Program: 3. Cancer Associated Fibroblast: Myofibroblastic (IGF1+).

Program: 3. Cancer Associated Fibroblast: Myofibroblastic (IGF1+).

Program description and justification of annotation: 3.
Submit a comment on this gene expression program’s interpretation: CLICK

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 THBS1 0.0168432 thrombospondin 1 GTEx DepMap Descartes 1.73 816.02
2 SERPINE1 0.0162922 serpin family E member 1 GTEx DepMap Descartes 6.18 7025.02
3 FOSB 0.0143859 FosB proto-oncogene, AP-1 transcription factor subunit GTEx DepMap Descartes 1.40 1571.47
4 THBS2 0.0139843 thrombospondin 2 GTEx DepMap Descartes 1.07 664.87
5 COL8A1 0.0133032 collagen type VIII alpha 1 chain GTEx DepMap Descartes 0.80 429.63
6 ANXA1 0.0130613 annexin A1 GTEx DepMap Descartes 1.19 1911.66
7 IGF1 0.0127384 insulin like growth factor 1 GTEx DepMap Descartes 0.52 280.94
8 COL5A2 0.0124605 collagen type V alpha 2 chain GTEx DepMap Descartes 1.46 665.52
9 FAP 0.0118736 fibroblast activation protein alpha GTEx DepMap Descartes 0.58 702.87
10 FGF7 0.0116557 fibroblast growth factor 7 GTEx DepMap Descartes 0.33 223.12
11 IL1R1 0.0116421 interleukin 1 receptor type 1 GTEx DepMap Descartes 0.57 438.89
12 VCAN 0.0114270 versican GTEx DepMap Descartes 1.26 328.37
13 NR4A1 0.0114033 nuclear receptor subfamily 4 group A member 1 GTEx DepMap Descartes 1.15 984.51
14 ADAM12 0.0113491 ADAM metallopeptidase domain 12 GTEx DepMap Descartes 0.89 323.96
15 COL12A1 0.0109872 collagen type XII alpha 1 chain GTEx DepMap Descartes 0.54 138.89
16 ITGBL1 0.0109079 integrin subunit beta like 1 GTEx DepMap Descartes 0.54 376.52
17 CRISPLD2 0.0106638 cysteine rich secretory protein LCCL domain containing 2 GTEx DepMap Descartes 0.57 476.64
18 EMP1 0.0102362 epithelial membrane protein 1 GTEx DepMap Descartes 0.89 572.62
19 NR4A3 0.0095350 nuclear receptor subfamily 4 group A member 3 GTEx DepMap Descartes 0.31 224.98
20 ATP10A 0.0091303 ATPase phospholipid transporting 10A (putative) GTEx DepMap Descartes 0.35 168.52
21 COL14A1 0.0091133 collagen type XIV alpha 1 chain GTEx DepMap Descartes 0.38 171.34
22 MEDAG 0.0089254 mesenteric estrogen dependent adipogenesis GTEx DepMap Descartes 0.21 NA
23 MYOF 0.0088402 myoferlin GTEx DepMap Descartes 0.43 197.97
24 LMCD1 0.0086581 LIM and cysteine rich domains 1 GTEx DepMap Descartes 0.34 137.66
25 PLOD2 0.0086185 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 GTEx DepMap Descartes 0.46 385.65
26 GLIS3 0.0086090 GLIS family zinc finger 3 GTEx DepMap Descartes 0.92 409.34
27 NFATC2 0.0085361 nuclear factor of activated T cells 2 GTEx DepMap Descartes 0.71 281.21
