Program: 6. Cancer Associated Fibroblast: Inflammatory.

Program: 6. Cancer Associated Fibroblast: Inflammatory.



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QQ-plot of gene loadings, averaged over both independent splits of the data
 This plot highlights the relative contribution of each gene to the GEP

Interactive QQ Plot

Top genes driving this program.
 Note: Decartes website is buggy, try refreshing. Also, Decartes fetal adrenal data have been collected at specific time points (89-122 days), all possible cell types of interest may not be represented, do not overinterpret.
The Mean Count column shows the mean read count in cells scoring highly (H > 50) on this gene expression program.

Gene Loading Gene.Name GTEx DepMap Descartes Mean.Counts Mean.Tpm
1 SFRP2 0.0363968 secreted frizzled related protein 2 GTEx DepMap Descartes 2.00 498.51
2 OMD 0.0354938 osteomodulin GTEx DepMap Descartes 0.89 133.42
3 MFAP5 0.0308093 microfibril associated protein 5 GTEx DepMap Descartes 1.30 177.12
4 RSPO3 0.0279529 R-spondin 3 GTEx DepMap Descartes 0.62 NA
5 TNNC1 0.0279499 troponin C1, slow skeletal and cardiac type GTEx DepMap Descartes 0.25 130.54
6 DCN 0.0275596 decorin GTEx DepMap Descartes 30.11 1581.50
7 MGP 0.0246255 matrix Gla protein GTEx DepMap Descartes 39.44 7383.72
8 CCDC80 0.0241432 coiled-coil domain containing 80 GTEx DepMap Descartes 5.75 148.47
9 SERTM1 0.0225323 serine rich and transmembrane domain containing 1 GTEx DepMap Descartes 0.02 2.98
10 IGFBP6 0.0209681 insulin like growth factor binding protein 6 GTEx DepMap Descartes 10.14 2935.42
11 BOC 0.0170424 BOC cell adhesion associated, oncogene regulated GTEx DepMap Descartes 0.28 14.58
12 FBLN1 0.0165639 fibulin 1 GTEx DepMap Descartes 5.33 748.69
13 CFD 0.0165407 complement factor D GTEx DepMap Descartes 11.02 4586.45
14 SFRP4 0.0165349 secreted frizzled related protein 4 GTEx DepMap Descartes 3.27 404.03
15 GAS1 0.0162166 growth arrest specific 1 GTEx DepMap Descartes 1.00 82.74
16 C7 0.0156928 complement C7 GTEx DepMap Descartes 1.59 106.00
17 OGN 0.0151548 osteoglycin GTEx DepMap Descartes 1.92 172.35
18 PODN 0.0143571 podocan GTEx DepMap Descartes 0.59 69.16
19 ASPN 0.0138540 asporin GTEx DepMap Descartes 0.53 100.32
20 MGST1 0.0138307 microsomal glutathione S-transferase 1 GTEx DepMap Descartes 1.47 192.78
21 NNMT 0.0133198 nicotinamide N-methyltransferase GTEx DepMap Descartes 4.30 599.11
22 PROCR 0.0132877 protein C receptor GTEx DepMap Descartes 0.78 209.21
23 F3 0.0128880 coagulation factor III, tissue factor GTEx DepMap Descartes 1.17 192.85
24 ANGPTL1 0.0128715 angiopoietin like 1 GTEx DepMap Descartes 0.30 31.38
25 C3 0.0128638 complement C3 GTEx DepMap Descartes 3.08 186.29
26 FIBIN 0.0127353 fin bud initiation factor homolog GTEx DepMap Descartes 0.14 15.40
27 GSN 0.0121915 gelsolin GTEx DepMap Descartes 17.66 955.42
28 TWIST2 0.0121491 twist family bHLH transcription factor 2 GTEx DepMap Descartes 0.52 124.55
29 PDGFRL 0.0121216 platelet derived growth factor receptor like GTEx DepMap Descartes 1.14 215.56
30 EMP1 0.0117605 epithelial membrane protein 1 GTEx DepMap Descartes 1.88 83.64
31 MFGE8 0.0117090 milk fat globule EGF and factor V/VIII domain containing GTEx DepMap Descartes 1.97 248.13
32 ABI3BP 0.0113648 ABI family member 3 binding protein GTEx DepMap Descartes 0.33 15.25
33 PRELP 0.0111144 proline and arginine rich end leucine rich repeat protein GTEx DepMap Descartes 1.11 73.58
34 CXCL14 0.0110899 C-X-C motif chemokine ligand 14 GTEx DepMap Descartes 1.12 217.80
35 CCDC3 0.0109610 coiled-coil domain containing 3 GTEx DepMap Descartes 0.36 42.53
36 CLU 0.0108443 clusterin GTEx DepMap Descartes 4.30 520.17
37 MFAP4 0.0106936 microfibril associated protein 4 GTEx DepMap Descartes 1.11 228.77
38 SERPING1 0.0106009 serpin family G member 1 GTEx DepMap Descartes 4.08 597.18
39 TNXB 0.0103995 tenascin XB GTEx DepMap Descartes 0.52 15.02
40 SOD3 0.0101448 superoxide dismutase 3 GTEx DepMap Descartes 2.77 628.55
41 IGF2 0.0101239 insulin like growth factor 2 GTEx DepMap Descartes 1.69 121.68
42 F10 0.0100318 coagulation factor X GTEx DepMap Descartes 0.31 79.50
43 INMT 0.0099834 indolethylamine N-methyltransferase GTEx DepMap Descartes 0.95 110.78
44 EFEMP1 0.0099628 EGF containing fibulin extracellular matrix protein 1 GTEx DepMap Descartes 3.84 364.45
45 KRT222 0.0097584 keratin 222 GTEx DepMap Descartes 0.05 5.89
46 CRISPLD2 0.0097514 cysteine rich secretory protein LCCL domain containing 2 GTEx DepMap Descartes 0.94 56.55
47 AOX1 0.0094814 aldehyde oxidase 1 GTEx DepMap Descartes 0.20 13.62
48 CYBRD1 0.0092537 cytochrome b reductase 1 GTEx DepMap Descartes 0.83 57.60
49 ACKR4 0.0092263 atypical chemokine receptor 4 GTEx DepMap Descartes 0.08 NA
50 THSD4 0.0091708 thrombospondin type 1 domain containing 4 GTEx DepMap Descartes 0.17 5.28


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UMAP plots showing activity of gene expression program identified in GEP 6. Cancer Associated Fibroblast: Inflammatory:

Interactive UMAP Plot
Interactive Boxplot

CNV Data procured from inferCNV.
 Outer tracks are putative CNV regions (gains = red, losses = blue) for each patient
Inner track is expression data representing:
    The top cells expressing this GEP (purple)
    Random cells (n =50) from the reference set used in inferCNV (orange)

Interactive BioCircos Plot

Gene set Enrichments for this program, caculated from top 50 genes


mSigDB Cell Types Gene Set:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
TRAVAGLINI_LUNG_ADVENTITIAL_FIBROBLAST_CELL 3.59e-35 64.70 35.13 2.41e-32 2.41e-32
29SFRP2, OMD, MFAP5, RSPO3, DCN, MGP, CCDC80, IGFBP6, FBLN1, CFD, SFRP4, GAS1, C7, OGN, PODN, MGST1, NNMT, F3, C3, FIBIN, GSN, PDGFRL, EMP1, ABI3BP, CXCL14, EFEMP1, AOX1, CYBRD1, ACKR4
 296
RUBENSTEIN_SKELETAL_MUSCLE_FAP_CELLS 1.84e-26 57.21 30.31 6.17e-24 1.23e-23
21MFAP5, DCN, MGP, CCDC80, IGFBP6, FBLN1, CFD, SFRP4, PODN, MGST1, ANGPTL1, C3, GSN, PDGFRL, EMP1, CXCL14, MFAP4, SERPING1, TNXB, EFEMP1, CYBRD1
 179
GAO_LARGE_INTESTINE_24W_C1_DCLK1POS_PROGENITOR 9.30e-19 57.15 27.43 1.25e-16 6.24e-16
14SFRP2, DCN, MGP, CCDC80, BOC, FBLN1, C7, OGN, ASPN, NNMT, C3, PDGFRL, SERPING1, CYBRD1
 99
DESCARTES_FETAL_MUSCLE_STROMAL_CELLS 4.47e-17 51.64 24.27 4.29e-15 3.00e-14
13MFAP5, RSPO3, DCN, MGP, IGFBP6, FBLN1, OGN, ASPN, ANGPTL1, PDGFRL, CXCL14, TNXB, ACKR4
 98
DESCARTES_FETAL_STOMACH_STROMAL_CELLS 1.62e-11 56.55 21.62 7.24e-10 1.09e-08
8SFRP2, DCN, FBLN1, C7, ANGPTL1, TWIST2, CXCL14, MFAP4
 50
DESCARTES_FETAL_KIDNEY_STROMAL_CELLS 6.24e-18 40.86 20.21 6.98e-16 4.19e-15
15SFRP2, OMD, MFAP5, DCN, MGP, IGFBP6, OGN, PODN, ASPN, ANGPTL1, FIBIN, PRELP, SOD3, F10, AOX1
 146
DESCARTES_FETAL_EYE_STROMAL_CELLS 3.79e-14 44.55 19.83 2.31e-12 2.54e-11
11SFRP2, OMD, MFAP5, DCN, MGP, IGFBP6, OGN, PODN, ASPN, TWIST2, PDGFRL
 90
DESCARTES_FETAL_THYMUS_STROMAL_CELLS 1.00e-16 39.48 19.17 8.43e-15 6.74e-14
14SFRP2, MFAP5, DCN, MGP, CCDC80, FBLN1, GAS1, OGN, ASPN, C3, MFGE8, MFAP4, SERPING1, IGF2
 137
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_FIBROBLASTS_STROMAL_CELLS 6.29e-13 43.32 18.60 3.52e-11 4.22e-10
10SFRP2, DCN, MGP, IGFBP6, FBLN1, GSN, CCDC3, MFAP4, SERPING1, INMT
 82
RUBENSTEIN_SKELETAL_MUSCLE_FBN1_FAP_CELLS 4.55e-22 33.81 18.05 1.02e-19 3.06e-19
21MFAP5, DCN, MGP, CCDC80, IGFBP6, FBLN1, CFD, GAS1, MGST1, PROCR, C3, GSN, PDGFRL, ABI3BP, CLU, MFAP4, SERPING1, TNXB, F10, EFEMP1, CYBRD1
 289
CUI_DEVELOPING_HEART_SMOOTH_MUSCLE_CELL 6.52e-10 49.49 17.75 2.31e-08 4.38e-07
7SFRP2, MFAP5, CCDC80, FBLN1, ANGPTL1, PDGFRL, F10
 48
DESCARTES_FETAL_ADRENAL_STROMAL_CELLS 4.78e-16 34.95 17.02 3.21e-14 3.21e-13
14SFRP2, RSPO3, DCN, MGP, CCDC80, IGFBP6, C7, OGN, PODN, ASPN, TWIST2, PDGFRL, ABI3BP, PRELP
 153
AIZARANI_LIVER_C21_STELLATE_CELLS_1 4.48e-16 29.91 14.90 3.21e-14 3.00e-13
15DCN, MGP, CCDC80, FBLN1, C7, GSN, EMP1, PRELP, CCDC3, MFAP4, SOD3, INMT, EFEMP1, CRISPLD2, CYBRD1
 194
DESCARTES_FETAL_HEART_STROMAL_CELLS 2.06e-07 47.76 13.82 5.76e-06 1.38e-04
5MFAP5, DCN, FBLN1, ANGPTL1, PRELP
 34
HAY_BONE_MARROW_STROMAL 6.25e-21 19.90 10.94 1.05e-18 4.20e-18
27RSPO3, DCN, MGP, CCDC80, IGFBP6, BOC, FBLN1, CFD, GAS1, C7, PODN, NNMT, FIBIN, GSN, TWIST2, PDGFRL, EMP1, ABI3BP, PRELP, CXCL14, SERPING1, SOD3, IGF2, EFEMP1, KRT222, CYBRD1, THSD4
 765
CUI_DEVELOPING_HEART_C3_FIBROBLAST_LIKE_CELL 6.54e-10 25.38 10.58 2.31e-08 4.39e-07
9DCN, MGP, FBLN1, C7, OGN, ASPN, MFAP4, SERPING1, CYBRD1
 117
DESCARTES_FETAL_SPLEEN_MESOTHELIAL_CELLS 8.57e-12 21.58 10.09 4.11e-10 5.75e-09
12SFRP2, OMD, RSPO3, MGP, GAS1, OGN, PROCR, F3, PDGFRL, INMT, EFEMP1, AOX1
 195
CUI_DEVELOPING_HEART_COMPACT_VENTRICULAR_CARDIOMYOCYTE 1.97e-07 28.86 9.68 5.74e-06 1.32e-04
6DCN, MGP, C7, OGN, ASPN, CXCL14
 65
CUI_DEVELOPING_HEART_C6_EPICARDIAL_CELL 1.80e-10 19.16 8.71 7.11e-09 1.21e-07
11CCDC80, MGST1, NNMT, PROCR, C3, PDGFRL, SERPING1, INMT, EFEMP1, AOX1, CYBRD1
 195
DESCARTES_FETAL_STOMACH_MESOTHELIAL_CELLS 1.18e-05 33.91 8.38 2.51e-04 7.93e-03
4RSPO3, GAS1, C3, AOX1
 36

