scAtria single-cell spatial atlas resource

HGSC_39179931 · MERFISH / MERSCOPE

HGSC_39179931 · HGSC_39179931__MERFISH

MERFISH / MERSCOPE Spatial transcriptomics Curated Tiered
Features

Cell-ontology markers

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Features tested
140
Label tier
cell_type_tier_3
Marker output
302 rows
QC
Limited panel
Seurat FindAllMarkers, one curated cell-ontology label versus all others. Effect size is logFC; significance is BH FDR.
Cell ontology Feature logFC FDR p value
Myeloid cell, unspecified CSF1R 6.243 0.00e+0 0.00e+0
Myeloid cell, unspecified C1QA 5.820 0.00e+0 0.00e+0
Myeloid cell, unspecified MMP9 5.181 0.00e+0 0.00e+0
Myeloid cell, unspecified CD14 5.145 0.00e+0 0.00e+0
Myeloid cell, unspecified HAVCR2 5.132 0.00e+0 0.00e+0
Myeloid cell, unspecified C1QB 4.797 0.00e+0 0.00e+0
Myeloid cell, unspecified CD4 4.727 0.00e+0 0.00e+0
Myeloid cell, unspecified CD83 4.585 0.00e+0 0.00e+0
Myeloid cell, unspecified TREM2 4.532 0.00e+0 0.00e+0
Myeloid cell, unspecified SIRPA 4.456 0.00e+0 0.00e+0
Myeloid cell, unspecified LST1 4.416 0.00e+0 0.00e+0
Myeloid cell, unspecified CX3CR1 4.106 0.00e+0 0.00e+0
Myeloid cell, unspecified GPR84 4.084 0.00e+0 0.00e+0
Myeloid cell, unspecified FOS 3.802 0.00e+0 0.00e+0
Myeloid cell, unspecified CD80 3.770 0.00e+0 0.00e+0
Myeloid cell, unspecified CXCR4 3.555 0.00e+0 0.00e+0
Myeloid cell, unspecified TGFB1 3.469 0.00e+0 0.00e+0
Myeloid cell, unspecified PECAM1 2.939 0.00e+0 0.00e+0
Myeloid cell, unspecified PTPRC 2.672 0.00e+0 0.00e+0
Myeloid cell, unspecified CXCL16 2.522 0.00e+0 0.00e+0
Myeloid cell, unspecified VIM 2.468 0.00e+0 0.00e+0
Myeloid cell, unspecified SAT1 2.425 0.00e+0 0.00e+0
Myeloid cell, unspecified NR4A1 2.296 0.00e+0 0.00e+0
Myeloid cell, unspecified NFKBIA 2.290 0.00e+0 0.00e+0
Myeloid cell, unspecified IL2RA 2.270 0.00e+0 0.00e+0
Fibroblast PDGFRA 5.266 0.00e+0 0.00e+0
Fibroblast PDGFRB 4.921 0.00e+0 0.00e+0
Fibroblast CXCL8 2.814 0.00e+0 0.00e+0
Fibroblast VIM 2.688 0.00e+0 0.00e+0
Fibroblast FAS 2.658 0.00e+0 0.00e+0
Fibroblast NOTCH3 1.972 0.00e+0 0.00e+0
Fibroblast EGR1 1.761 0.00e+0 0.00e+0
Fibroblast NR4A1 1.693 0.00e+0 0.00e+0
Fibroblast CD40 1.224 0.00e+0 0.00e+0
Fibroblast DDX5 1.177 0.00e+0 0.00e+0
Fibroblast CCR2 1.137 0.00e+0 0.00e+0
Fibroblast JUN 1.039 0.00e+0 0.00e+0
Fibroblast SIRT2 1.023 0.00e+0 0.00e+0
Fibroblast FOS 1.021 0.00e+0 0.00e+0
Fibroblast HDAC4 0.887 0.00e+0 0.00e+0
Fibroblast PTPN2 0.884 0.00e+0 0.00e+0
Fibroblast CTNNB1 0.789 0.00e+0 0.00e+0
Fibroblast STMN1 0.784 0.00e+0 0.00e+0
Fibroblast SAT1 0.671 0.00e+0 0.00e+0
