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.
Melanoma_41916292__CyCIF__PT35_4_Post-Ipi_Pre-Pembro Melanoma_41916292 · CyCIF / Cyclic IF Skin Primary cancer CyCIF 112,521
CastlemanDisease_40593805__Xenium__xenium_dat__Core17 CastlemanDisease_40593805 · Xenium Lymphoid tissue Non-cancer disease Xenium 111,967
Melanoma_41916292__CyCIF__PT208_7_Post-Eno_Pre-BCD Melanoma_41916292 · CyCIF / Cyclic IF Skin Primary cancer CyCIF 109,607
BoneMarrow_38714197__PCF_CODEX__SB67_NBM48_NSM1_1720_CODEX_Mesmer BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 109,553
DKD_42056516__CosMx_SMI__HK3063 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Non-cancer disease CosMx 108,618
DKD_42056516__CosMx_SMI__HK3612 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Non-cancer disease CosMx 107,609
DKD_42056516__CosMx_SMI__HK3068 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Non-cancer disease CosMx 106,441
DKD_42056516__CosMx_SMI__HK2753 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Healthy/control CosMx 106,302
GBM_40972572__CosMx_SMI_protein__UM06-P GBM_40972572 · CosMx SMI Protein Brain Primary cancer CosMx-P 105,034
DKD_42056516__Xenium__HK3626 DKD_42056516 · Xenium Kidney Healthy/control Xenium 104,038
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hPancreas_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Pancreas Healthy/control Xenium 103,901
NormalSkin_41872488__MERFISH__202304121534_MSSM-Ji-Skin3-VA227_VMSC02701_region_0 NormalSkin_41872488 · MERFISH / MERSCOPE Skin Healthy/control MERFISH 103,786
SpinalCord_38513664__Xenium__MSi2 SpinalCord_38513664 · Xenium Spinal cord Non-cancer disease Xenium 103,324
Liver_41986723__MERFISH__M5 Liver_41986723 · MERFISH / MERSCOPE Liver Healthy/control MERFISH 102,914
B-NHL_38379051__PCF_CODEX__191_4reg004 B-NHL_38379051 · PCF / CODEX / PhenoCycler Fusion Lymphoid tissue Primary cancer CODEX 102,771
CastlemanDisease_40593805__Xenium__xenium_dat__Core14 CastlemanDisease_40593805 · Xenium Lymphoid tissue Non-cancer disease Xenium 102,672
BoneMarrow_38714197__PCF_CODEX__SB67_NBM32_H37_CODEX_Mesmer BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion Bone marrow Healthy/control CODEX 101,240
TNBC_38194915__PCF_CODEX__210217_Breast_Cassette13_reg1_v5 TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion Breast Primary cancer CODEX 100,851
DKD_42056516__CosMx_SMI__HK2841 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Non-cancer disease CosMx 100,792
B-NHL_38379051__PCF_CODEX__191_3reg001 B-NHL_38379051 · PCF / CODEX / PhenoCycler Fusion Lymphoid tissue Primary cancer CODEX 100,713
SpinalCord_38513664__Xenium__CTRL2 SpinalCord_38513664 · Xenium Spinal cord Healthy/control Xenium 99,682
DKD_42056516__CosMx_SMI__HK3594 DKD_42056516 · CosMx SMI / NanoString SMI Kidney Non-cancer disease CosMx 99,027
HGSC_39179931__CosMx_SMI__HGSC113 HGSC_39179931 · CosMx SMI / NanoString SMI Ovary Primary cancer CosMx 98,482
CastlemanDisease_40593805__Xenium__xenium_dat__Core13 CastlemanDisease_40593805 · Xenium Lymphoid tissue Non-cancer disease Xenium 98,317
B-NHL_38379051__PCF_CODEX__191_1reg005 B-NHL_38379051 · PCF / CODEX / PhenoCycler Fusion Lymphoid tissue Primary cancer CODEX 98,101
HCC_41723121__CosMx_SMI__Liver_4HN LiverCancer_41723121 HCC cohort · CosMx SMI / NanoString SMI Liver Primary cancer CosMx 97,949
XeniumMulti_10xGenomics__Xenium__Xenium_V1_hKidney_nondiseased_section Xenium Human Multi-Tissue and Cancer Panel showcase Kidney Healthy/control Xenium 97,560
GBM_40972572__CosMx_SMI_protein__UM02 GBM_40972572 · CosMx SMI Protein Brain Primary cancer CosMx-P 79,153
PDAC_41916312__Xenium__AF-2693_SNV_PDAC_PANCREAS__Region_3 PDAC_41916312 · Xenium Pancreas Primary cancer Xenium 77,695
PDAC_39227743__CosMx_SMI__PDAC_39227743_U5-a PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 74,793
PDAC_39227743__CosMx_SMI__PDAC_39227743_U6-a_1 PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 72,318
GSM8876963_slide_14 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P4_On_slide_14 Lung Metastatic cancer CosMx 71,769
PDAC_39227743__CosMx_SMI__PDAC_39227743_U7-a PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 70,885
GSM8876959_slide_10 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P9_Res_slide_10 Liver Metastatic cancer CosMx 69,976
PDAC_39227743__CosMx_SMI__PDAC_39227743_U6-a_2 PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 68,410
GSM8876951_slide_2 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P4_On_slide_2 Lung Metastatic cancer CosMx 66,475
GSM8876959_slide_10 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P10_Pre_slide_10 Liver Metastatic cancer CosMx 63,964
NSCLC_40220761__CosMx_SMI__Section_28 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 59,564
NSCLC_40220761__CosMx_SMI__Section_22 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 59,208
NSCLC_40220761__CosMx_SMI__Section_04 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 58,805
NSCLC_40220761__CosMx_SMI__Section_10 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 58,228
NSCLC_40220761__CosMx_SMI__Section_16 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 57,435
NSCLC_40220761__CosMx_SMI__Section_34 NSCLC_40220761 · CosMx SMI / NanoString SMI Lung Primary cancer CosMx 56,959
PDAC_39227743__CosMx_SMI__PDAC_39227743_T4-a PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 55,369
Oral_41663813__Xenium__Oral_41663813_P6 Oral_41663813 · Xenium Head and neck Non-cancer disease Xenium 54,771
GSM8876951_slide_2 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P4_Late_slide_2 Lung Metastatic cancer CosMx 51,351
GSM8876959_slide_10 CRC_42167227 · CosMx SMI / NanoString SMI CRC_42167227__CosMx_SMI__P1_Late_slide_10 Liver Metastatic cancer CosMx 50,132
GSM5910291_Panel1_CW60040F-2_i ASD_42288509 · MERFISH / MERSCOPE ASD_42288509__MERFISH__GSM5910291_Panel1_CW60040F-2_i Brain Non-cancer disease MERFISH 49,596
PDAC_39227743__CosMx_SMI__PDAC_39227743_U4-a PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 47,432
PDAC_39227743__CosMx_SMI__PDAC_39227743_U4-b PDAC_39227743 · CosMx SMI / NanoString SMI Pancreas Primary cancer CosMx 46,798