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mSigDB Hallmark Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
HALLMARK_COAGULATION 1.05e-06 15.53 5.78 2.61e-05 5.23e-05
7CFD, F3, C3, GSN, CLU, SERPING1, F10
 138
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION 9.73e-07 12.40 4.96 2.61e-05 4.87e-05
8MFAP5, DCN, MGP, FBLN1, SFRP4, GAS1, NNMT, ABI3BP
 200
HALLMARK_APOPTOSIS 4.10e-04 8.90 2.72 6.83e-03 2.05e-02
5DCN, IGFBP6, GSN, EMP1, CLU
 161
HALLMARK_MYOGENESIS 1.08e-03 7.12 2.18 1.08e-02 5.40e-02
5TNNC1, CFD, GSN, CLU, SOD3
 200
HALLMARK_COMPLEMENT 1.08e-03 7.12 2.18 1.08e-02 5.40e-02
5F3, C3, CLU, SERPING1, F10
 200
HALLMARK_XENOBIOTIC_METABOLISM 4.35e-02 4.05 0.80 3.63e-01 1.00e+00
3FBLN1, F10, AOX1
 200
HALLMARK_UV_RESPONSE_DN 1.10e-01 3.67 0.43 7.11e-01 1.00e+00
2F3, EFEMP1
 144
HALLMARK_HYPOXIA 1.85e-01 2.63 0.31 7.11e-01 1.00e+00
2DCN, F3
 200
HALLMARK_ADIPOGENESIS 1.85e-01 2.63 0.31 7.11e-01 1.00e+00
2OMD, C3
 200
HALLMARK_ESTROGEN_RESPONSE_LATE 1.85e-01 2.63 0.31 7.11e-01 1.00e+00
2TNNC1, CXCL14
 200
HALLMARK_KRAS_SIGNALING_UP 1.85e-01 2.63 0.31 7.11e-01 1.00e+00
2EMP1, IGF2
 200
HALLMARK_APICAL_SURFACE 1.61e-01 5.93 0.14 7.11e-01 1.00e+00
1GAS1
 44
HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY 1.77e-01 5.31 0.13 7.11e-01 1.00e+00
1MGST1
 49
HALLMARK_CHOLESTEROL_HOMEOSTASIS 2.55e-01 3.49 0.09 9.11e-01 1.00e+00
1CLU
 74
HALLMARK_INTERFERON_ALPHA_RESPONSE 3.20e-01 2.66 0.07 1.00e+00 1.00e+00
1PROCR
 97
HALLMARK_FATTY_ACID_METABOLISM 4.66e-01 1.62 0.04 1.00e+00 1.00e+00
1INMT
 158
HALLMARK_MITOTIC_SPINDLE 5.45e-01 1.29 0.03 1.00e+00 1.00e+00
1GSN
 199
HALLMARK_IL2_STAT5_SIGNALING 5.45e-01 1.29 0.03 1.00e+00 1.00e+00
1EMP1
 199
HALLMARK_TNFA_SIGNALING_VIA_NFKB 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1F3
 200
HALLMARK_ESTROGEN_RESPONSE_EARLY 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1THSD4
 200

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KEGG Pathways:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
KEGG_COMPLEMENT_AND_COAGULATION_CASCADES 2.82e-07 27.03 9.08 5.24e-05 5.24e-05
6CFD, C7, F3, C3, SERPING1, F10
 69
KEGG_NICOTINATE_AND_NICOTINAMIDE_METABOLISM 4.05e-03 23.65 2.62 3.76e-01 7.52e-01
2NNMT, AOX1
 24
KEGG_TRYPTOPHAN_METABOLISM 1.10e-02 13.70 1.56 6.79e-01 1.00e+00
2INMT, AOX1
 40
KEGG_DRUG_METABOLISM_CYTOCHROME_P450 3.30e-02 7.44 0.86 1.00e+00 1.00e+00
2MGST1, AOX1
 72
KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS 1.04e-01 3.80 0.44 1.00e+00 1.00e+00
2C7, C3
 139
KEGG_WNT_SIGNALING_PATHWAY 1.19e-01 3.50 0.41 1.00e+00 1.00e+00
2SFRP2, SFRP4
 151
KEGG_PRION_DISEASES 1.30e-01 7.50 0.18 1.00e+00 1.00e+00
1C7
 35
KEGG_TYROSINE_METABOLISM 1.54e-01 6.22 0.15 1.00e+00 1.00e+00
1AOX1
 42
KEGG_VALINE_LEUCINE_AND_ISOLEUCINE_DEGRADATION 1.61e-01 5.93 0.14 1.00e+00 1.00e+00
1AOX1
 44
KEGG_GLUTATHIONE_METABOLISM 1.81e-01 5.21 0.13 1.00e+00 1.00e+00
1MGST1
 50
KEGG_HEDGEHOG_SIGNALING_PATHWAY 2.00e-01 4.64 0.11 1.00e+00 1.00e+00
1GAS1
 56
KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450 2.43e-01 3.70 0.09 1.00e+00 1.00e+00
1MGST1
 70
KEGG_LEISHMANIA_INFECTION 2.49e-01 3.59 0.09 1.00e+00 1.00e+00
1C3
 72
KEGG_CARDIAC_MUSCLE_CONTRACTION 2.70e-01 3.27 0.08 1.00e+00 1.00e+00
1TNNC1
 79
KEGG_HYPERTROPHIC_CARDIOMYOPATHY_HCM 2.81e-01 3.11 0.08 1.00e+00 1.00e+00
1TNNC1
 83
KEGG_ECM_RECEPTOR_INTERACTION 2.84e-01 3.07 0.08 1.00e+00 1.00e+00
1TNXB
 84
KEGG_TGF_BETA_SIGNALING_PATHWAY 2.90e-01 3.00 0.07 1.00e+00 1.00e+00
1DCN
 86
KEGG_DILATED_CARDIOMYOPATHY 3.01e-01 2.87 0.07 1.00e+00 1.00e+00
1TNNC1
 90
KEGG_FC_GAMMA_R_MEDIATED_PHAGOCYTOSIS 3.17e-01 2.68 0.07 1.00e+00 1.00e+00
1GSN
 96
KEGG_CALCIUM_SIGNALING_PATHWAY 5.06e-01 1.44 0.04 1.00e+00 1.00e+00
1TNNC1
 178

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr9q22 3.59e-02 4.38 0.86 1.00e+00 1.00e+00
3OMD, OGN, ASPN
 185
chr12p12 6.67e-02 4.96 0.58 1.00e+00 1.00e+00
2MGP, MGST1
 107
chr7p14 1.35e-01 3.23 0.38 1.00e+00 1.00e+00
2SFRP4, INMT
 163
chr3q13 1.67e-01 2.82 0.33 1.00e+00 1.00e+00
2CCDC80, BOC
 187
chr12p13 3.72e-01 1.57 0.18 1.00e+00 1.00e+00
2MFAP5, EMP1
 333
chr8p22 1.64e-01 5.80 0.14 1.00e+00 1.00e+00
1PDGFRL
 45
chr3q12 1.67e-01 5.67 0.14 1.00e+00 1.00e+00
1ABI3BP
 46
chr11p14 2.00e-01 4.64 0.11 1.00e+00 1.00e+00
1FIBIN
 56
chr10p13 2.25e-01 4.05 0.10 1.00e+00 1.00e+00
1CCDC3
 64
chr15q23 2.28e-01 3.99 0.10 1.00e+00 1.00e+00
1THSD4
 65
chr13q13 2.67e-01 3.31 0.08 1.00e+00 1.00e+00
1SERTM1
 78
chr19p13 1.00e+00 0.68 0.08 1.00e+00 1.00e+00
2CFD, C3
 773
chr1p21 3.25e-01 2.60 0.06 1.00e+00 1.00e+00
1F3
 99
chr2p16 3.64e-01 2.26 0.06 1.00e+00 1.00e+00
1EFEMP1
 114
chr3q22 3.72e-01 2.20 0.05 1.00e+00 1.00e+00
1ACKR4
 117
chr6q22 3.77e-01 2.16 0.05 1.00e+00 1.00e+00
1RSPO3
 119
chr4p15 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1SOD3
 122
chr12q21 3.99e-01 2.01 0.05 1.00e+00 1.00e+00
1DCN
 128
chr5p13 3.99e-01 2.01 0.05 1.00e+00 1.00e+00
1C7
 128
chr8p21 3.99e-01 2.01 0.05 1.00e+00 1.00e+00
1CLU
 128

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
TGGAAA_NFAT_Q4_01 2.42e-03 2.79 1.42 2.74e-01 1.00e+00
15OMD, DCN, MGP, CCDC80, SFRP4, PODN, ASPN, ANGPTL1, FIBIN, GSN, EMP1, PRELP, CCDC3, TNXB, ACKR4
 1934
MZF1_01 1.42e-02 4.61 1.19 4.73e-01 1.00e+00
4DCN, PRELP, CXCL14, SOD3
 240
COUP_DR1_Q6 1.71e-02 4.35 1.13 4.94e-01 1.00e+00
4FBLN1, ABI3BP, CXCL14, EFEMP1
 254
HNF4_01_B 1.77e-02 4.30 1.11 4.94e-01 1.00e+00
4TNNC1, FBLN1, F10, EFEMP1
 257
CP2_01 1.84e-02 4.25 1.10 4.94e-01 1.00e+00
4IGFBP6, PRELP, TNXB, SOD3
 260
AP1_Q2 1.96e-02 4.16 1.08 4.94e-01 1.00e+00
4DCN, IGFBP6, GSN, MFGE8
 265
GGGTGGRR_PAX4_03 2.39e-02 2.41 1.07 5.43e-01 1.00e+00
10TNNC1, DCN, IGFBP6, PODN, PROCR, FIBIN, ABI3BP, PRELP, TNXB, IGF2
 1310
TGCCAAR_NF1_Q6 1.84e-02 2.83 1.07 4.94e-01 1.00e+00
7SFRP2, OMD, IGFBP6, OGN, PODN, PRELP, CXCL14
 727
YNTTTNNNANGCARM_UNKNOWN 3.30e-02 7.44 0.86 6.23e-01 1.00e+00
2SFRP2, KRT222
 72
TGANTCA_AP1_C 6.57e-02 2.11 0.85 8.13e-01 1.00e+00
8OMD, IGFBP6, PODN, PROCR, F3, EMP1, CXCL14, TNXB
 1139
TGASTMAGC_NFE2_01 4.09e-02 4.16 0.82 7.22e-01 1.00e+00
3PROCR, ABI3BP, TNXB
 195
HFH3_01 4.14e-02 4.13 0.82 7.22e-01 1.00e+00
3OMD, TWIST2, INMT
 196
TGTTTGY_HNF3_Q6 6.03e-02 2.30 0.80 7.94e-01 1.00e+00
6OMD, MGP, ASPN, MGST1, ANGPTL1, PRELP
 748
ZNF514_TARGET_GENES 3.14e-02 36.29 0.79 6.10e-01 1.00e+00
1GSN
 8
WGTTNNNNNAAA_UNKNOWN 5.91e-02 2.53 0.78 7.87e-01 1.00e+00
5DCN, MGP, IGFBP6, OGN, INMT
 554
YNGTTNNNATT_UNKNOWN 5.70e-02 2.92 0.76 7.87e-01 1.00e+00
4SFRP2, OMD, EMP1, THSD4
 376
FOX_Q2 5.07e-02 3.80 0.75 7.51e-01 1.00e+00
3ANGPTL1, TWIST2, EFEMP1
 213
TEF1_Q6 5.90e-02 3.56 0.70 7.87e-01 1.00e+00
3MFAP5, NNMT, FIBIN
 227
CTGYNNCTYTAA_UNKNOWN 4.73e-02 6.05 0.70 7.51e-01 1.00e+00
2FIBIN, KRT222
 88
CCAWWNAAGG_SRF_Q4 4.73e-02 6.05 0.70 7.51e-01 1.00e+00
2TNNC1, PODN
 88