Fibroblast HDAC3 0.611 0.00e+0 0.00e+0
Fibroblast NF1 0.587 0.00e+0 0.00e+0
Fibroblast NFKBIA 0.578 0.00e+0 0.00e+0
Fibroblast GPX4 0.487 0.00e+0 0.00e+0
Fibroblast TAF8 0.465 0.00e+0 0.00e+0
Fibroblast CDK4 0.442 0.00e+0 0.00e+0
ILC/T lineage cell EOMES 4.899 0.00e+0 0.00e+0
ILC/T lineage cell CTLA4 4.674 0.00e+0 0.00e+0
ILC/T lineage cell CD3E 4.521 0.00e+0 0.00e+0
ILC/T lineage cell CD8A 4.390 0.00e+0 0.00e+0
ILC/T lineage cell CCL5 4.361 0.00e+0 0.00e+0
ILC/T lineage cell FOXP3 4.052 0.00e+0 0.00e+0
ILC/T lineage cell CD27 3.976 0.00e+0 0.00e+0
ILC/T lineage cell CD7 3.810 0.00e+0 0.00e+0
ILC/T lineage cell TIGIT 3.745 0.00e+0 0.00e+0
ILC/T lineage cell LAG3 3.745 0.00e+0 0.00e+0
ILC/T lineage cell PDCD1 3.695 0.00e+0 0.00e+0
ILC/T lineage cell CCR7 3.687 0.00e+0 0.00e+0
ILC/T lineage cell TBX21 3.492 0.00e+0 0.00e+0
ILC/T lineage cell PTPRC 3.259 0.00e+0 0.00e+0
ILC/T lineage cell SIRPG 3.090 0.00e+0 0.00e+0
ILC/T lineage cell IL2RA 3.058 0.00e+0 0.00e+0
ILC/T lineage cell CXCR6 3.052 0.00e+0 0.00e+0
ILC/T lineage cell ICOS 2.907 0.00e+0 0.00e+0
ILC/T lineage cell CD28 2.725 0.00e+0 0.00e+0
ILC/T lineage cell CXCR4 2.232 0.00e+0 0.00e+0
ILC/T lineage cell LEF1 2.191 0.00e+0 0.00e+0
ILC/T lineage cell TGFB1 2.180 0.00e+0 0.00e+0
ILC/T lineage cell FAS 2.132 0.00e+0 0.00e+0
ILC/T lineage cell BCL2 2.057 0.00e+0 0.00e+0
ILC/T lineage cell PSMB9 1.661 0.00e+0 0.00e+0
Endothelial cell PECAM1 4.552 0.00e+0 0.00e+0
Endothelial cell CD34 4.197 0.00e+0 0.00e+0
Endothelial cell VIM 2.424 0.00e+0 0.00e+0
Endothelial cell ENTPD1 1.532 0.00e+0 0.00e+0
Endothelial cell FOS 1.506 0.00e+0 0.00e+0
Endothelial cell CTNNB1 0.735 0.00e+0 0.00e+0
Endothelial cell JUN 0.363 0.00e+0 0.00e+0
Endothelial cell HDAC1 0.254 0.00e+0 0.00e+0
Endothelial cell SIK2 0.390 2.21e-280 6.40e-281
Endothelial cell NR4A1 3.300 1.33e-257 4.29e-258
Endothelial cell TGFB1 1.370 1.61e-194 5.73e-195
Endothelial cell DDX5 0.686 1.95e-148 7.55e-149
Endothelial cell CD40 2.004 2.21e-109 9.27e-110
Endothelial cell CASP8 0.522 8.38e-105 3.78e-105
Endothelial cell IDO1 0.455 1.42e-78 6.85e-79
Endothelial cell LEF1 1.952 7.36e-74 3.80e-74
Endothelial cell PIK3CA 0.624 1.67e-63 9.14e-64
Endothelial cell BCL2 0.581 3.77e-55 2.19e-55
Endothelial cell KLF6 0.760 7.92e-54 4.86e-54
Endothelial cell PTEN 0.512 2.07e-46 1.34e-46
Endothelial cell CXCR4 1.728 3.94e-46 2.67e-46
Endothelial cell CXCL8 1.024 9.32e-42 6.62e-42
Endothelial cell NFKBIA 1.038 2.02e-39 1.50e-39
Endothelial cell HDAC5 0.622 2.10e-27 1.63e-27
Endothelial cell PPARG 1.467 7.76e-18 6.26e-18
B cell MS4A1 3.321 0.00e+0 0.00e+0