28 COL3A1 0.0083839 collagen type III alpha 1 chain GTEx DepMap Descartes 3.01 1612.77
29 AEBP1 0.0082526 AE binding protein 1 GTEx DepMap Descartes 1.56 1518.95
30 CNN1 0.0081424 calponin 1 GTEx DepMap Descartes 0.19 325.10
31 OSMR 0.0080611 oncostatin M receptor GTEx DepMap Descartes 0.31 179.48
32 TIMP1 0.0079781 TIMP metallopeptidase inhibitor 1 GTEx DepMap Descartes 2.25 7429.49
33 IFITM10 0.0079239 interferon induced transmembrane protein 10 GTEx DepMap Descartes 0.18 210.10
34 GPRC5A 0.0078836 G protein-coupled receptor class C group 5 member A GTEx DepMap Descartes 0.19 91.36
35 CALD1 0.0078469 caldesmon 1 GTEx DepMap Descartes 2.31 1398.36
36 COMP 0.0078245 cartilage oligomeric matrix protein GTEx DepMap Descartes 0.94 1211.97
37 DUSP1 0.0077226 dual specificity phosphatase 1 GTEx DepMap Descartes 1.20 2266.34
38 GADD45B 0.0076873 growth arrest and DNA damage inducible beta GTEx DepMap Descartes 0.44 958.11
39 GFPT2 0.0076852 glutamine-fructose-6-phosphate transaminase 2 GTEx DepMap Descartes 0.31 417.92
40 NTM 0.0076824 neurotrimin GTEx DepMap Descartes 0.54 471.44
41 MMP19 0.0076343 matrix metallopeptidase 19 GTEx DepMap Descartes 0.33 340.14
42 INHBA 0.0075904 inhibin subunit beta A GTEx DepMap Descartes 0.23 156.28
43 PRKG1 0.0074105 protein kinase cGMP-dependent 1 GTEx DepMap Descartes 1.32 505.15
44 COL5A1 0.0073162 collagen type V alpha 1 chain GTEx DepMap Descartes 0.74 286.41
45 PARD3B 0.0072839 par-3 family cell polarity regulator beta GTEx DepMap Descartes 0.74 265.11
46 MYL9 0.0071514 myosin light chain 9 GTEx DepMap Descartes 0.35 419.11
47 PLAU 0.0070691 plasminogen activator, urokinase GTEx DepMap Descartes 0.34 514.83
48 IGFBP7 0.0070574 insulin like growth factor binding protein 7 GTEx DepMap Descartes 1.48 2839.58
49 ZFP36 0.0070450 ZFP36 ring finger protein GTEx DepMap Descartes 0.68 1388.99
50 CDH11 0.0070042 cadherin 11 GTEx DepMap Descartes 0.59 258.81


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UMAP plots showing activity of gene expression program identified in community:3. Cancer Associated Fibroblast: Myofibroblastic (IGF1+)

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
DESCARTES_FETAL_EYE_STROMAL_CELLS 3.79e-14 44.55 19.83 5.08e-12 2.54e-11
11THBS1, THBS2, COL5A2, COL12A1, ITGBL1, COL14A1, MEDAG, COL3A1, MMP19, INHBA, COL5A1
 90
AIZARANI_LIVER_C21_STELLATE_CELLS_1 1.40e-17 33.03 16.71 4.69e-15 9.37e-15
16THBS1, SERPINE1, FOSB, THBS2, CRISPLD2, EMP1, COL14A1, COL3A1, AEBP1, TIMP1, CALD1, MMP19, COL5A1, MYL9, IGFBP7, ZFP36
 194
DESCARTES_MAIN_FETAL_STROMAL_CELLS 1.02e-06 67.68 15.86 3.44e-05 6.87e-04