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_ELASTIC_FIBER_ASSEMBLY 6.99e-06 112.93 18.36 2.61e-02 5.23e-02
3MFAP4, TNXB, THSD4
 10
GOBP_KERATAN_SULFATE_CATABOLIC_PROCESS 1.27e-05 88.17 14.90 3.17e-02 9.52e-02
3OMD, OGN, PRELP
 12
GOBP_KERATINOCYTE_APOPTOTIC_PROCESS 2.31e-04 129.66 11.45 1.44e-01 1.00e+00
2SFRP4, GSN
 6
GOBP_NEGATIVE_REGULATION_OF_NON_CANONICAL_WNT_SIGNALING_PATHWAY 2.31e-04 129.66 11.45 1.44e-01 1.00e+00
2SFRP2, SFRP4
 6
GOBP_PROTEIN_ACTIVATION_CASCADE 4.22e-06 45.22 10.96 2.61e-02 3.16e-02
4FBLN1, F3, SERPING1, F10
 28
GOBP_COMPLEMENT_ACTIVATION_ALTERNATIVE_PATHWAY 4.64e-05 53.00 9.53 6.56e-02 3.47e-01
3CFD, C7, C3
 18
GOBP_REGULATION_OF_NON_CANONICAL_WNT_SIGNALING_PATHWAY 1.28e-04 36.22 6.71 1.20e-01 9.57e-01
3SFRP2, RSPO3, SFRP4
 25
GOBP_KERATAN_SULFATE_BIOSYNTHETIC_PROCESS 1.81e-04 31.85 5.95 1.35e-01 1.00e+00
3OMD, OGN, PRELP
 28
GOBP_COMPLEMENT_ACTIVATION_LECTIN_PATHWAY 9.99e-04 51.89 5.39 3.84e-01 1.00e+00
2MFAP4, SERPING1
 12
GOBP_SULFUR_COMPOUND_CATABOLIC_PROCESS 6.91e-05 20.88 5.27 7.39e-02 5.17e-01
4OMD, DCN, OGN, PRELP
 56
GOBP_KERATAN_SULFATE_METABOLIC_PROCESS 2.96e-04 26.56 5.01 1.70e-01 1.00e+00
3OMD, OGN, PRELP
 33
GOBP_AMINOGLYCAN_CATABOLIC_PROCESS 1.47e-04 16.96 4.31 1.23e-01 1.00e+00
4OMD, DCN, OGN, PRELP
 68
GOBP_REGULATION_OF_WNT_SIGNALING_PATHWAY_PLANAR_CELL_POLARITY_PATHWAY 1.58e-03 39.95 4.27 5.19e-01 1.00e+00
2SFRP2, RSPO3
 15
GOBP_EXTRACELLULAR_MATRIX_ASSEMBLY 7.43e-04 18.98 3.64 3.71e-01 1.00e+00
3MFAP4, TNXB, THSD4
 45
GOBP_COMPLEMENT_ACTIVATION 5.26e-05 10.32 3.55 6.56e-02 3.94e-01
6CFD, C7, C3, CLU, MFAP4, SERPING1
 171
GOBP_POSITIVE_REGULATION_OF_RECEPTOR_MEDIATED_ENDOCYTOSIS 1.01e-03 16.95 3.26 3.84e-01 1.00e+00
3SFRP4, C3, CLU
 50
GOBP_EXTERNAL_ENCAPSULATING_STRUCTURE_ORGANIZATION 1.77e-05 7.09 3.01 3.30e-02 1.32e-01
9SFRP2, MFAP5, DCN, CCDC80, FBLN1, MFAP4, TNXB, CRISPLD2, THSD4
 396
GOBP_EMBRYONIC_PLACENTA_MORPHOGENESIS 4.05e-03 23.65 2.62 1.00e+00 1.00e+00
2RSPO3, IGF2
 24
GOBP_AMINOGLYCAN_BIOSYNTHETIC_PROCESS 1.04e-03 9.88 2.54 3.84e-01 1.00e+00
4OMD, DCN, OGN, PRELP
 114
GOBP_REGULATION_OF_COMPLEMENT_ACTIVATION 1.04e-03 9.88 2.54 3.84e-01 1.00e+00
4C7, C3, CLU, SERPING1
 114

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE5679_CTRL_VS_PPARG_LIGAND_ROSIGLITAZONE_AND_RARA_AGONIST_AM580_TREATED_DC_DN 1.24e-04 8.78 3.02 6.03e-01 6.03e-01
6DCN, GAS1, EMP1, MFGE8, CXCL14, CLU
 200
GSE37605_FOXP3_FUSION_GFP_VS_IRES_GFP_TREG_C57BL6_DN 6.12e-04 8.12 2.49 7.51e-01 1.00e+00
5MGP, CCDC80, IGFBP6, GAS1, OGN
 176
GSE41978_ID2_KO_AND_BIM_KO_VS_BIM_KO_KLRG1_LOW_EFFECTOR_CD8_TCELL_UP 1.06e-03 7.16 2.19 7.51e-01 1.00e+00
5FBLN1, GAS1, MGST1, NNMT, INMT
 199
GSE17721_4_VS_24H_CPG_BMDC_UP 1.08e-03 7.12 2.18 7.51e-01 1.00e+00
5CCDC80, EMP1, ABI3BP, SOD3, F10
 200
GSE27786_NKTCELL_VS_ERYTHROBLAST_DN 1.08e-03 7.12 2.18 7.51e-01 1.00e+00
5GAS1, TWIST2, CCDC3, MFAP4, ACKR4
 200
GSE9650_GP33_VS_GP276_LCMV_SPECIFIC_EXHAUSTED_CD8_TCELL_UP 1.08e-03 7.12 2.18 7.51e-01 1.00e+00
5SFRP2, OGN, CXCL14, SERPING1, IGF2
 200
GSE2405_0H_VS_1.5H_A_PHAGOCYTOPHILUM_STIM_NEUTROPHIL_UP 1.08e-03 7.12 2.18 7.51e-01 1.00e+00
5MGP, CCDC80, CFD, SFRP4, PRELP
 200
GSE3720_LPS_VS_PMA_STIM_VD2_GAMMADELTA_TCELL_DN 3.17e-03 7.20 1.86 1.00e+00 1.00e+00
4CCDC80, IGFBP6, GAS1, SOD3
 155
GSE24671_CTRL_VS_BAKIMULC_INFECTED_MOUSE_SPLENOCYTES_DN 4.40e-03 6.55 1.69 1.00e+00 1.00e+00
4DCN, IGFBP6, C7, THSD4
 170
GSE6269_FLU_VS_STREP_PNEUMO_INF_PBMC_DN 4.58e-03 6.47 1.67 1.00e+00 1.00e+00
4GSN, MFAP4, IGF2, CYBRD1
 172
GSE6269_HEALTHY_VS_STAPH_AUREUS_INF_PBMC_DN 5.06e-03 6.28 1.62 1.00e+00 1.00e+00
4IGFBP6, GAS1, MFAP4, CYBRD1
 177
GSE6259_CD4_TCELL_VS_CD8_TCELL_UP 6.12e-03 5.94 1.54 1.00e+00 1.00e+00
4IGFBP6, FBLN1, GAS1, OGN
 187
GSE1112_HY_CD8AB_VS_HY_CD8AA_THYMOCYTE_RTOC_CULTURE_DN 6.70e-03 5.78 1.50 1.00e+00 1.00e+00
4SFRP2, PROCR, C3, EMP1
 192
GSE24634_IL4_VS_CTRL_TREATED_NAIVE_CD4_TCELL_DAY10_DN 7.58e-03 5.57 1.44 1.00e+00 1.00e+00
4IGFBP6, F3, C3, SERPING1
 199
GSE19888_ADENOSINE_A3R_INH_VS_ACT_IN_MAST_CELL_DN 7.58e-03 5.57 1.44 1.00e+00 1.00e+00
4CFD, MGST1, GSN, F10
 199
GSE25088_WT_VS_STAT6_KO_MACROPHAGE_DN 7.58e-03 5.57 1.44 1.00e+00 1.00e+00
4DCN, C7, SERPING1, EFEMP1
 199
GSE17721_LPS_VS_CPG_8H_BMDC_UP 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4BOC, ABI3BP, TNXB, IGF2
 200
GSE17721_LPS_VS_CPG_16H_BMDC_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4OMD, CCDC80, FIBIN, MFGE8
 200
GSE20715_0H_VS_24H_OZONE_LUNG_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4MGP, C3, GSN, CXCL14
 200
GSE20715_0H_VS_6H_OZONE_TLR4_KO_LUNG_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4IGFBP6, GAS1, F3, INMT
 200

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Top Ranked Transcription Factors for this Gene Expression Program:

Gene Symbol TF Rank DNA Binding Domain Motif Status IUPAC PWM GTEx DepMap Decartes
SFRP4 14 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
TWIST2 28 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None
CCDC3 35 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None bZIP domain is truncated and lacks the DNA-contacting residues.
CLU 36 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Included only because GO says positive regulation of NF-kappaB transcription factor activity, but there is no DBD and no evidence of DNA binding.
AEBP1 52 Yes Likely to be sequence specific TF Monomer or homomultimer No motif None This is a protease, but its ability to bind DNA is supported by both gel-shift (PMID: 15654748) and ChIP (PMID: 22723309).
HES1 54 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NFIA 68 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
CEBPB 80 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
KLF5 86 Yes Known motif Monomer or homomultimer High-throughput in vitro None Binds as a monomer and as a dimer (PMID: 25575120).
EMX2 90 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ID3 91 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination
FHL2 93 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None LIM ZF proteins are unlikely to bind DNA. Experimental evidence does not support a role for FHL2 as a sequence-specific DNA-binding protein (PMID:10654935)
MYC 95 Yes Known motif Obligate heteromer In vivo/Misc source None Functions as a heterodimer with MAX.
FZD1 97 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
ZFP36 103 No ssDNA/RNA binding Not a DNA binding protein No motif None RNA binding protein (PMID: 10330172).
NR4A1 104 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ID1 108 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination
PRRX1 117 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
AR 129 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
KLF8 132 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None


QQ Plot showing correlations with other GEPs in this dataset, calculated by Spearman correlation:

Interactive QQ-plot of gene loadings:

Interactive QQ Plot

A similar QQ-plot as above, but only for instances where the H value is e.g. > 25, i.e. we are confident that the expression program is active above noise. Agreemenet between these binary vectors is tested using the Jaccard Index, with the P-values calculated by an exact test:

Interactive QQ-plot:

Interactive QQ Plot

Singler cell type annotations for the top 50 cells on this program.


