scAtria single-cell spatial atlas resource

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Dataset Sample
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33 Datasets
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Examples Study ID HNSCC_41616773 Modality Spatial transcriptomics Technique Xenium Organ breast Disease state primary cancer Disease detail breast cancer
Filter scope 33 matches · dataset view
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Modality: Spatial proteomics × 33 matches 31 curated
Dataset Organs ?For mixed datasets, fractions show sample counts per organ. Disease state Technique Samples Cells Spatial module Curation
B-NHL_38379051 · PCF / CODEX / PhenoCycler Fusion
B-NHL_38379051__PCF_CODEX
Lymphoid tissue 35
Primary cancer 35
CODEX 35 5,690,284
0/35
 Curated
BRCA_31959985 · IMC / Imaging Mass Cytometry
BRCA_31959985__IMC
Breast 376/381 Liver 5/381
Primary cancer 289/381 Healthy/control 92/381
IMC 381 855,668
373/381
 Curated
BRCA_35063072 · MIBI-TOF / Multiplexed Ion Beam Imaging
BRCA_35063072__MIBI_TOF
Breast 79
Primary cancer 70/79 Healthy/control 9/79
MIBI 79 69,672
79/79
 Curated
BRCA_35122013 · IMC / Imaging Mass Cytometry
BRCA_35122013__IMC
Breast 548
Primary cancer 548
IMC 548 479,844
547/548
 Curated
BoneMarrow_38714197 · PCF / CODEX / PhenoCycler Fusion
BoneMarrow_38714197__PCF_CODEX
Bone marrow 32
Healthy/control 27/32 Primary cancer 5/32
CODEX 32 1,214,574
11/32
 Curated
BrainTumor_36725935 · IMC / Imaging Mass Cytometry
BrainTumor_36725935__IMC
Brain 393
Primary cancer 270/393 Metastatic cancer 123/393
IMC 393 1,163,362
377/393
 Curated
Bruker CosMx 64-protein FFPE showcase
CosMx64_Bruker__CosMx_SMI_protein
Breast 1/2 Lymphoid tissue 1/2
Healthy/control 2
CosMx-P 2 1,398,757
0/2
 Curated
CML_41592325 · PCF / CODEX / PhenoCycler Fusion
CML_41592325__PCF_CODEX
Bone marrow 55
Primary cancer 55
CODEX 55 2,033,725
0/55
 Curated
CRC_32763154 · PCF / CODEX / PhenoCycler Fusion
CRC_32763154__PCF_CODEX
Large intestine 140
Primary cancer 140
CODEX 140 258,385
140/140
 Curated
CRC_40189697 · IMC / Imaging Mass Cytometry
CRC_40189697__IMC
Large intestine 170
Primary cancer 170
IMC 170 903,125
71/170
 Curated
CervicalCancer_CmTSA_41807362
CervicalCancer_CmTSA_41807362__CmTSA
Uterus/Cervix 2
Primary cancer 2
CmTSA 2 1,564,537
0/2
 Curated
DLBCL_41874448 · PCF / CODEX / PhenoCycler Fusion
DLBCL_41874448__PCF_CODEX
Lymphoid tissue 30
Primary cancer 30
CODEX 30 1,172,666
0/30
 Curated
HCC_39304772 · PCF / CODEX / PhenoCycler Fusion
HCC_39304772__PCF_CODEX
Liver 124
Primary cancer 124
CODEX 124 1,065,284
38/124
 Curated
HCC_39327501 · PCF / CODEX / PhenoCycler Fusion
HCC_39327501__PCF_CODEX
Liver 288
Primary cancer 288
CODEX 288 3,231,437
3/288
 Curated
HCC_39455893 · IMC / Imaging Mass Cytometry
HCC_39455893__IMC
Liver 38
Primary cancer 38
IMC 38 61,393
37/38
 Curated