4THBS2, COL12A1, ITGBL1, COL5A1
 20
MURARO_PANCREAS_MESENCHYMAL_STROMAL_CELL 2.05e-26 28.91 15.78 1.37e-23 1.37e-23
30THBS1, SERPINE1, THBS2, COL8A1, ANXA1, COL5A2, FAP, FGF7, IL1R1, VCAN, ADAM12, COL12A1, CRISPLD2, EMP1, MEDAG, MYOF, LMCD1, PLOD2, COL3A1, AEBP1, OSMR, TIMP1, CALD1, GFPT2, INHBA, PRKG1, COL5A1, PLAU, IGFBP7, CDH11
 680
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_VASCULAR_SMOOTH_MUSCLE_CELLS 8.31e-11 32.63 13.51 7.97e-09 5.58e-08
9THBS1, CRISPLD2, COL14A1, CNN1, CALD1, GADD45B, MYL9, IGFBP7, ZFP36
 93
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_FIBROBLASTS_STROMAL_CELLS 9.58e-10 32.13 12.59 6.43e-08 6.43e-07
8FGF7, ITGBL1, COL3A1, AEBP1, TIMP1, CALD1, IGFBP7, CDH11
 82
TRAVAGLINI_LUNG_ADVENTITIAL_FIBROBLAST_CELL 4.58e-16 23.08 11.91 1.02e-13 3.07e-13
17FOSB, THBS2, ANXA1, IGF1, FGF7, IL1R1, NR4A1, EMP1, MEDAG, COL3A1, TIMP1, GPRC5A, DUSP1, GFPT2, NTM, PLAU, ZFP36
 296
TRAVAGLINI_LUNG_LIPOFIBROBLAST_CELL 2.06e-10 22.97 10.03 1.63e-08 1.38e-07
10THBS2, FGF7, IL1R1, NR4A3, MEDAG, COL3A1, TIMP1, GPRC5A, GFPT2, MMP19
 146
DESCARTES_FETAL_THYMUS_STROMAL_CELLS 2.64e-09 21.41 8.97 1.18e-07 1.77e-06
9THBS2, COL5A2, VCAN, ADAM12, COL12A1, COL14A1, COL3A1, TIMP1, COL5A1
 137
GAO_LARGE_INTESTINE_24W_C1_DCLK1POS_PROGENITOR 1.10e-07 22.09 8.17 4.62e-06 7.39e-05
7THBS2, COL8A1, COL5A2, VCAN, COL14A1, COL3A1, COL5A1
 99
HAY_BONE_MARROW_STROMAL 7.27e-15 13.23 7.18 1.22e-12 4.87e-12
22FOSB, THBS2, COL5A2, FAP, FGF7, IL1R1, COL12A1, ITGBL1, EMP1, COL14A1, MEDAG, LMCD1, COL3A1, OSMR, GPRC5A, CALD1, GADD45B, MMP19, COL5A1, IGFBP7, ZFP36, CDH11
 765
TRAVAGLINI_LUNG_MYOFIBROBLAST_CELL 5.50e-06 23.11 6.92 1.37e-04 3.69e-03
5VCAN, COL12A1, COL3A1, COMP, NTM
 65
CUI_DEVELOPING_HEART_C3_FIBROBLAST_LIKE_CELL 3.45e-07 18.49 6.86 1.28e-05 2.31e-04
7THBS2, COL5A2, COL12A1, COL14A1, TIMP1, COL5A1, IGFBP7
 117
FAN_OVARY_CL6_PUTATIVE_EARLY_ATRETIC_FOLLICLE_THECAL_CELL_2 1.16e-09 13.70 6.45 7.06e-08 7.77e-07
12FOSB, IGF1, NR4A1, COL3A1, AEBP1, TIMP1, CALD1, DUSP1, GADD45B, MYL9, ZFP36, CDH11
 300
FAN_EMBRYONIC_CTX_BRAIN_ENDOTHELIAL_2 1.29e-09 13.56 6.39 7.23e-08 8.68e-07
12COL5A2, ADAM12, MYOF, COL3A1, AEBP1, TIMP1, CALD1, NTM, PRKG1, MYL9, IGFBP7, CDH11
 303
AIZARANI_LIVER_C33_STELLATE_CELLS_2 5.68e-07 17.09 6.36 2.01e-05 3.81e-04
7CRISPLD2, COL3A1, CALD1, PRKG1, COL5A1, MYL9, IGFBP7
 126
AIZARANI_LIVER_C29_MVECS_2 1.85e-09 13.12 6.18 8.89e-08 1.24e-06
12SERPINE1, FOSB, COL8A1, ANXA1, IL1R1, EMP1, MYOF, NFATC2, COL3A1, TIMP1, GPRC5A, IGFBP7
 313
GAO_LARGE_INTESTINE_ADULT_CJ_IMMUNE_CELLS 2.90e-11 12.04 6.16 3.25e-09 1.95e-08