Cell ID Singler label Singler Delta Activity Score Top Singler Raw Scores
T10_TCAACGACACAGGCCT.1 Chondrocytes:MSC-derived 0.14 1978.71
Raw ScoresFibroblasts:breast: 0.39, Smooth_muscle_cells:bronchial: 0.39, Smooth_muscle_cells:bronchial:vit_D: 0.39, iPS_cells:adipose_stem_cells: 0.38, Osteoblasts: 0.38, Chondrocytes:MSC-derived: 0.38, Tissue_stem_cells:BM_MSC:TGFb3: 0.38, Smooth_muscle_cells:vascular: 0.38, Smooth_muscle_cells:vascular:IL-17: 0.38, Tissue_stem_cells:BM_MSC:BMP2: 0.37
T10_GGGACCTGTAGAAGGA.1 Chondrocytes:MSC-derived 0.13 1165.37
Raw ScoresFibroblasts:breast: 0.32, iPS_cells:adipose_stem_cells: 0.31, Chondrocytes:MSC-derived: 0.31, Osteoblasts: 0.3, Smooth_muscle_cells:bronchial: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Smooth_muscle_cells:bronchial:vit_D: 0.29, Smooth_muscle_cells:vascular: 0.29, iPS_cells:CRL2097_foreskin: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.28
T10_GAGTCCGCAATGCCAT.1 Fibroblasts:breast 0.17 1072.59
Raw ScoresFibroblasts:breast: 0.38, Smooth_muscle_cells:bronchial: 0.38, Osteoblasts: 0.38, Smooth_muscle_cells:bronchial:vit_D: 0.37, Chondrocytes:MSC-derived: 0.37, iPS_cells:adipose_stem_cells: 0.37, Smooth_muscle_cells:vascular: 0.36, Tissue_stem_cells:iliac_MSC: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Smooth_muscle_cells:vascular:IL-17: 0.36
T10_CAGCTAAGTAATTGGA.1 Smooth_muscle_cells:bronchial 0.16 685.57
Raw ScoresFibroblasts:breast: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Smooth_muscle_cells:bronchial: 0.33, iPS_cells:adipose_stem_cells: 0.32, Osteoblasts: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Chondrocytes:MSC-derived: 0.31, Smooth_muscle_cells:vascular: 0.31, Tissue_stem_cells:iliac_MSC: 0.3
T10_TCTCATAAGAAAGTGG.1 Fibroblasts:breast 0.20 677.85
Raw ScoresFibroblasts:breast: 0.41, Smooth_muscle_cells:bronchial: 0.4, Smooth_muscle_cells:bronchial:vit_D: 0.4, iPS_cells:adipose_stem_cells: 0.39, Osteoblasts: 0.39, Smooth_muscle_cells:vascular: 0.39, Smooth_muscle_cells:vascular:IL-17: 0.39, Tissue_stem_cells:BM_MSC:TGFb3: 0.38, Chondrocytes:MSC-derived: 0.38, Tissue_stem_cells:iliac_MSC: 0.38
T10_CGTAGGCTCAGGATCT.1 Fibroblasts:breast 0.18 555.63
Raw ScoresSmooth_muscle_cells:bronchial: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.31, Fibroblasts:breast: 0.31, iPS_cells:adipose_stem_cells: 0.3, Smooth_muscle_cells:vascular: 0.29, Osteoblasts: 0.29, Smooth_muscle_cells:vascular:IL-17: 0.29, Chondrocytes:MSC-derived: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.29
T10_TTTGTCATCTAAGCCA.1 Fibroblasts:breast 0.13 445.20
Raw ScoresFibroblasts:breast: 0.3, Smooth_muscle_cells:bronchial: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.29, Osteoblasts: 0.29, iPS_cells:adipose_stem_cells: 0.29, Chondrocytes:MSC-derived: 0.29, Tissue_stem_cells:iliac_MSC: 0.28, Smooth_muscle_cells:vascular: 0.28
T10_TCGGTAATCTCGTATT.1 Smooth_muscle_cells:bronchial:vit_D 0.16 444.32
Raw ScoresSmooth_muscle_cells:bronchial:vit_D: 0.34, Smooth_muscle_cells:bronchial: 0.34, Fibroblasts:breast: 0.33, iPS_cells:adipose_stem_cells: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Osteoblasts: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:iliac_MSC: 0.31, iPS_cells:CRL2097_foreskin: 0.31
T10_GCTTCCAAGTCCTCCT.1 Tissue_stem_cells:BM_MSC:TGFb3 0.15 418.47
Raw ScoresFibroblasts:breast: 0.33, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, iPS_cells:adipose_stem_cells: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Chondrocytes:MSC-derived: 0.31, Osteoblasts: 0.31, Smooth_muscle_cells:vascular: 0.31, Tissue_stem_cells:iliac_MSC: 0.3
T10_ATCACGAGTTAAGGGC.1 Fibroblasts:breast 0.16 393.56
Raw ScoresSmooth_muscle_cells:bronchial:vit_D: 0.33, Smooth_muscle_cells:bronchial: 0.33, Fibroblasts:breast: 0.33, Smooth_muscle_cells:vascular: 0.31, iPS_cells:adipose_stem_cells: 0.31, Smooth_muscle_cells:vascular:IL-17: 0.31, Osteoblasts: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Chondrocytes:MSC-derived: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3
T10_GTTCGGGTCAAGGTAA.1 Fibroblasts:breast 0.15 382.87
Raw ScoresFibroblasts:breast: 0.31, Smooth_muscle_cells:bronchial: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Smooth_muscle_cells:vascular: 0.29, Smooth_muscle_cells:vascular:IL-17: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.29, Osteoblasts: 0.29, Chondrocytes:MSC-derived: 0.29
T69_TGCCCATGTCCAACTA.1 iPS_cells:adipose_stem_cells 0.14 271.39
Raw ScoresFibroblasts:breast: 0.33, iPS_cells:adipose_stem_cells: 0.32, Smooth_muscle_cells:bronchial: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Osteoblasts: 0.32, Chondrocytes:MSC-derived: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, iPS_cells:CRL2097_foreskin: 0.31, Tissue_stem_cells:iliac_MSC: 0.31
T69_CTGCCTAAGTGTGGCA.1 iPS_cells:adipose_stem_cells 0.17 203.72
Raw ScoresiPS_cells:adipose_stem_cells: 0.36, Fibroblasts:breast: 0.35, Chondrocytes:MSC-derived: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, Osteoblasts: 0.34, Smooth_muscle_cells:bronchial: 0.34, iPS_cells:CRL2097_foreskin: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Tissue_stem_cells:BM_MSC: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34
T188_TCACGCTTCCTACGGG-1 DC:monocyte-derived:A._fumigatus_germ_tubes_6h 0.19 196.45
Raw ScoresDC:monocyte-derived:A._fumigatus_germ_tubes_6h: 0.44, Macrophage:monocyte-derived:M-CSF/IFNg/Pam3Cys: 0.43, DC:monocyte-derived:antiCD40/VAF347: 0.42, Macrophage:monocyte-derived:S._aureus: 0.42, Macrophage:monocyte-derived:M-CSF/Pam3Cys: 0.42, DC:monocyte-derived:Poly(IC): 0.42, DC:monocyte-derived:Schuler_treatment: 0.42, DC:monocyte-derived:LPS: 0.42, Macrophage:Alveolar:B._anthacis_spores: 0.41, DC:monocyte-derived:Galectin-1: 0.41
T10_GACGTGCAGAGTTGGC.1 Smooth_muscle_cells:bronchial:vit_D 0.12 153.20
Raw ScoresSmooth_muscle_cells:bronchial:vit_D: 0.27, Tissue_stem_cells:iliac_MSC: 0.27, Smooth_muscle_cells:bronchial: 0.27, Fibroblasts:breast: 0.27, Tissue_stem_cells:BM_MSC:TGFb3: 0.26, iPS_cells:adipose_stem_cells: 0.26, Tissue_stem_cells:BM_MSC:BMP2: 0.26, Osteoblasts: 0.26, Smooth_muscle_cells:vascular:IL-17: 0.26, Smooth_muscle_cells:vascular: 0.26
T69_ATAAGAGTCACAATGC.1 Fibroblasts:breast 0.13 149.88
Raw ScoresFibroblasts:breast: 0.31, Smooth_muscle_cells:bronchial: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.3, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Osteoblasts: 0.3, Tissue_stem_cells:iliac_MSC: 0.3, Smooth_muscle_cells:vascular:IL-17: 0.29, Smooth_muscle_cells:vascular: 0.29
T230_ATCCGTCGTAACAGGC-1 Endothelial_cells:HUVEC:Borrelia_burgdorferi 0.18 135.19
Raw ScoresEndothelial_cells:HUVEC:IFNg: 0.43, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.42, Endothelial_cells:lymphatic:TNFa_48h: 0.42, Endothelial_cells:lymphatic: 0.42, Endothelial_cells:HUVEC:VEGF: 0.42, Endothelial_cells:HUVEC: 0.42, Endothelial_cells:HUVEC:Serum_Amyloid_A: 0.41, Endothelial_cells:HUVEC:H5N1-infected: 0.41, Endothelial_cells:HUVEC:FPV-infected: 0.41, Endothelial_cells:HUVEC:B._anthracis_LT: 0.41
T230_TGTTGAGCAAATGATG-1 Endothelial_cells:HUVEC:Borrelia_burgdorferi 0.15 130.95
Raw ScoresEndothelial_cells:lymphatic: 0.42, Endothelial_cells:lymphatic:TNFa_48h: 0.42, Endothelial_cells:HUVEC: 0.42, Endothelial_cells:HUVEC:VEGF: 0.42, Endothelial_cells:HUVEC:Serum_Amyloid_A: 0.42, Endothelial_cells:HUVEC:IFNg: 0.41, Endothelial_cells:HUVEC:B._anthracis_LT: 0.41, Endothelial_cells:HUVEC:H5N1-infected: 0.41, Endothelial_cells:HUVEC:PR8-infected: 0.41, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.41
T69_GCAAACTAGCCCAATT.1 Fibroblasts:breast 0.14 129.50
Raw ScoresFibroblasts:breast: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.28, iPS_cells:adipose_stem_cells: 0.28, Osteoblasts: 0.28, Tissue_stem_cells:BM_MSC:BMP2: 0.28, Smooth_muscle_cells:bronchial: 0.27, Chondrocytes:MSC-derived: 0.27, Smooth_muscle_cells:bronchial:vit_D: 0.27, Tissue_stem_cells:iliac_MSC: 0.27, Smooth_muscle_cells:vascular: 0.27
T19_CCTATTACAGACACTT.1 Smooth_muscle_cells:bronchial 0.09 129.44
Raw ScoresSmooth_muscle_cells:bronchial: 0.29, iPS_cells:adipose_stem_cells: 0.29, Smooth_muscle_cells:bronchial:vit_D: 0.29, Osteoblasts: 0.28, Chondrocytes:MSC-derived: 0.28, Fibroblasts:breast: 0.28, Tissue_stem_cells:BM_MSC:BMP2: 0.28, Tissue_stem_cells:BM_MSC:TGFb3: 0.27, Tissue_stem_cells:iliac_MSC: 0.27, Fibroblasts:foreskin: 0.27
T75_CCTTCCCCATGCTGGC.1 Neurons:adrenal_medulla_cell_line 0.12 126.23
Raw ScoresFibroblasts:breast: 0.34, MSC: 0.34, Fibroblasts:foreskin: 0.33, iPS_cells:skin_fibroblast: 0.33, Neurons:Schwann_cell: 0.33, iPS_cells:CRL2097_foreskin: 0.33, iPS_cells:foreskin_fibrobasts: 0.32, iPS_cells:adipose_stem_cells: 0.32, Neurons:adrenal_medulla_cell_line: 0.32, iPS_cells:PDB_fibroblasts: 0.32
T69_TTCTCAACACTAGTAC.1 Smooth_muscle_cells:vascular 0.11 103.72
Raw ScoresFibroblasts:breast: 0.34, Smooth_muscle_cells:vascular:IL-17: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Smooth_muscle_cells:vascular: 0.33, Smooth_muscle_cells:bronchial: 0.33, iPS_cells:adipose_stem_cells: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32
T19_GCTTCCATCACGCATA.1 Tissue_stem_cells:BM_MSC:TGFb3 0.12 100.46
Raw ScoresTissue_stem_cells:BM_MSC:BMP2: 0.31, Osteoblasts: 0.31, Fibroblasts:breast: 0.31, iPS_cells:adipose_stem_cells: 0.3, Smooth_muscle_cells:bronchial: 0.3, Tissue_stem_cells:iliac_MSC: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.3, Chondrocytes:MSC-derived: 0.3, Tissue_stem_cells:BM_MSC:osteogenic: 0.3
T19_CGCTATCTCACTCCTG.1 Neurons:Schwann_cell 0.14 94.50
Raw ScoresiPS_cells:adipose_stem_cells: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.36, Tissue_stem_cells:BM_MSC: 0.36, Osteoblasts: 0.36, Fibroblasts:breast: 0.35, Tissue_stem_cells:BM_MSC:osteogenic: 0.35, Smooth_muscle_cells:bronchial: 0.35, Tissue_stem_cells:iliac_MSC: 0.35, Chondrocytes:MSC-derived: 0.35
T19_CTACCCATCACCGTAA.1 Tissue_stem_cells:BM_MSC:TGFb3 0.15 92.29
Raw ScoresFibroblasts:breast: 0.35, Osteoblasts: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, iPS_cells:adipose_stem_cells: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Tissue_stem_cells:iliac_MSC: 0.34, Smooth_muscle_cells:bronchial: 0.34, Tissue_stem_cells:BM_MSC: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Chondrocytes:MSC-derived: 0.33
T69_TATGCCCTCTCTTGAT.1 Chondrocytes:MSC-derived 0.11 92.06
Raw ScoresFibroblasts:breast: 0.31, Chondrocytes:MSC-derived: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Smooth_muscle_cells:vascular: 0.3, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3, Smooth_muscle_cells:vascular:IL-17: 0.3, Tissue_stem_cells:BM_MSC: 0.3, Smooth_muscle_cells:bronchial: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.3
T10_CTGAAACGTAGCGTAG.1 Tissue_stem_cells:BM_MSC:TGFb3 0.11 89.51
Raw ScoresTissue_stem_cells:BM_MSC: 0.3, Fibroblasts:breast: 0.3, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.29, Osteoblasts: 0.29, Tissue_stem_cells:iliac_MSC: 0.29, Chondrocytes:MSC-derived: 0.29, Smooth_muscle_cells:vascular: 0.29, Fibroblasts:foreskin: 0.29
T69_CAACCAAGTGTAATGA.1 Smooth_muscle_cells:bronchial 0.14 87.53
Raw ScoresFibroblasts:breast: 0.33, iPS_cells:adipose_stem_cells: 0.33, Chondrocytes:MSC-derived: 0.33, Smooth_muscle_cells:vascular: 0.33, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Smooth_muscle_cells:vascular:IL-17: 0.33, Fibroblasts:foreskin: 0.32, Tissue_stem_cells:BM_MSC: 0.32, iPS_cells:CRL2097_foreskin: 0.32
T19_CACACAAAGAGTCTGG.1 Tissue_stem_cells:BM_MSC:TGFb3 0.14 84.74
Raw ScoresSmooth_muscle_cells:bronchial: 0.38, Tissue_stem_cells:BM_MSC:BMP2: 0.37, Smooth_muscle_cells:bronchial:vit_D: 0.37, Tissue_stem_cells:BM_MSC:TGFb3: 0.37, iPS_cells:adipose_stem_cells: 0.37, Fibroblasts:breast: 0.37, Chondrocytes:MSC-derived: 0.36, Osteoblasts: 0.36, iPS_cells:CRL2097_foreskin: 0.36, Tissue_stem_cells:iliac_MSC: 0.36
T19_TCTATTGGTGGCGAAT.1 Fibroblasts:breast 0.13 82.69
Raw ScoresSmooth_muscle_cells:bronchial: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.3, Fibroblasts:breast: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.29, iPS_cells:adipose_stem_cells: 0.29, Osteoblasts: 0.29, Chondrocytes:MSC-derived: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Fibroblasts:foreskin: 0.28, Smooth_muscle_cells:vascular: 0.28
T19_TGGGCGTAGCCAACAG.1 Fibroblasts:foreskin 0.10 80.91
Raw ScoresSmooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.32, Fibroblasts:breast: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Chondrocytes:MSC-derived: 0.31, iPS_cells:adipose_stem_cells: 0.31, Osteoblasts: 0.31, Tissue_stem_cells:iliac_MSC: 0.31, Smooth_muscle_cells:vascular: 0.3
T19_TACCTATGTACAGTTC.1 Chondrocytes:MSC-derived 0.11 78.82
Raw ScoresiPS_cells:adipose_stem_cells: 0.35, Fibroblasts:breast: 0.35, Smooth_muscle_cells:bronchial: 0.35, Osteoblasts: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.34, Chondrocytes:MSC-derived: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, Tissue_stem_cells:BM_MSC: 0.33, iPS_cells:CRL2097_foreskin: 0.33
T69_CCTTACGTCTGAAAGA.1 Tissue_stem_cells:BM_MSC:BMP2 0.10 78.21
Raw ScoresFibroblasts:breast: 0.29, Smooth_muscle_cells:bronchial: 0.28, Tissue_stem_cells:BM_MSC:BMP2: 0.28, Smooth_muscle_cells:bronchial:vit_D: 0.28, Smooth_muscle_cells:vascular:IL-17: 0.28, Smooth_muscle_cells:vascular: 0.28, iPS_cells:adipose_stem_cells: 0.28, Tissue_stem_cells:BM_MSC:TGFb3: 0.28, Tissue_stem_cells:BM_MSC: 0.28, Osteoblasts: 0.28
T69_CCACTACAGATATACG.1 Smooth_muscle_cells:vascular:IL-17 0.14 76.59
Raw ScoresFibroblasts:breast: 0.36, Smooth_muscle_cells:vascular:IL-17: 0.35, Smooth_muscle_cells:vascular: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, iPS_cells:adipose_stem_cells: 0.34, Fibroblasts:foreskin: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, iPS_cells:CRL2097_foreskin: 0.34, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC: 0.33
T69_GTAACGTTCGTCCGTT.1 Endothelial_cells:HUVEC:Borrelia_burgdorferi 0.11 75.07
Raw ScoresEndothelial_cells:HUVEC:IFNg: 0.35, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.34, Endothelial_cells:lymphatic:TNFa_48h: 0.34, Endothelial_cells:HUVEC:VEGF: 0.34, Endothelial_cells:lymphatic: 0.34, Endothelial_cells:HUVEC:B._anthracis_LT: 0.33, Endothelial_cells:HUVEC: 0.33, Endothelial_cells:HUVEC:PR8-infected: 0.33, Endothelial_cells:HUVEC:H5N1-infected: 0.33, Endothelial_cells:HUVEC:FPV-infected: 0.33
T200_CAACCAAGTAGACACG-1 Endothelial_cells:lymphatic:TNFa_48h 0.13 74.99
Raw ScoresEndothelial_cells:lymphatic:TNFa_48h: 0.41, Endothelial_cells:HUVEC:IFNg: 0.41, Endothelial_cells:blood_vessel: 0.41, Endothelial_cells:lymphatic: 0.4, Endothelial_cells:lymphatic:KSHV: 0.4, Endothelial_cells:HUVEC:PR8-infected: 0.39, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.39, Endothelial_cells:HUVEC:B._anthracis_LT: 0.39, Endothelial_cells:HUVEC:Serum_Amyloid_A: 0.38, Endothelial_cells:HUVEC: 0.38
T69_AGCCTAAAGGAATCGC.1 Endothelial_cells:HUVEC:Borrelia_burgdorferi 0.13 72.07
Raw ScoresEndothelial_cells:HUVEC:H5N1-infected: 0.35, Endothelial_cells:HUVEC:IFNg: 0.35, Endothelial_cells:HUVEC:PR8-infected: 0.35, Endothelial_cells:HUVEC:FPV-infected: 0.35, Endothelial_cells:HUVEC: 0.35, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.35, Endothelial_cells:lymphatic:TNFa_48h: 0.34, Endothelial_cells:HUVEC:VEGF: 0.34, Endothelial_cells:HUVEC:B._anthracis_LT: 0.34, Endothelial_cells:lymphatic: 0.34
T69_CTGTTTAAGGGAGTAA.1 Smooth_muscle_cells:vascular 0.13 71.18
Raw ScoresSmooth_muscle_cells:vascular: 0.33, Fibroblasts:breast: 0.33, Smooth_muscle_cells:vascular:IL-17: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, iPS_cells:adipose_stem_cells: 0.32, Smooth_muscle_cells:bronchial: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC: 0.32
T19_TCTATTGTCAGTTTGG.1 Endothelial_cells:HUVEC:IFNg 0.06 71.12
Raw ScoresSmooth_muscle_cells:bronchial: 0.32, iPS_cells:adipose_stem_cells: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Fibroblasts:breast: 0.31, Fibroblasts:foreskin: 0.31, Osteoblasts: 0.31, Chondrocytes:MSC-derived: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Tissue_stem_cells:iliac_MSC: 0.3
T19_CACCACTAGGGTGTTG.1 Smooth_muscle_cells:bronchial 0.11 69.87
Raw ScoresSmooth_muscle_cells:bronchial: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32, iPS_cells:adipose_stem_cells: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Chondrocytes:MSC-derived: 0.3, Fibroblasts:breast: 0.3, Osteoblasts: 0.3, iPS_cells:CRL2097_foreskin: 0.3, Tissue_stem_cells:iliac_MSC: 0.29
T230_TGTCCTGCATAGCTGT-1 Neurons:adrenal_medulla_cell_line 0.17 69.55
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.31, Neurons:ES_cell-derived_neural_precursor: 0.31, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.31, Embryonic_stem_cells: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31
T19_ACCGTAATCGGCGCTA.1 Smooth_muscle_cells:bronchial 0.13 68.60
Raw ScoresSmooth_muscle_cells:bronchial: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Fibroblasts:breast: 0.3, Osteoblasts: 0.3, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3, Chondrocytes:MSC-derived: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, iPS_cells:CRL2097_foreskin: 0.29, iPS_cells:fibroblasts: 0.29
T69_GTATCTTGTTGGAGGT.1 Smooth_muscle_cells:bronchial:vit_D 0.11 66.78
Raw ScoresSmooth_muscle_cells:vascular:IL-17: 0.34, Smooth_muscle_cells:vascular: 0.34, Fibroblasts:breast: 0.34, Chondrocytes:MSC-derived: 0.34, Tissue_stem_cells:BM_MSC: 0.33, iPS_cells:skin_fibroblast: 0.33, Fibroblasts:foreskin: 0.33, MSC: 0.33, Osteoblasts: 0.33, iPS_cells:foreskin_fibrobasts: 0.33
T69_GGCAATTTCGTTACGA.1 Smooth_muscle_cells:vascular:IL-17 0.17 66.60
Raw ScoresSmooth_muscle_cells:vascular:IL-17: 0.34, Smooth_muscle_cells:vascular: 0.33, Fibroblasts:breast: 0.33, Tissue_stem_cells:BM_MSC: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.32, iPS_cells:adipose_stem_cells: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Chondrocytes:MSC-derived: 0.32, Fibroblasts:foreskin: 0.31, Tissue_stem_cells:BM_MSC:osteogenic: 0.31
T69_CCCTCCTCACGGCTAC.1 Smooth_muscle_cells:vascular:IL-17 0.07 64.86
Raw ScoresSmooth_muscle_cells:vascular: 0.26, Smooth_muscle_cells:vascular:IL-17: 0.25, Smooth_muscle_cells:bronchial: 0.25, Smooth_muscle_cells:bronchial:vit_D: 0.25, Fibroblasts:breast: 0.25, Tissue_stem_cells:iliac_MSC: 0.25, iPS_cells:adipose_stem_cells: 0.24, Tissue_stem_cells:BM_MSC:BMP2: 0.24, Tissue_stem_cells:BM_MSC:TGFb3: 0.24, Tissue_stem_cells:BM_MSC: 0.24
T19_AGTGGGAAGTCGCCGT.1 Tissue_stem_cells:BM_MSC:TGFb3 0.12 63.74
Raw ScoresSmooth_muscle_cells:bronchial: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Fibroblasts:breast: 0.3, Smooth_muscle_cells:bronchial:vit_D: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Chondrocytes:MSC-derived: 0.3, Osteoblasts: 0.3, Tissue_stem_cells:iliac_MSC: 0.3, iPS_cells:adipose_stem_cells: 0.3, Smooth_muscle_cells:vascular: 0.29
T19_TACGGTAAGCCTATGT.1 Neurons:Schwann_cell 0.11 63.60
Raw ScoresFibroblasts:breast: 0.35, iPS_cells:adipose_stem_cells: 0.34, Smooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:iliac_MSC: 0.33, Smooth_muscle_cells:vascular: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32
T19_GGGCATCTCAAGAAGT.1 Chondrocytes:MSC-derived 0.14 62.86
Raw ScoresiPS_cells:adipose_stem_cells: 0.34, Fibroblasts:breast: 0.34, Chondrocytes:MSC-derived: 0.34, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Tissue_stem_cells:iliac_MSC: 0.32, iPS_cells:CRL2097_foreskin: 0.32
T200_CCCTGATAGAGAGCAA-1 Fibroblasts:breast 0.17 61.30
Raw ScoresFibroblasts:breast: 0.37, Tissue_stem_cells:BM_MSC:BMP2: 0.36, iPS_cells:adipose_stem_cells: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.36, iPS_cells:CRL2097_foreskin: 0.36, Osteoblasts: 0.35, Smooth_muscle_cells:bronchial: 0.35, MSC: 0.35, Chondrocytes:MSC-derived: 0.35, Tissue_stem_cells:BM_MSC: 0.35
T19_ATCCGAAGTGTGGTTT.1 Fibroblasts:breast 0.15 59.51
Raw ScoresiPS_cells:adipose_stem_cells: 0.36, Fibroblasts:breast: 0.36, Osteoblasts: 0.36, Smooth_muscle_cells:bronchial: 0.36, Chondrocytes:MSC-derived: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Tissue_stem_cells:iliac_MSC: 0.34, iPS_cells:CRL2097_foreskin: 0.34


