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 6
Sample table columns Selections persist in the URL and manifest download.
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All records 7,721 matches 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.
GSM7709900_Panel1_CW20320C-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709900_Panel1_CW20320C-1_i Brain Non-cancer disease MERFISH 26,829
GSM7709913_Panel1_CW60245L-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709913_Panel1_CW60245L-1_i Brain Non-cancer disease MERFISH 26,197
GSM8876951_slide_2 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P4_Pre_slide_2 Lung Metastatic cancer CosMx 26,103
GSM8876957_slide_8 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P11_On_slide_8 Liver Metastatic cancer CosMx 25,943
GSM7709905_Panel1_CW20081F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709905_Panel1_CW20081F-1_i Brain Non-cancer disease MERFISH 25,765
GSM8876950_slide_1 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P6_Res_slide_1 Liver Metastatic cancer CosMx 25,423
PDAC_39227743__CosMx_SMI__PDAC_39227743_U1-b PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 24,894
Oral_41663813__Xenium__Oral_41663813_P2b Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 24,866
G7G72_5 RheumatoidArthritis_39609125 · CosMx SMI / NanoString SMI RheumatoidArthritis_39609125__CosMx_SMI__G7G72_5 Musculoskeletal Non-cancer disease CosMx 24,368
Oral_41663813__Xenium__Oral_41663813_P9e Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 24,232
GSM7709903_Panel1_CW60134F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709903_Panel1_CW60134F-1_i Brain Non-cancer disease MERFISH 23,983
GSM8876951_slide_2 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P7_On_slide_2 Peritoneum Metastatic cancer CosMx 23,627
B005_Duodenum Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B005_Duodenum Small intestine Healthy/control CODEX 23,558
Oral_41663813__Xenium__Oral_41663813_P4b Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 23,554
GSM5910282_Panel1_CW20012E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910282_Panel1_CW20012E-1_i Brain Non-cancer disease MERFISH 23,390
8.5 pcw selected area DevelopingLung_39477961 · PCF / CODEX / PhenoCycler Fusion DevelopingLung_39477961__PCF_CODEX__8.5w_selectedarea Lung Healthy/control CODEX 23,296
Oral_41663813__Xenium__Oral_41663813_H5 Oral_41663813 · Xenium Head and neck Healthy/control Xenium 23,249
GSM8876960_slide_11 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P2_On_slide_11 Liver Metastatic cancer CosMx 22,518
GSM5910288_Panel1_CW60220F-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910288_Panel1_CW60220F-2_i Brain Non-cancer disease MERFISH 22,461
GSM5910318_Panel4_CW60230E-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910318_Panel4_CW60230E-4_i Brain Non-cancer disease MERFISH 22,415
Oral_41663813__Xenium__Oral_41663813_P2a Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 22,328
B008_Trans Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion Intestine_37468586__PCF_CODEX__B008_Trans Large intestine Healthy/control CODEX 22,279
GSM9625560_A1R4 MIBC_42126225 · Xenium MIBC_42126225__Xenium__GSM9625560_A1R4 Bladder Primary cancer Xenium 22,095
GSM8876962_slide_13 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P11_On_slide_13 Liver Metastatic cancer CosMx 22,052
HNSCC_41616773__Other_ST__TMA1_reg047 HNSCC_41616773 · Other ST Lymph node metastasis Metastatic cancer Other ST 22,051
GSM5910307_Panel3_CW20012E-2_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910307_Panel3_CW20012E-2_ii Brain Non-cancer disease MERFISH 21,940
GSM5910326_Panel4_CW60040F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910326_Panel4_CW60040F-4_i Brain Non-cancer disease MERFISH 21,140
GSM5910299_Panel2_CW60040F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910299_Panel2_CW60040F-4_i Brain Non-cancer disease MERFISH 21,137
GSM5910296_Panel2_CW60040F-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910296_Panel2_CW60040F-3_i Brain Non-cancer disease MERFISH 21,116
Oral_41663813__Xenium__Oral_41663813_H9b Oral_41663813 · Xenium Head and neck Healthy/control Xenium 20,980
GSM7709892_Panel1_CW20047D-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709892_Panel1_CW20047D-1_i Brain Non-cancer disease MERFISH 20,654
GSM5910294_Panel2_CW20012E-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910294_Panel2_CW20012E-2_i Brain Non-cancer disease MERFISH 20,583
GSM9625563_A2R2 MIBC_42126225 · Xenium MIBC_42126225__Xenium__GSM9625563_A2R2 Bladder Primary cancer Xenium 20,552
Oral_41663813__Xenium__Oral_41663813_P5c Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 20,385
GSM8876954_slide_5 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P11_On_slide_5 Liver Metastatic cancer CosMx 20,282
Oral_41663813__Xenium__Oral_41663813_P9b Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 19,836
GSM5910311_Panel3_CW60220F-4_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910311_Panel3_CW60220F-4_i Brain Non-cancer disease MERFISH 19,819
GSM7709908_Panel1_CW20324C-1_ii ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709908_Panel1_CW20324C-1_ii Brain Non-cancer disease MERFISH 19,501
GSM7709899_Panel1_CW60171E-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709899_Panel1_CW60171E-1_i Brain Non-cancer disease MERFISH 19,283
GSM8876952_slide_3 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P9_On_slide_3 Liver Metastatic cancer CosMx 19,201
GSM8876953_slide_4 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P1_Res_slide_4 Liver Metastatic cancer CosMx 19,198
GSM8876955_slide_6 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P3_On_slide_6 Liver Metastatic cancer CosMx 18,570
Oral_41663813__Xenium__Oral_41663813_H6 Oral_41663813 · Xenium Head and neck Healthy/control Xenium 18,428
GSM5910312_Panel3_CW20047D-3_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910312_Panel3_CW20047D-3_i Brain Non-cancer disease MERFISH 18,343
Oral_41663813__Xenium__Oral_41663813_H4b Oral_41663813 · Xenium Head and neck Healthy/control Xenium 18,033
GSM7709898_Panel1_CW60115F-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709898_Panel1_CW60115F-1_i Brain Non-cancer disease MERFISH 17,873
Oral_41663813__Xenium__Oral_41663813_P3 Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 17,771
GSM7709910_Panel1_CW20002A-1_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM7709910_Panel1_CW20002A-1_i Brain Non-cancer disease MERFISH 17,599
Oral_41663813__Xenium__Oral_41663813_H9a Oral_41663813 · Xenium Head and neck Healthy/control Xenium 17,161
Oral_41663813__Xenium__Oral_41663813_H1 Oral_41663813 · Xenium Head and neck Healthy/control Xenium 16,985