16ANXA1, COL5A2, IL1R1, VCAN, COL12A1, CRISPLD2, COL14A1, COL3A1, AEBP1, CALD1, MMP19, COL5A1, MYL9, PLAU, IGFBP7, CDH11
 505
DESCARTES_FETAL_INTESTINE_SMOOTH_MUSCLE_CELLS 4.42e-05 23.58 5.93 8.24e-04 2.96e-02
4FGF7, CNN1, NTM, MYL9
 50
HU_FETAL_RETINA_FIBROBLAST 1.54e-09 11.81 5.71 7.95e-08 1.03e-06
13FOSB, COL5A2, VCAN, COL3A1, AEBP1, TIMP1, CALD1, GADD45B, COL5A1, MYL9, IGFBP7, ZFP36, CDH11
 385

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mSigDB Hallmark Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION 4.34e-22 42.31 22.14 2.17e-20 2.17e-20
19THBS1, SERPINE1, THBS2, COL5A2, FAP, VCAN, ADAM12, COL12A1, PLOD2, COL3A1, TIMP1, CALD1, COMP, GADD45B, NTM, INHBA, COL5A1, MYL9, CDH11
 200
HALLMARK_ANGIOGENESIS 1.18e-05 33.91 8.38 1.97e-04 5.91e-04
4COL5A2, VCAN, COL3A1, TIMP1
 36
HALLMARK_TNFA_SIGNALING_VIA_NFKB 4.29e-09 16.45 7.22 1.07e-07 2.15e-07
10SERPINE1, FOSB, NR4A1, NR4A3, DUSP1, GADD45B, GFPT2, INHBA, PLAU, ZFP36
 200
HALLMARK_COAGULATION 1.59e-05 12.91 4.42 1.99e-04 7.96e-04
6THBS1, SERPINE1, ANXA1, TIMP1, COMP, PLAU
 138
HALLMARK_MYOGENESIS 1.24e-04 8.78 3.02 1.24e-03 6.18e-03
6IGF1, ADAM12, COL3A1, AEBP1, GADD45B, IGFBP7
 200
HALLMARK_INFLAMMATORY_RESPONSE 1.08e-03 7.12 2.18 7.71e-03 5.40e-02
5SERPINE1, IL1R1, OSMR, TIMP1, INHBA
 200
HALLMARK_KRAS_SIGNALING_UP 1.08e-03 7.12 2.18 7.71e-03 5.40e-02
5ITGBL1, EMP1, GFPT2, INHBA, PLAU
 200
HALLMARK_UV_RESPONSE_DN 2.44e-03 7.76 2.00 1.53e-02 1.22e-01
4SERPINE1, COL5A2, COL3A1, DUSP1
 144
HALLMARK_APOPTOSIS 3.63e-03 6.92 1.79 2.02e-02 1.82e-01
4ANXA1, EMP1, TIMP1, GADD45B
 161
HALLMARK_HYPOXIA 7.71e-03 5.55 1.44 3.85e-02 3.85e-01
4SERPINE1, DUSP1, COL5A1, ZFP36
 200
HALLMARK_TGF_BETA_SIGNALING 1.94e-02 10.01 1.15 8.80e-02 9.68e-01
2THBS1, SERPINE1
 54
HALLMARK_APICAL_JUNCTION 4.35e-02 4.05 0.80 1.55e-01 1.00e+00
3VCAN, MYL9, CDH11
 200
HALLMARK_XENOBIOTIC_METABOLISM 4.35e-02 4.05 0.80 1.55e-01 1.00e+00
3SERPINE1, IGF1, IL1R1
 200
HALLMARK_GLYCOLYSIS 4.35e-02 4.05 0.80 1.55e-01 1.00e+00
3VCAN, PLOD2, COL5A1
 200
HALLMARK_IL6_JAK_STAT3_SIGNALING 4.64e-02 6.13 0.71 1.55e-01 1.00e+00
2IL1R1, OSMR
 87
HALLMARK_UV_RESPONSE_UP 1.28e-01 3.34 0.39 4.00e-01 1.00e+00
2FOSB, NR4A1
 158
HALLMARK_IL2_STAT5_SIGNALING 1.83e-01 2.64 0.31 4.62e-01 1.00e+00
2EMP1, GADD45B
 199
HALLMARK_ESTROGEN_RESPONSE_LATE 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2MYOF, ZFP36
 200
HALLMARK_COMPLEMENT 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2SERPINE1, TIMP1
 200
HALLMARK_ALLOGRAFT_REJECTION 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2TIMP1, INHBA
 200