Below shows the significant enrichments of this GEP for literature curated gene lists
   This data was procured from existing single cell RNA-seq maps of neuroblastoma or related relevant data.
  High ranks indicate this gene is a driver of this GEP.
  These curated gene list are ranked by the P-value (on this GEP) of their constituent genes.
  The Mean Count column shows the mean read count in cells scoring highly (H > 50) on this gene expression program.


Inflammatory CAF
These marker genes were curated across cancer subtypes in multiple organ systems as reviewed in Lavie et. al. (PMID 35883004) and contain inflammatory specific CAF genes:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.61e-11
Mean rank of genes in gene set: 1523.44
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
IGFBP6 0.0209681 10 GTEx DepMap Descartes 10.14 2935.42
CFD 0.0165407 13 GTEx DepMap Descartes 11.02 4586.45
C7 0.0156928 16 GTEx DepMap Descartes 1.59 106.00
C3 0.0128638 25 GTEx DepMap Descartes 3.08 186.29
CXCL14 0.0110899 34 GTEx DepMap Descartes 1.12 217.80
SERPING1 0.0106009 38 GTEx DepMap Descartes 4.08 597.18
SCARA5 0.0075260 62 GTEx DepMap Descartes 0.20 19.18
IL33 0.0073966 63 GTEx DepMap Descartes 0.31 39.04
IGF1 0.0069915 67 GTEx DepMap Descartes 1.91 84.29
GPX3 0.0052846 96 GTEx DepMap Descartes 1.39 280.11
IL1R1 0.0036016 149 GTEx DepMap Descartes 0.45 23.07
PDGFD 0.0022314 265 GTEx DepMap Descartes 0.14 8.43
CFB 0.0019582 308 GTEx DepMap Descartes 0.17 11.30
CXCL12 0.0013132 445 GTEx DepMap Descartes 2.00 174.81
PDPN 0.0008911 624 GTEx DepMap Descartes 0.34 25.93
RGMA 0.0007434 753 GTEx DepMap Descartes 0.14 3.39
PDGFRA 0.0006334 894 GTEx DepMap Descartes 0.53 23.75
CXCL2 0.0005605 1007 GTEx DepMap Descartes 3.36 535.64
SOD2 0.0005487 1030 GTEx DepMap Descartes 1.81 19.57
SCARA3 0.0003579 1478 GTEx DepMap Descartes 0.05 3.58
CCL2 0.0001937 2190 GTEx DepMap Descartes 6.38 1781.48
PDGFRB 0.0000984 2901 GTEx DepMap Descartes 0.67 36.08
HGF -0.0000685 6000 GTEx DepMap Descartes 0.14 4.92
IL10 -0.0001378 8100 GTEx DepMap Descartes 0.03 3.57
LIF -0.0003044 11518 GTEx DepMap Descartes 0.08 6.10


Myofibroblastic CAF
These marker genes were curated across cancer subtypes in multiple organ systems as reviewed in Lavie et. al. (PMID 35883004) and contain myofibroblastic specific CAF genes:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.36e-10
Mean rank of genes in gene set: 3013.94
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
DCN 0.0275596 6 GTEx DepMap Descartes 30.11 1581.50
COL12A1 0.0048163 110 GTEx DepMap Descartes 0.14 4.69
MMP2 0.0044369 119 GTEx DepMap Descartes 2.11 176.12
TAGLN 0.0043070 121 GTEx DepMap Descartes 10.84 858.23
COL8A1 0.0036624 147 GTEx DepMap Descartes 0.75 29.73
COL14A1 0.0032419 171 GTEx DepMap Descartes 0.48 23.56
COL1A2 0.0029881 187 GTEx DepMap Descartes 7.55 393.42
LUM 0.0023434 245 GTEx DepMap Descartes 12.62 1705.05
BGN 0.0022929 255 GTEx DepMap Descartes 2.66 301.79
IGFBP3 0.0021546 274 GTEx DepMap Descartes 1.09 115.61
IGFBP7 0.0020537 285 GTEx DepMap Descartes 51.75 11064.04
MYL9 0.0019478 311 GTEx DepMap Descartes 4.09 386.87
TGFBR2 0.0018284 332 GTEx DepMap Descartes 0.88 41.19
THBS1 0.0016323 369 GTEx DepMap Descartes 2.20 74.86
CNN3 0.0014985 390 GTEx DepMap Descartes 2.27 321.82
COL3A1 0.0014447 403 GTEx DepMap Descartes 6.61 366.75
POSTN 0.0013659 430 GTEx DepMap Descartes 1.09 109.43
MYH11 0.0011439 502 GTEx DepMap Descartes 0.59 21.28
WNT5A 0.0010106 563 GTEx DepMap Descartes 0.06 2.93
THY1 0.0009537 592 GTEx DepMap Descartes 1.55 98.30
TPM2 0.0007256 769 GTEx DepMap Descartes 3.20 467.87
MYLK 0.0006844 836 GTEx DepMap Descartes 0.61 12.45
THBS2 0.0006055 944 GTEx DepMap Descartes 0.48 26.00
COL1A1 0.0005916 960 GTEx DepMap Descartes 9.50 450.92
MMP11 0.0005535 1017 GTEx DepMap Descartes 0.70 38.74
ITGA7 0.0005283 1067 GTEx DepMap Descartes 0.05 3.11
VCAN 0.0005126 1097 GTEx DepMap Descartes 1.27 29.71
TMEM119 0.0004953 1129 GTEx DepMap Descartes 0.12 13.10
TNC 0.0003685 1446 GTEx DepMap Descartes 0.02 0.57
COL5A2 0.0002901 1721 GTEx DepMap Descartes 0.39 14.24
ACTA2 0.0002791 1756 GTEx DepMap Descartes 3.48 679.27
PGF 0.0002052 2121 GTEx DepMap Descartes 0.80 67.59
TPM1 0.0002007 2147 GTEx DepMap Descartes 4.09 256.42
CNN2 0.0001640 2369 GTEx DepMap Descartes 0.48 52.29
VEGFA 0.0001242 2665 GTEx DepMap Descartes 0.25 6.81
TGFBR1 0.0000691 3187 GTEx DepMap Descartes 0.22 7.15
COL13A1 0.0000353 3576 GTEx DepMap Descartes 0.00 0.00
COL10A1 -0.0000144 4467 GTEx DepMap Descartes 0.00 0.00
MEF2C -0.0000716 6091 GTEx DepMap Descartes 0.59 18.12
COL11A1 -0.0001096 7241 GTEx DepMap Descartes 0.00 0.00
COL15A1 -0.0001326 7943 GTEx DepMap Descartes 0.75 33.56
TGFB2 -0.0001566 8628 GTEx DepMap Descartes 0.03 0.56
HOPX -0.0001708 9036 GTEx DepMap Descartes 0.11 10.22
TGFB1 -0.0002498 10811 GTEx DepMap Descartes 0.58 32.96
ACTG2 -0.0002631 11018 GTEx DepMap Descartes 0.12 12.30
FN1 -0.0002953 11419 GTEx DepMap Descartes 4.98 126.89
RGS5 -0.0003990 12095 GTEx DepMap Descartes 1.23 72.19
COL5A1 -0.0004061 12124 GTEx DepMap Descartes 0.52 14.82
COL4A1 -0.0004227 12191 GTEx DepMap Descartes 1.64 59.12


