scAtria single-cell spatial atlas resource

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Dataset Sample
Card Table
18 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 18 matches · dataset view
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Columns 8
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Disease state: Non-cancer disease × 18 matches 14 curated
Dataset Organs ?For mixed datasets, fractions show sample counts per organ. Disease state Technique Samples Cells Spatial module Curation
10x Genomics Xenium Prime 5K showcase
Xenium5k_10xGenomics__Xenium
Breast 1/9 Lung 1/9 Lymphoid tissue 1/9 Ovary 3/9 Prostate 1/9 Skin 1/9 Uterus/Cervix 1/9
Primary cancer 8/9 Non-cancer disease 1/9
Xenium 9 4,598,042
0/9
 Curated
CastlemanDisease_40593805 · Xenium
CastlemanDisease_40593805__Xenium
Lymphoid tissue 18
Non-cancer disease 18
Xenium 18 1,299,746
5/18
 Curated
CutaneousLeishmaniasis_40371647 · CosMx SMI / NanoString SMI
CutaneousLeishmaniasis_40371647__CosMx_SMI
Skin 4
Non-cancer disease 4
CosMx 4 130,801
1/4
 Curated
DKD_42056516 · CosMx SMI / NanoString SMI
DKD_42056516__CosMx_SMI
Kidney 48
Non-cancer disease 36/48 Healthy/control 12/48
CosMx 48 3,386,822
5/48
 Curated
DKD_42056516 · Xenium
DKD_42056516__Xenium
Kidney 16
Non-cancer disease 13/16 Healthy/control 3/16
Xenium 16 951,040
1/16
 Curated
IBD_42049732 · CosMx SMI / NanoString SMI
IBD_42049732__CosMx_SMI
Large intestine 34
Non-cancer disease 34
CosMx 34 43,034
34/34
 Curated
MERFISH 960-plex Vizgen showcase
MERFISH_960_Vizgen__MERFISH
Brain 3
Non-cancer disease 2/3 Healthy/control 1/3
MERFISH 3 394,181
0/3
 Curated
PulmonaryFibrosis_39901013 · Xenium
PulmonaryFibrosis_39901013__Xenium
Lung 45
Non-cancer disease 35/45 Healthy/control 10/45
Xenium 45 790,934
30/45
 Curated
SpinalCord_38513664 · ISS / In Situ Sequencing
SpinalCord_38513664__ISS
Spinal cord 52
Non-cancer disease 52
ISS 52 592,421
44/52
 Curated
SpinalCord_38513664 · Xenium
SpinalCord_38513664__Xenium
Spinal cord 6
Non-cancer disease 4/6 Healthy/control 2/6
Xenium 6 660,801
0/6
 Curated
UlcerativeColitis_38374043 CosMx 1000-plex Run 2 Longitudinal
UlcerativeColitisRun2_38374043__CosMx_SMI
Large intestine 73
Non-cancer disease 50/73 Healthy/control 23/73
CosMx 73 126,368
73/73
 Curated
UlcerativeColitis_38374043 CosMx 960-plex Run 1
UlcerativeColitisRun1_38374043__CosMx_SMI
Large intestine 17
Non-cancer disease 9/17 Healthy/control 8/17
CosMx 17 66,379
17/17
 Curated
Xenium Human Brain Gene Expression Panel showcase
XeniumBrain_10xGenomics__Xenium
Brain 3
Healthy/control 1/3 Non-cancer disease 1/3 Primary cancer 1/3
Xenium 3 110,248
0/3
 Curated
Xenium Human Multi-Tissue and Cancer Panel showcase
XeniumMulti_10xGenomics__Xenium
Bone marrow 2/20 Heart 1/20 Kidney 3/20 Liver 2/20 Lung 2/20 Lymphoid tissue 3/20 Musculoskeletal 1/20 Ovary 1/20 Pancreas 3/20 Skin 2/20
Healthy/control 9/20 Primary cancer 9/20 Non-cancer disease 2/20
Xenium 20 5,095,938
0/20
 Curated
ASD_42288509 · MERFISH / MERSCOPE
ASD_42288509__MERFISH
Brain 71
Non-cancer disease 71
MERFISH 71 1,515,114
0/71
 Source
IgAN_38898271 · Xenium
IgAN_38898271__Xenium
Kidney 1
Non-cancer disease 1
Xenium 1 30,802
0/1
 Source
Oral_41663813 · Xenium
Oral_41663813__Xenium
Head and neck 44
Non-cancer disease 29/44 Healthy/control 15/44
Xenium 44 710,477
0/44
 Source
RheumatoidArthritis_39609125 · CosMx SMI / NanoString SMI
RheumatoidArthritis_39609125__CosMx_SMI
Musculoskeletal 60
Non-cancer disease 60
CosMx 60 110,567
0/60
 Source