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KEGG Pathways:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
KEGG_ECM_RECEPTOR_INTERACTION 9.07e-07 21.83 7.39 8.72e-05 1.69e-04
6THBS1, THBS2, COL5A2, COL3A1, COMP, COL5A1
 84
KEGG_FOCAL_ADHESION 9.38e-07 12.47 4.99 8.72e-05 1.74e-04
8THBS1, THBS2, IGF1, COL5A2, COL3A1, COMP, COL5A1, MYL9
 199
KEGG_P53_SIGNALING_PATHWAY 1.47e-04 16.96 4.31 9.14e-03 2.74e-02
4THBS1, SERPINE1, IGF1, GADD45B
 68
KEGG_TGF_BETA_SIGNALING_PATHWAY 3.63e-04 13.24 3.39 1.69e-02 6.75e-02
4THBS1, THBS2, COMP, INHBA
 86
KEGG_MAPK_SIGNALING_PATHWAY 5.69e-04 6.53 2.25 2.12e-02 1.06e-01
6FGF7, IL1R1, NR4A1, NFATC2, DUSP1, GADD45B
 267
KEGG_VASCULAR_SMOOTH_MUSCLE_CONTRACTION 1.05e-02 7.12 1.40 3.25e-01 1.00e+00
3CALD1, PRKG1, MYL9
 115
KEGG_COMPLEMENT_AND_COAGULATION_CASCADES 3.05e-02 7.77 0.90 6.64e-01 1.00e+00
2SERPINE1, PLAU
 69
KEGG_LONG_TERM_DEPRESSION 3.13e-02 7.66 0.88 6.64e-01 1.00e+00
2IGF1, PRKG1
 70
KEGG_MELANOMA 3.21e-02 7.55 0.87 6.64e-01 1.00e+00
2IGF1, FGF7
 71
KEGG_CYTOKINE_CYTOKINE_RECEPTOR_INTERACTION 8.44e-02 3.05 0.60 1.00e+00 1.00e+00
3IL1R1, OSMR, INHBA
 265
KEGG_REGULATION_OF_ACTIN_CYTOSKELETON 2.03e-01 2.47 0.29 1.00e+00 1.00e+00
2FGF7, MYL9
 213
KEGG_ALANINE_ASPARTATE_AND_GLUTAMATE_METABOLISM 1.20e-01 8.23 0.20 1.00e+00 1.00e+00
1GFPT2
 32
KEGG_PATHWAYS_IN_CANCER 3.61e-01 1.61 0.19 1.00e+00 1.00e+00
2IGF1, FGF7
 325
KEGG_ALDOSTERONE_REGULATED_SODIUM_REABSORPTION 1.54e-01 6.22 0.15 1.00e+00 1.00e+00
1IGF1
 42
KEGG_BLADDER_CANCER 1.54e-01 6.22 0.15 1.00e+00 1.00e+00
1THBS1
 42
KEGG_LYSINE_DEGRADATION 1.61e-01 5.93 0.14 1.00e+00 1.00e+00
1PLOD2
 44
KEGG_AMINO_SUGAR_AND_NUCLEOTIDE_SUGAR_METABOLISM 1.61e-01 5.93 0.14 1.00e+00 1.00e+00
1GFPT2
 44
KEGG_MTOR_SIGNALING_PATHWAY 1.87e-01 5.00 0.12 1.00e+00 1.00e+00
1IGF1
 52
KEGG_GLIOMA 2.28e-01 3.99 0.10 1.00e+00 1.00e+00
1IGF1
 65
KEGG_B_CELL_RECEPTOR_SIGNALING_PATHWAY 2.58e-01 3.45 0.08 1.00e+00 1.00e+00
1NFATC2
 75

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr2q32 6.78e-02 4.91 0.57 1.00e+00 1.00e+00
2COL5A2, COL3A1
 108
chr15q12 5.81e-02 18.20 0.42 1.00e+00 1.00e+00
1ATP10A
 15
chr5q35 2.16e-01 2.37 0.28 1.00e+00 1.00e+00
2DUSP1, GFPT2
 222
chr19p13 7.66e-01 1.04 0.21 1.00e+00 1.00e+00
3CNN1, COMP, GADD45B
 773
chr11q25 1.16e-01 8.50 0.20 1.00e+00 1.00e+00
1NTM
 31
chr12p13 3.72e-01 1.57 0.18 1.00e+00 1.00e+00
2EMP1, GPRC5A
 333
chr12q13 6.71e-01 1.29 0.15 1.00e+00 1.00e+00
2NR4A1, MMP19
 407
chr3q12 1.67e-01 5.67 0.14 1.00e+00 1.00e+00
1COL8A1
 46
chr7p13 1.81e-01 5.21 0.13 1.00e+00 1.00e+00
1AEBP1
 50
chr7q33 1.87e-01 5.00 0.12 1.00e+00 1.00e+00
1CALD1
 52
chr13q33 1.97e-01 4.72 0.12 1.00e+00 1.00e+00