Mesenchymal Fig 1D (Olsen)
Selected mesenchymal marker genes shown in Fig. 1D of Olsen et al. https://www.biorxiv.org/content/10.1101/2020.05.04.077057v1 - these are highly expressed in their mesenchymal cluster on their UMAP.:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.75e-09
Mean rank of genes in gene set: 343.69
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
DCN 0.0275596 6 GTEx DepMap Descartes 30.11 1581.50
MGP 0.0246255 7 GTEx DepMap Descartes 39.44 7383.72
LEPR 0.0078675 58 GTEx DepMap Descartes 0.36 14.20
PRRX1 0.0045333 117 GTEx DepMap Descartes 0.52 43.35
CALD1 0.0041421 123 GTEx DepMap Descartes 7.28 386.96
COL6A2 0.0034929 156 GTEx DepMap Descartes 3.41 310.27
COL1A2 0.0029881 187 GTEx DepMap Descartes 7.55 393.42
LUM 0.0023434 245 GTEx DepMap Descartes 12.62 1705.05
BGN 0.0022929 255 GTEx DepMap Descartes 2.66 301.79
COL3A1 0.0014447 403 GTEx DepMap Descartes 6.61 366.75
PDGFRA 0.0006334 894 GTEx DepMap Descartes 0.53 23.75
COL1A1 0.0005916 960 GTEx DepMap Descartes 9.50 450.92
SPARC 0.0005350 1057 GTEx DepMap Descartes 7.81 485.89




Below shows ranks on this GEP for literature curated gene lists for large gene sets
  These include those reported as mesenchymal/adrenergic by Van Groningen et al.
  High ranks indicate this gene is a driver of this GEP (note these results are not ordered).
  The Mean Count column shows the mean read count in cells scoring highly (H > 50) on this gene expression program.


VanGroningen Adrenergic Genes
Adrenergic marker genes from Supplementary Table 2 of Van Groningen et al. Nature Genetics 2017. These genes were identified by differential expression analysis of mesenchymal-like and adrenergic-like neuroblastoma cell lines.
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.00e+00
Mean rank of genes in gene set: 9625.5
Median rank of genes in gene set: 10876
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
AKAP12 0.0023980 238 GTEx DepMap Descartes 1.55 63.12
ABLIM1 0.0013187 441 GTEx DepMap Descartes 0.48 16.33
SLC35G2 0.0007995 691 GTEx DepMap Descartes 0.14 NA
NFIL3 0.0007378 759 GTEx DepMap Descartes 0.27 33.46
SYNPO2 0.0006951 823 GTEx DepMap Descartes 0.48 9.40
GRB10 0.0004399 1255 GTEx DepMap Descartes 0.14 4.67
CDKN2C 0.0003782 1405 GTEx DepMap Descartes 0.19 22.57
CETN3 0.0003591 1474 GTEx DepMap Descartes 0.19 23.16
CYGB 0.0002815 1751 GTEx DepMap Descartes 0.62 109.74
INO80C 0.0002773 1764 GTEx DepMap Descartes 0.20 12.35
TUBB4B 0.0002301 1981 GTEx DepMap Descartes 1.38 179.73
NAP1L5 0.0002045 2127 GTEx DepMap Descartes 0.14 18.90
EML6 0.0001995 2155 GTEx DepMap Descartes 0.02 1.07
SETD7 0.0001704 2320 GTEx DepMap Descartes 0.14 4.87
FAM163A 0.0001647 2364 GTEx DepMap Descartes 0.03 4.44
NET1 0.0001510 2467 GTEx DepMap Descartes 0.25 16.12
KLC1 0.0001510 2468 GTEx DepMap Descartes 0.42 5.98
DPYSL3 0.0001482 2480 GTEx DepMap Descartes 0.45 19.62
ZWILCH 0.0001185 2714 GTEx DepMap Descartes 0.09 9.21
RNF144A 0.0001122 2767 GTEx DepMap Descartes 0.12 5.57
SLIT3 0.0001023 2849 GTEx DepMap Descartes 0.92 23.77
ACVR1B 0.0001002 2875 GTEx DepMap Descartes 0.09 3.97
ARL6IP1 0.0000671 3214 GTEx DepMap Descartes 1.06 109.44
ADCYAP1R1 0.0000620 3269 GTEx DepMap Descartes 0.02 0.08
IGFBPL1 0.0000396 3531 GTEx DepMap Descartes 0.00 0.00
UNC79 0.0000255 3713 GTEx DepMap Descartes 0.02 0.24
RNF150 0.0000091 3978 GTEx DepMap Descartes 0.17 3.56
BEND4 -0.0000063 4239 GTEx DepMap Descartes 0.00 0.00
DAPK1 -0.0000073 4268 GTEx DepMap Descartes 0.48 14.35
MCM6 -0.0000133 4439 GTEx DepMap Descartes 0.05 2.60


VanGroningen Mesenchymal Genes
Mesenchymal marker genes from Supplementary Table 2 of Van Groningen et al. Nature Genetics 2017. These genes were identified by differential expression analysis of mesenchymal-like and adrenergic-like neuroblastoma cell lines.
Wilcoxon ranksum test P-value for gene set overrepresentation: 4.17e-68
Mean rank of genes in gene set: 3305.63
Median rank of genes in gene set: 1528
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
MGP 0.0246255 7 GTEx DepMap Descartes 39.44 7383.72
CCDC80 0.0241432 8 GTEx DepMap Descartes 5.75 148.47
IGFBP6 0.0209681 10 GTEx DepMap Descartes 10.14 2935.42
BOC 0.0170424 11 GTEx DepMap Descartes 0.28 14.58
GAS1 0.0162166 15 GTEx DepMap Descartes 1.00 82.74
MGST1 0.0138307 20 GTEx DepMap Descartes 1.47 192.78
FIBIN 0.0127353 26 GTEx DepMap Descartes 0.14 15.40
GSN 0.0121915 27 GTEx DepMap Descartes 17.66 955.42
EMP1 0.0117605 30 GTEx DepMap Descartes 1.88 83.64
CYBRD1 0.0092537 48 GTEx DepMap Descartes 0.83 57.60
AEBP1 0.0090017 52 GTEx DepMap Descartes 1.75 129.76
HES1 0.0085200 54 GTEx DepMap Descartes 2.81 428.82
FMOD 0.0080324 57 GTEx DepMap Descartes 0.20 18.51
IGFBP5 0.0072011 66 GTEx DepMap Descartes 13.00 728.85
NFIA 0.0069657 68 GTEx DepMap Descartes 1.12 6.62
SEMA3C 0.0065405 76 GTEx DepMap Descartes 0.38 24.48
FSTL1 0.0060731 82 GTEx DepMap Descartes 2.62 147.21
ID3 0.0054444 91 GTEx DepMap Descartes 6.00 1905.73
LTBP1 0.0054337 92 GTEx DepMap Descartes 0.48 23.05
FZD1 0.0052666 97 GTEx DepMap Descartes 0.23 11.62
PCOLCE2 0.0052351 101 GTEx DepMap Descartes 0.31 64.85
HTRA1 0.0051162 102 GTEx DepMap Descartes 1.77 192.01
SRPX 0.0049904 105 GTEx DepMap Descartes 1.66 376.76
ID1 0.0048631 108 GTEx DepMap Descartes 2.61 454.52
COL12A1 0.0048163 110 GTEx DepMap Descartes 0.14 4.69
PPIC 0.0046102 114 GTEx DepMap Descartes 0.95 210.16
PHLDA3 0.0045425 116 GTEx DepMap Descartes 0.66 74.71
PRRX1 0.0045333 117 GTEx DepMap Descartes 0.52 43.35
MMP2 0.0044369 119 GTEx DepMap Descartes 2.11 176.12
ERRFI1 0.0042511 122 GTEx DepMap Descartes 0.58 64.97


Descartes adrenocortical markers
Top 50 marker genes of adrenocortical cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/adrenocortical/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 8.57e-01
Mean rank of genes in gene set: 6917.03
Median rank of genes in gene set: 7239
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
CLU 0.0108443 36 GTEx DepMap Descartes 4.30 520.17
SH3BP5 0.0018039 337 GTEx DepMap Descartes 0.80 71.02
POR 0.0001379 2563 GTEx DepMap Descartes 0.33 29.02
SH3PXD2B 0.0001317 2597 GTEx DepMap Descartes 0.08 1.10
DHCR7 0.0000764 3109 GTEx DepMap Descartes 0.05 7.91
DHCR24 0.0000762 3110 GTEx DepMap Descartes 0.16 5.64
SCARB1 0.0000624 3261 GTEx DepMap Descartes 0.19 5.36
PDE10A -0.0000022 4174 GTEx DepMap Descartes 0.08 2.43
FDX1 -0.0000115 4377 GTEx DepMap Descartes 0.33 18.90
ERN1 -0.0000232 4704 GTEx DepMap Descartes 0.12 4.06
IGF1R -0.0000576 5703 GTEx DepMap Descartes 0.17 4.38
SGCZ -0.0000582 5713 GTEx DepMap Descartes 0.00 0.00
CYB5B -0.0000584 5720 GTEx DepMap Descartes 0.22 11.42
SLC1A2 -0.0000678 5989 GTEx DepMap Descartes 0.02 0.64
BAIAP2L1 -0.0000719 6099 GTEx DepMap Descartes 0.02 0.49
GSTA4 -0.0000735 6153 GTEx DepMap Descartes 0.47 73.36
INHA -0.0000993 6935 GTEx DepMap Descartes 0.00 0.00
FREM2 -0.0001082 7201 GTEx DepMap Descartes 0.00 0.00
FDPS -0.0001104 7277 GTEx DepMap Descartes 0.61 61.71
SCAP -0.0001155 7420 GTEx DepMap Descartes 0.11 6.03
FDXR -0.0001279 7811 GTEx DepMap Descartes 0.08 10.42
APOC1 -0.0001357 8033 GTEx DepMap Descartes 6.53 1020.35
LDLR -0.0001552 8583 GTEx DepMap Descartes 0.17 7.77
GRAMD1B -0.0001632 8821 GTEx DepMap Descartes 0.06 1.35
TM7SF2 -0.0001656 8888 GTEx DepMap Descartes 0.11 12.53
SLC16A9 -0.0001716 9051 GTEx DepMap Descartes 0.00 0.00
NPC1 -0.0001718 9061 GTEx DepMap Descartes 0.08 2.12
FRMD5 -0.0001804 9281 GTEx DepMap Descartes 0.00 0.00
PAPSS2 -0.0001897 9494 GTEx DepMap Descartes 0.12 5.07
HMGCS1 -0.0002402 10634 GTEx DepMap Descartes 0.19 7.43