HCC_39965889 · PCF / CODEX / PhenoCycler Fusion
HCC_39965889__PCF_CODEX
Liver 31
Primary cancer 31
CODEX 31 387,155
10/31
 Curated
HNSCC_41616773 PCF discovery cohort
HNSCCDiscovery_41616773__PCF_CODEX
Head and neck 189/390 Lymph node metastasis 138/390 Lymphoid tissue 63/390
Primary cancer 189/390 Metastatic cancer 138/390 Healthy/control 63/390
CODEX 390 1,556,569
293/390
 Curated
HNSCC_41616773 PCF healthy lymph node cohort
HNSCCHealthyLN_41616773__PCF_CODEX
Lymphoid tissue 51
Healthy/control 51
CODEX 51 1,238,209
6/51
 Curated
HNSCC_41616773 PCF validation cohort
HNSCCValidation_41616773__PCF_CODEX
Head and neck 11/34 Lymph node metastasis 10/34 Lymphoid tissue 13/34
Primary cancer 15/34 Metastatic cancer 10/34 Healthy/control 9/34
CODEX 34 745,842
2/34
 Curated
Intestine_37468586 · PCF / CODEX / PhenoCycler Fusion
Intestine_37468586__PCF_CODEX
Large intestine 27/66 Small intestine 39/66
Healthy/control 66
CODEX 66 2,603,217
0/66
 Curated
LUAD_36725934 · IMC / Imaging Mass Cytometry
LUAD_36725934__IMC
Lung 416
Primary cancer 416
IMC 416 1,635,722
386/416
 Curated
Melanoma_35363543 · IMC / Imaging Mass Cytometry
Melanoma_35363543__IMC
Bone marrow 1/72 Brain 4/72 Large intestine 5/72 Lymph node metastasis 20/72 Skin 42/72
Primary cancer 31/72 Metastatic cancer 29/72 Healthy/control 12/72
IMC 72 272,135
72/72
 Curated
Melanoma_41916292 · CyCIF / Cyclic IF
Melanoma_41916292__CyCIF
Skin 31
Primary cancer 31
CyCIF 31 3,293,552
1/31
 Curated
NSCLC_38242124 · IMC / Imaging Mass Cytometry
NSCLC_38242124__IMC
Lung 2,070
Primary cancer 2,070
IMC 2,070 5,984,454
2025/2070
 Curated
NSCLC_40408481 · PCF / CODEX / PhenoCycler Fusion
NSCLC_40408481__PCF_CODEX
Lung 257
Primary cancer 257
CODEX 257 1,450,507
141/257
 Curated
Neuroblastoma_41918107 · PCF / CODEX / PhenoCycler Fusion
Neuroblastoma_41918107__PCF_CODEX
Adrenal gland 24
Primary cancer 24
CODEX 24 832,243
0/24
 Curated
OSCC_41707652 · IMC / Imaging Mass Cytometry
OSCC_41707652__IMC
Head and neck 92
Primary cancer 92
IMC 92 708,261
6/92
 Curated
SPATCH_41107232 · PCF / CODEX / PhenoCycler Fusion
SPATCH_41107232__PCF_CODEX
Large intestine 3/9 Liver 3/9 Ovary 3/9
Primary cancer 9
CODEX 9 1,970,702
0/9
 Curated
TNBC_38194915 · PCF / CODEX / PhenoCycler Fusion
TNBC_38194915__PCF_CODEX
Breast 27
Primary cancer 27
CODEX 27 2,597,738
0/27
 Curated
cHL_41923627 · MIBI-TOF / Multiplexed Ion Beam Imaging
cHL_41923627__MIBI_TOF
Lymphoid tissue 9
Primary cancer 9
MIBI 9 1,409,210
0/9
 Curated
cHL_41923627 · PCF / CODEX / PhenoCycler Fusion
cHL_41923627__PCF_CODEX
Lymphoid tissue 27
Primary cancer 27
CODEX 27 934,478
0/27
 Curated
DevelopingLung_39477961 · PCF / CODEX / PhenoCycler Fusion
DevelopingLung_39477961__PCF_CODEX
Lung 5
Healthy/control 5
CODEX 5 971,112
0/5
 Source
GBM_40972572 · CosMx SMI Protein
GBM_40972572__CosMx_SMI_protein
Brain 4
Primary cancer 4
CosMx-P 4 239,436
0/4
 Source