__Xenium__CTRL1 SpinalCord_38513664 · Xenium Spinal cord Healthy/control Xenium 95,825 Curated
SpinalCord_38513664__Xenium__CTRL2 SpinalCord_38513664 · Xenium Spinal cord Healthy/control Xenium 99,682 Curated
SpinalCord_38513664__Xenium__MSa1 SpinalCord_38513664 · Xenium Spinal cord Non-cancer disease Xenium 133,864 Curated
SpinalCord_38513664__Xenium__MSa2 SpinalCord_38513664 · Xenium Spinal cord Non-cancer disease Xenium 75,598 T1T2T3T1T2T3T1T2T3 Curated
SpinalCord_38513664__Xenium__MSi1 SpinalCord_38513664 · Xenium Spinal cord Non-cancer disease Xenium 152,508 Curated
SpinalCord_38513664__Xenium__MSi2 SpinalCord_38513664 · Xenium Spinal cord Non-cancer disease Xenium 103,324 Curated
TNBC_38194915__PCF_CODEX__210113_Breast_Cassette11_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 173,460 Curated
TNBC_38194915__PCF_CODEX__210115_Breast_Cassette15_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 141,044 Curated
TNBC_38194915__PCF_CODEX__210118_Breast_Cassette14_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 113,909 Curated
TNBC_38194915__PCF_CODEX__210118_Breast_Cassette14_reg2_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 74,059 T1T2T3T1T2T3T1T2T3 Curated
TNBC_38194915__PCF_CODEX__210122_Breast_Cassette7_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 60,223 T1T2T3T1T2T3T1T2T3 Curated
TNBC_38194915__PCF_CODEX__210125_Breast_Cassette5_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 16,702 T1T2T3T1T2T3T1T2T3 Curated
TNBC_38194915__PCF_CODEX__210125_Breast_Cassette5_reg2_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 254,687 Curated
TNBC_38194915__PCF_CODEX__210127_Breast_Cassette9_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 34,159 T1T2T3T1T2T3T1T2T3 Curated