Descartes chromaffin markers
Top 50 marker genes of chromaffin cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/chromaffin/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.00e+00
Mean rank of genes in gene set: 10271.27
Median rank of genes in gene set: 11755
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SYNPO2 0.0006951 823 GTEx DepMap Descartes 0.48 9.40
SLC44A5 0.0000478 3430 GTEx DepMap Descartes 0.02 1.38
ANKFN1 -0.0000401 5179 GTEx DepMap Descartes 0.02 2.46
EYA1 -0.0000402 5182 GTEx DepMap Descartes 0.03 1.82
EPHA6 -0.0001039 7068 GTEx DepMap Descartes 0.00 0.00
EYA4 -0.0001045 7091 GTEx DepMap Descartes 0.02 0.59
RPH3A -0.0001162 7440 GTEx DepMap Descartes 0.00 0.00
FAT3 -0.0001248 7703 GTEx DepMap Descartes 0.02 0.30
PTCHD1 -0.0001613 8766 GTEx DepMap Descartes 0.03 0.08
ALK -0.0001626 8805 GTEx DepMap Descartes 0.00 0.00
RYR2 -0.0001678 8956 GTEx DepMap Descartes 0.02 0.42
KCNB2 -0.0001910 9528 GTEx DepMap Descartes 0.00 0.00
PLXNA4 -0.0001923 9565 GTEx DepMap Descartes 0.03 0.48
CNKSR2 -0.0002196 10219 GTEx DepMap Descartes 0.02 0.25
TMEM132C -0.0002205 10243 GTEx DepMap Descartes 0.00 0.00
HS3ST5 -0.0002227 10297 GTEx DepMap Descartes 0.00 0.00
GREM1 -0.0002364 10555 GTEx DepMap Descartes 0.00 0.00
SLC6A2 -0.0002424 10666 GTEx DepMap Descartes 0.03 2.25
IL7 -0.0002620 11001 GTEx DepMap Descartes 0.05 7.66
RGMB -0.0003071 11546 GTEx DepMap Descartes 0.11 6.16
RBFOX1 -0.0003334 11755 GTEx DepMap Descartes 0.00 0.00
TMEFF2 -0.0003341 11761 GTEx DepMap Descartes 0.00 0.00
REEP1 -0.0003379 11799 GTEx DepMap Descartes 0.09 4.94
GAL -0.0003587 11922 GTEx DepMap Descartes 0.08 13.46
TUBB2A -0.0003856 12046 GTEx DepMap Descartes 0.50 87.84
CNTFR -0.0003873 12056 GTEx DepMap Descartes 0.06 6.77
MAB21L2 -0.0004010 12106 GTEx DepMap Descartes 0.16 8.35
ISL1 -0.0004107 12149 GTEx DepMap Descartes 0.31 24.12
MARCH11 -0.0004178 12171 GTEx DepMap Descartes 0.50 NA
MAB21L1 -0.0004312 12218 GTEx DepMap Descartes 0.14 10.36


Descartes Vascular_endothelial markers
Top 50 marker genes of Vascular_endothelial cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/vascular_endothelial/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.10e-01
Mean rank of genes in gene set: 5555.97
Median rank of genes in gene set: 6270.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
NPR1 0.0084148 56 GTEx DepMap Descartes 0.16 12.25
ID1 0.0048631 108 GTEx DepMap Descartes 2.61 454.52
GALNT15 0.0009061 615 GTEx DepMap Descartes 0.03 NA
CDH13 0.0008375 667 GTEx DepMap Descartes 0.19 5.62
SHE 0.0005900 965 GTEx DepMap Descartes 0.09 3.47
ARHGAP29 0.0005739 986 GTEx DepMap Descartes 0.69 16.84
RAMP2 0.0003999 1356 GTEx DepMap Descartes 1.72 342.28
PTPRB 0.0003575 1481 GTEx DepMap Descartes 0.44 3.56
CALCRL 0.0002904 1718 GTEx DepMap Descartes 0.20 7.16
MMRN2 0.0001826 2250 GTEx DepMap Descartes 0.22 7.79
TEK 0.0001554 2436 GTEx DepMap Descartes 0.09 3.06
PODXL 0.0001168 2725 GTEx DepMap Descartes 0.45 7.22
CDH5 0.0000998 2882 GTEx DepMap Descartes 0.47 13.62
BTNL9 0.0000735 3144 GTEx DepMap Descartes 0.05 1.72
SLCO2A1 0.0000250 3718 GTEx DepMap Descartes 0.02 0.58
TMEM88 0.0000230 3748 GTEx DepMap Descartes 0.11 11.39
ESM1 -0.0000077 4282 GTEx DepMap Descartes 0.61 17.57
MYRIP -0.0000269 4807 GTEx DepMap Descartes 0.03 0.87
CRHBP -0.0000624 5847 GTEx DepMap Descartes 0.02 0.70
IRX3 -0.0000919 6694 GTEx DepMap Descartes 0.00 0.00
TIE1 -0.0001065 7155 GTEx DepMap Descartes 0.14 5.14
F8 -0.0001180 7491 GTEx DepMap Descartes 0.05 1.97
PLVAP -0.0001235 7653 GTEx DepMap Descartes 0.66 23.14
RASIP1 -0.0001293 7842 GTEx DepMap Descartes 0.09 3.62
HYAL2 -0.0001320 7919 GTEx DepMap Descartes 0.47 25.11
SHANK3 -0.0001324 7935 GTEx DepMap Descartes 0.03 0.23
NR5A2 -0.0001458 8314 GTEx DepMap Descartes 0.00 0.00
CEACAM1 -0.0001497 8425 GTEx DepMap Descartes 0.00 0.00
EHD3 -0.0001539 8551 GTEx DepMap Descartes 0.03 1.36
CYP26B1 -0.0001555 8596 GTEx DepMap Descartes 0.05 2.99


Descartes stromal markers
Top 50 marker genes of stromal cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/stromal/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 5.88e-19
Mean rank of genes in gene set: 1468.05
Median rank of genes in gene set: 325
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SFRP2 0.0363968 1 GTEx DepMap Descartes 2.00 498.51
RSPO3 0.0279529 4 GTEx DepMap Descartes 0.62 NA
DCN 0.0275596 6 GTEx DepMap Descartes 30.11 1581.50
MGP 0.0246255 7 GTEx DepMap Descartes 39.44 7383.72
CCDC80 0.0241432 8 GTEx DepMap Descartes 5.75 148.47
C7 0.0156928 16 GTEx DepMap Descartes 1.59 106.00
OGN 0.0151548 17 GTEx DepMap Descartes 1.92 172.35
SCARA5 0.0075260 62 GTEx DepMap Descartes 0.20 19.18
ISLR 0.0065964 74 GTEx DepMap Descartes 0.73 108.95
DKK2 0.0059883 84 GTEx DepMap Descartes 0.09 8.43
BICC1 0.0055509 89 GTEx DepMap Descartes 0.59 31.07
ADAMTSL3 0.0048524 109 GTEx DepMap Descartes 0.05 2.69
COL12A1 0.0048163 110 GTEx DepMap Descartes 0.14 4.69
PRRX1 0.0045333 117 GTEx DepMap Descartes 0.52 43.35
PCOLCE 0.0039269 140 GTEx DepMap Descartes 2.89 676.82
COL1A2 0.0029881 187 GTEx DepMap Descartes 7.55 393.42
ELN 0.0026374 212 GTEx DepMap Descartes 0.94 67.63
CD248 0.0026168 214 GTEx DepMap Descartes 0.36 49.03
LUM 0.0023434 245 GTEx DepMap Descartes 12.62 1705.05
IGFBP3 0.0021546 274 GTEx DepMap Descartes 1.09 115.61
CLDN11 0.0020696 282 GTEx DepMap Descartes 0.19 16.51
LRRC17 0.0018949 317 GTEx DepMap Descartes 0.14 26.21
PAMR1 0.0018217 333 GTEx DepMap Descartes 0.36 42.23
COL3A1 0.0014447 403 GTEx DepMap Descartes 6.61 366.75
POSTN 0.0013659 430 GTEx DepMap Descartes 1.09 109.43
PCDH18 0.0013049 450 GTEx DepMap Descartes 0.16 7.19
LOX 0.0011686 489 GTEx DepMap Descartes 0.48 25.49
ABCC9 0.0011168 512 GTEx DepMap Descartes 0.02 0.95
ABCA6 0.0007227 774 GTEx DepMap Descartes 0.50 24.38
PDGFRA 0.0006334 894 GTEx DepMap Descartes 0.53 23.75


Descartes sympathoblasts markers
Top 50 marker genes of sympathoblasts cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/sympathoblasts/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 9.97e-01
Mean rank of genes in gene set: 7897.16
Median rank of genes in gene set: 8256.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GRM7 0.0004505 1227 GTEx DepMap Descartes 0.00 0.00
MGAT4C 0.0002948 1705 GTEx DepMap Descartes 0.03 0.67
EML6 0.0001995 2155 GTEx DepMap Descartes 0.02 1.07
ST18 0.0001426 2514 GTEx DepMap Descartes 0.00 0.00
GCH1 -0.0000196 4611 GTEx DepMap Descartes 0.11 8.30
DGKK -0.0000197 4617 GTEx DepMap Descartes 0.00 0.00
LAMA3 -0.0000240 4726 GTEx DepMap Descartes 0.00 0.00
TENM1 -0.0000445 5325 GTEx DepMap Descartes 0.05 NA
TBX20 -0.0000613 5809 GTEx DepMap Descartes 0.00 0.00
CDH12 -0.0000759 6243 GTEx DepMap Descartes 0.00 0.00
SORCS3 -0.0000778 6302 GTEx DepMap Descartes 0.00 0.00
SLC24A2 -0.0000827 6439 GTEx DepMap Descartes 0.00 0.00
CNTN3 -0.0000864 6541 GTEx DepMap Descartes 0.00 0.00
SLC35F3 -0.0000923 6711 GTEx DepMap Descartes 0.00 0.00
CCSER1 -0.0000925 6719 GTEx DepMap Descartes 0.02 NA
PCSK2 -0.0000968 6849 GTEx DepMap Descartes 0.02 0.47
CDH18 -0.0001091 7228 GTEx DepMap Descartes 0.00 0.00
SPOCK3 -0.0001320 7920 GTEx DepMap Descartes 0.03 2.96
KSR2 -0.0001433 8246 GTEx DepMap Descartes 0.02 0.03
FGF14 -0.0001442 8267 GTEx DepMap Descartes 0.00 0.00
FAM155A -0.0001454 8306 GTEx DepMap Descartes 0.11 0.94
GRID2 -0.0001463 8326 GTEx DepMap Descartes 0.00 0.00
AGBL4 -0.0001485 8386 GTEx DepMap Descartes 0.00 0.00
GALNTL6 -0.0001515 8478 GTEx DepMap Descartes 0.00 0.00
NTNG1 -0.0001752 9151 GTEx DepMap Descartes 0.00 0.00
PACRG -0.0001890 9467 GTEx DepMap Descartes 0.00 0.00
SLC18A1 -0.0002003 9771 GTEx DepMap Descartes 0.02 1.91
UNC80 -0.0002062 9917 GTEx DepMap Descartes 0.00 0.00
ROBO1 -0.0002087 9978 GTEx DepMap Descartes 0.11 1.90
KCTD16 -0.0002720 11149 GTEx DepMap Descartes 0.16 1.32


Descartes erythroblasts markers
Top 50 marker genes of erythroblasts cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/erythroblasts/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 3.13e-01
Mean rank of genes in gene set: 5946.86
Median rank of genes in gene set: 6904
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SELENBP1 0.0040769 127 GTEx DepMap Descartes 0.30 35.77
MARCH3 0.0008772 637 GTEx DepMap Descartes 0.19 NA
BLVRB 0.0006466 884 GTEx DepMap Descartes 1.25 174.01
SLC25A37 0.0005049 1108 GTEx DepMap Descartes 0.38 23.03
CPOX 0.0003811 1400 GTEx DepMap Descartes 0.09 10.66
CAT 0.0001697 2324 GTEx DepMap Descartes 0.33 35.22
MICAL2 0.0001691 2329 GTEx DepMap Descartes 0.09 3.17
TRAK2 0.0001320 2595 GTEx DepMap Descartes 0.05 2.13
ALAS2 0.0001085 2797 GTEx DepMap Descartes 0.00 0.00
GYPC 0.0000670 3216 GTEx DepMap Descartes 1.03 126.54
ABCB10 0.0000273 3692 GTEx DepMap Descartes 0.08 3.80
SLC4A1 0.0000010 4120 GTEx DepMap Descartes 0.00 0.00
RHD -0.0000088 4307 GTEx DepMap Descartes 0.00 0.00
DENND4A -0.0000213 4654 GTEx DepMap Descartes 0.11 2.16
SLC25A21 -0.0000985 6904 GTEx DepMap Descartes 0.00 0.00
XPO7 -0.0001071 7173 GTEx DepMap Descartes 0.03 0.93
RGS6 -0.0001191 7521 GTEx DepMap Descartes 0.02 1.02
TFR2 -0.0001213 7589 GTEx DepMap Descartes 0.00 0.00
SPECC1 -0.0001279 7810 GTEx DepMap Descartes 0.11 2.61
SPTB -0.0001415 8193 GTEx DepMap Descartes 0.00 0.00
TMCC2 -0.0001458 8313 GTEx DepMap Descartes 0.02 0.29
ANK1 -0.0001695 9000 GTEx DepMap Descartes 0.00 0.00
SNCA -0.0001919 9554 GTEx DepMap Descartes 0.30 13.56
GCLC -0.0001994 9745 GTEx DepMap Descartes 0.06 4.89
SOX6 -0.0002007 9786 GTEx DepMap Descartes 0.05 0.95
RAPGEF2 -0.0002679 11100 GTEx DepMap Descartes 0.09 2.57
EPB41 -0.0003119 11590 GTEx DepMap Descartes 0.03 0.97
FECH -0.0003163 11625 GTEx DepMap Descartes 0.02 0.84
TSPAN5 -0.0005113 12366 GTEx DepMap Descartes 0.30 14.42
NA NA NA NA NA NA NA NA


Descartes myeloid markers
Top 50 marker genes of myeloid cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/myeloid/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 4.22e-01
Mean rank of genes in gene set: 6159.47
Median rank of genes in gene set: 7289
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
CST3 0.0039737 133 GTEx DepMap Descartes 19.31 1717.63
AXL 0.0023925 240 GTEx DepMap Descartes 0.89 50.75
HRH1 0.0016394 368 GTEx DepMap Descartes 0.09 7.13
CTSC 0.0013973 418 GTEx DepMap Descartes 3.98 113.92
RGL1 0.0003937 1368 GTEx DepMap Descartes 0.25 16.77
SLC9A9 0.0003444 1520 GTEx DepMap Descartes 0.09 4.15
FGL2 0.0003300 1580 GTEx DepMap Descartes 0.88 26.08
ITPR2 0.0001814 2256 GTEx DepMap Descartes 0.38 3.90
WWP1 0.0001603 2393 GTEx DepMap Descartes 0.20 7.55
IFNGR1 0.0001515 2465 GTEx DepMap Descartes 0.59 47.27
ATP8B4 0.0001382 2560 GTEx DepMap Descartes 0.06 2.31
RBPJ 0.0000786 3091 GTEx DepMap Descartes 0.45 19.37
FGD2 0.0000087 3989 GTEx DepMap Descartes 0.08 3.21
CTSS 0.0000086 3994 GTEx DepMap Descartes 1.45 37.12
ADAP2 -0.0000005 4144 GTEx DepMap Descartes 0.19 12.54
CPVL -0.0000124 4416 GTEx DepMap Descartes 0.58 25.12
CD74 -0.0000188 4593 GTEx DepMap Descartes 11.38 580.64
CTSD -0.0000360 5072 GTEx DepMap Descartes 4.67 266.83
PTPRE -0.0001071 7174 GTEx DepMap Descartes 0.23 4.34
MERTK -0.0001150 7404 GTEx DepMap Descartes 0.25 4.57
SPP1 -0.0001179 7490 GTEx DepMap Descartes 0.19 26.62
MSR1 -0.0001193 7526 GTEx DepMap Descartes 0.14 3.45
SFMBT2 -0.0001361 8052 GTEx DepMap Descartes 0.03 0.62
LGMN -0.0001448 8288 GTEx DepMap Descartes 1.92 101.50
CTSB -0.0001523 8502 GTEx DepMap Descartes 3.44 115.76
CD14 -0.0001550 8579 GTEx DepMap Descartes 2.58 153.59
FMN1 -0.0001650 8872 GTEx DepMap Descartes 0.06 0.40
CSF1R -0.0001875 9441 GTEx DepMap Descartes 0.17 3.82
CYBB -0.0001876 9443 GTEx DepMap Descartes 0.45 8.98
MARCH1 -0.0001910 9529 GTEx DepMap Descartes 0.12 NA


Descartes Schwann markers
Top 50 marker genes of Schwann cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/schwann/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.18e-01
Mean rank of genes in gene set: 5850.52
Median rank of genes in gene set: 5936
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
EGFLAM 0.0017089 348 GTEx DepMap Descartes 0.28 10.65
SFRP1 0.0014644 399 GTEx DepMap Descartes 0.55 39.53
VIM 0.0011281 507 GTEx DepMap Descartes 19.64 1771.88
LAMA4 0.0010229 553 GTEx DepMap Descartes 1.23 33.38
ADAMTS5 0.0008798 635 GTEx DepMap Descartes 0.22 3.07
PMP22 0.0006155 922 GTEx DepMap Descartes 1.89 303.62
VCAN 0.0005126 1097 GTEx DepMap Descartes 1.27 29.71
GAS7 0.0004525 1222 GTEx DepMap Descartes 0.20 8.51
LAMC1 0.0004116 1327 GTEx DepMap Descartes 0.62 20.05
KCTD12 0.0003117 1646 GTEx DepMap Descartes 0.61 20.64
COL5A2 0.0002901 1721 GTEx DepMap Descartes 0.39 14.24
PLCE1 0.0001975 2172 GTEx DepMap Descartes 0.03 0.97
PLP1 0.0001319 2596 GTEx DepMap Descartes 0.19 21.11
SCN7A 0.0001156 2738 GTEx DepMap Descartes 0.28 11.49
PTN 0.0000802 3074 GTEx DepMap Descartes 0.30 51.27
HMGA2 0.0000712 3169 GTEx DepMap Descartes 0.00 0.00
OLFML2A 0.0000528 3379 GTEx DepMap Descartes 0.36 11.58
IL1RAPL2 0.0000298 3651 GTEx DepMap Descartes 0.00 0.00
IL1RAPL1 0.0000024 4098 GTEx DepMap Descartes 0.03 2.18
TRPM3 -0.0000362 5081 GTEx DepMap Descartes 0.02 0.09
MDGA2 -0.0000420 5239 GTEx DepMap Descartes 0.00 0.00
COL25A1 -0.0000609 5795 GTEx DepMap Descartes 0.00 0.00
LRRTM4 -0.0000712 6077 GTEx DepMap Descartes 0.03 3.12
STARD13 -0.0000748 6191 GTEx DepMap Descartes 0.16 7.16
ERBB4 -0.0000759 6240 GTEx DepMap Descartes 0.00 0.00
PTPRZ1 -0.0000858 6527 GTEx DepMap Descartes 0.00 0.00
GRIK3 -0.0001085 7208 GTEx DepMap Descartes 0.00 0.00
FIGN -0.0001136 7375 GTEx DepMap Descartes 0.03 0.63
SLC35F1 -0.0001278 7808 GTEx DepMap Descartes 0.02 0.73
XKR4 -0.0001535 8532 GTEx DepMap Descartes 0.00 0.00


Descartes Megakaryocytes markers
Top 50 marker genes of Megakaryocytes cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/megakaryocytes/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.16e-02
Mean rank of genes in gene set: 5051.82
Median rank of genes in gene set: 4113
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GSN 0.0121915 27 GTEx DepMap Descartes 17.66 955.42
LTBP1 0.0054337 92 GTEx DepMap Descartes 0.48 23.05
CD9 0.0022801 257 GTEx DepMap Descartes 1.61 210.91
SLC2A3 0.0018515 323 GTEx DepMap Descartes 1.22 80.94
THBS1 0.0016323 369 GTEx DepMap Descartes 2.20 74.86
ANGPT1 0.0009144 611 GTEx DepMap Descartes 0.11 8.28
STOM 0.0007981 692 GTEx DepMap Descartes 1.02 66.23
ACTN1 0.0006938 824 GTEx DepMap Descartes 0.67 33.56
MYLK 0.0006844 836 GTEx DepMap Descartes 0.61 12.45
ZYX 0.0006203 912 GTEx DepMap Descartes 0.53 66.06
ACTB 0.0005095 1103 GTEx DepMap Descartes 21.70 2445.52
MYH9 0.0004956 1128 GTEx DepMap Descartes 0.84 28.27
FLNA 0.0004394 1256 GTEx DepMap Descartes 1.27 35.96
ITGA2B 0.0003655 1454 GTEx DepMap Descartes 0.00 0.00
TPM4 0.0002876 1729 GTEx DepMap Descartes 2.58 130.11
VCL 0.0002840 1741 GTEx DepMap Descartes 0.50 19.19
MCTP1 0.0002624 1839 GTEx DepMap Descartes 0.19 6.33
MMRN1 0.0000965 2916 GTEx DepMap Descartes 0.22 10.47
RAP1B 0.0000920 2959 GTEx DepMap Descartes 0.91 15.31
PDE3A 0.0000915 2968 GTEx DepMap Descartes 0.14 4.78
STON2 0.0000683 3197 GTEx DepMap Descartes 0.03 1.49
TMSB4X 0.0000160 3860 GTEx DepMap Descartes 90.00 11041.89
GP1BA 0.0000016 4113 GTEx DepMap Descartes 0.00 0.00
P2RX1 -0.0000423 5250 GTEx DepMap Descartes 0.02 0.65
MED12L -0.0000654 5930 GTEx DepMap Descartes 0.03 1.04
ITGB3 -0.0000759 6242 GTEx DepMap Descartes 0.00 0.00
INPP4B -0.0000778 6301 GTEx DepMap Descartes 0.06 3.42
FLI1 -0.0001108 7289 GTEx DepMap Descartes 0.06 1.83
TLN1 -0.0001109 7290 GTEx DepMap Descartes 0.73 17.91
TRPC6 -0.0001134 7366 GTEx DepMap Descartes 0.00 0.00


Descartes Lyphoid markers
Top 50 marker genes of Lyphoid cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/lymphoid/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.00e+00
Mean rank of genes in gene set: 8350.74
Median rank of genes in gene set: 9453
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ABLIM1 0.0013187 441 GTEx DepMap Descartes 0.48 16.33
ARID5B 0.0013170 443 GTEx DepMap Descartes 1.28 50.01
NCALD 0.0010703 526 GTEx DepMap Descartes 0.11 13.07
SP100 0.0005911 962 GTEx DepMap Descartes 0.73 40.39
PLEKHA2 0.0002370 1945 GTEx DepMap Descartes 0.08 3.82
B2M 0.0002126 2075 GTEx DepMap Descartes 68.42 6084.43
MBNL1 0.0001004 2871 GTEx DepMap Descartes 0.56 19.86
SORL1 -0.0000212 4653 GTEx DepMap Descartes 0.16 4.39
MCTP2 -0.0000393 5151 GTEx DepMap Descartes 0.09 2.50
ARHGAP15 -0.0000568 5680 GTEx DepMap Descartes 0.17 20.22
FOXP1 -0.0000823 6428 GTEx DepMap Descartes 0.50 12.44
SAMD3 -0.0001132 7354 GTEx DepMap Descartes 0.02 1.30
CCL5 -0.0001326 7942 GTEx DepMap Descartes 0.12 15.77
ANKRD44 -0.0001340 7983 GTEx DepMap Descartes 0.08 2.48
WIPF1 -0.0001480 8375 GTEx DepMap Descartes 0.39 16.81
PITPNC1 -0.0001592 8712 GTEx DepMap Descartes 0.16 2.79
BACH2 -0.0001594 8717 GTEx DepMap Descartes 0.06 1.24
RCSD1 -0.0001616 8771 GTEx DepMap Descartes 0.11 4.05
PRKCH -0.0001735 9109 GTEx DepMap Descartes 0.09 1.70
PDE3B -0.0001760 9171 GTEx DepMap Descartes 0.05 0.79
CCND3 -0.0001859 9405 GTEx DepMap Descartes 0.28 31.68
SKAP1 -0.0001899 9501 GTEx DepMap Descartes 0.02 0.56
SCML4 -0.0002082 9961 GTEx DepMap Descartes 0.00 0.00
ITPKB -0.0002115 10045 GTEx DepMap Descartes 0.03 1.32
DOCK10 -0.0002174 10160 GTEx DepMap Descartes 0.09 3.78
IKZF1 -0.0002263 10365 GTEx DepMap Descartes 0.05 0.52
CELF2 -0.0002292 10423 GTEx DepMap Descartes 0.75 20.85
MSN -0.0002360 10546 GTEx DepMap Descartes 0.75 36.85
LEF1 -0.0002525 10863 GTEx DepMap Descartes 0.06 4.39
ETS1 -0.0002575 10935 GTEx DepMap Descartes 0.28 8.75


Below shows the ranks on this GEP for immune marker gene lists curated by CellTypist (https://www.celltypist.org/encyclopedia).
   High ranks indicate this gene is a driver of this GEP.
  These curated gene list are ranked by P-value (on this GEP) of their constituent genes.
  The Mean Count column shows the mean read count in cells scoring highly (H > 50) on this gene expression program.


Fibroblasts: Fibroblasts (model markers)
the most common cells of connective tissues which synthesize the extracellular matrix and collagen to maintain tissue homeostasis:
Wilcoxon ranksum test P-value for gene set overrepresentation: 6.03e-05
Mean rank of genes in gene set: 1633.44
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
ANGPTL1 0.0128715 24 GTEx DepMap Descartes 0.30 31.38
F10 0.0100318 42 GTEx DepMap Descartes 0.31 79.50
PRRX1 0.0045333 117 GTEx DepMap Descartes 0.52 43.35
OLFML1 0.0022344 263 GTEx DepMap Descartes 0.19 19.63
SMOC2 0.0021796 272 GTEx DepMap Descartes 1.09 107.72
NTRK2 0.0017479 343 GTEx DepMap Descartes 0.53 17.79
SFRP1 0.0014644 399 GTEx DepMap Descartes 0.55 39.53
PDGFRA 0.0006334 894 GTEx DepMap Descartes 0.53 23.75
EBF2 -0.0004905 12347 GTEx DepMap Descartes 0.27 17.86


Fibroblasts: Fibroblasts (curated markers)
the most common cells of connective tissues which synthesize the extracellular matrix and collagen to maintain tissue homeostasis:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.43e-03
Mean rank of genes in gene set: 384.33
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
DCN 0.0275596 6 GTEx DepMap Descartes 30.11 1581.50
COL1A2 0.0029881 187 GTEx DepMap Descartes 7.55 393.42
COL1A1 0.0005916 960 GTEx DepMap Descartes 9.50 450.92


DC: Transitional DC (curated markers)
immature dendritic cells which follow dendritic cell precursors and are committed to the mature dendritic cells:
Wilcoxon ranksum test P-value for gene set overrepresentation: 8.83e-03
Mean rank of genes in gene set: 197.5
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
KLF4 0.0035044 155 GTEx DepMap Descartes 1.33 120.38
AXL 0.0023925 240 GTEx DepMap Descartes 0.89 50.75