1ITGBL1
 55
chr15q14 2.00e-01 4.64 0.11 1.00e+00 1.00e+00
1THBS1
 56
chr16q21 2.55e-01 3.49 0.09 1.00e+00 1.00e+00
1CDH11
 74
chr6q27 2.58e-01 3.45 0.08 1.00e+00 1.00e+00
1THBS2
 75
chr4q12 2.70e-01 3.27 0.08 1.00e+00 1.00e+00
1IGFBP7
 79
chr6q14 3.09e-01 2.77 0.07 1.00e+00 1.00e+00
1COL12A1
 93
chr9p24 3.31e-01 2.55 0.06 1.00e+00 1.00e+00
1GLIS3
 101
chr19q13 4.39e-01 0.45 0.05 1.00e+00 1.00e+00
2FOSB, ZFP36
 1165
chr2q24 3.91e-01 2.06 0.05 1.00e+00 1.00e+00
1FAP
 125
chr5p13 3.99e-01 2.01 0.05 1.00e+00 1.00e+00
1OSMR
 128

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
SRF_C 1.27e-07 13.32 5.62 1.44e-04 1.44e-04
9THBS1, FOSB, COL8A1, NR4A1, LMCD1, CNN1, CALD1, GFPT2, MYL9
 215
FREAC4_01 2.84e-05 11.59 3.97 1.61e-02 3.22e-02
6IGF1, NR4A1, EMP1, CALD1, DUSP1, INHBA
 153
CCAWWNAAGG_SRF_Q4 3.96e-04 12.93 3.31 6.41e-02 4.49e-01
4THBS1, FOSB, NR4A1, CALD1
 88
SRF_01 1.07e-03 16.60 3.20 1.21e-01 1.00e+00
3THBS1, FOSB, CALD1
 51
SRF_Q6 4.63e-05 8.44 3.17 1.75e-02 5.24e-02
7THBS1, FOSB, IGF1, NR4A1, CNN1, CALD1, MYL9
 248
SRF_Q5_01 2.32e-04 7.78 2.68 4.93e-02 2.63e-01
6THBS1, FOSB, FGF7, CNN1, CALD1, MYL9
 225
SRF_Q4 2.61e-04 7.61 2.62 4.93e-02 2.96e-01
6THBS1, FOSB, NR4A1, CNN1, CALD1, MYL9
 230
FREAC2_01 5.37e-04 6.61 2.28 7.59e-02 6.08e-01
6IGF1, ADAM12, EMP1, CALD1, DUSP1, INHBA
 264
TGGAAA_NFAT_Q4_01 1.59e-04 3.36 1.75 4.49e-02 1.80e-01
17COL8A1, IGF1, FAP, FGF7, VCAN, NR4A1, ADAM12, COL12A1, EMP1, NR4A3, PLOD2, NFATC2, CNN1, CALD1, GADD45B, INHBA, IGFBP7
 1934
NFAT_Q6 2.78e-03 5.69 1.75 2.42e-01 1.00e+00
5COL8A1, FAP, EMP1, PLOD2, COL3A1
 249
AAAYWAACM_HFH4_01 3.44e-03 5.41 1.66 2.56e-01 1.00e+00
5FOSB, ITGBL1, NR4A3, CALD1, DUSP1
 262
TATAAA_TATA_01 6.03e-04 3.37 1.64 7.59e-02 6.83e-01
13SERPINE1, THBS2, COL8A1, ANXA1, IGF1, NR4A1, NR4A3, PLOD2, GLIS3, CNN1, CALD1, MMP19, INHBA
 1317
CTAWWWATA_RSRFC4_Q2 2.76e-03 4.74 1.64 2.42e-01 1.00e+00
6THBS2, COL8A1, IGF1, FAP, NR4A1, LMCD1
 366
CREB_Q2 3.84e-03 5.26 1.62 2.56e-01 1.00e+00
5FOSB, NR4A3, LMCD1, DUSP1, GADD45B
 269
HNF3_Q6 6.70e-03 5.78 1.50 3.18e-01 1.00e+00
4FOSB, NR4A1, NR4A3, CALD1
 192
YYCATTCAWW_UNKNOWN 6.70e-03 5.78 1.50 3.18e-01 1.00e+00
4FOSB, VCAN, NR4A3, INHBA
 192
E4F1_Q6 5.39e-03 4.84 1.49 3.06e-01 1.00e+00
5FOSB, NR4A1, NR4A3, CALD1, DUSP1
 292
AAANWWTGC_UNKNOWN 7.07e-03 5.69 1.47 3.18e-01 1.00e+00
4THBS2, FGF7, DUSP1, INHBA
 195
PSMB5_TARGET_GENES 6.61e-03 4.60 1.41 3.18e-01 1.00e+00
5THBS1, SERPINE1, EMP1, DUSP1, ZFP36
 307
COMP1_01 1.12e-02 6.94 1.36 3.64e-01 1.00e+00
3IGF1, NR4A3, CALD1
 118

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_COLLAGEN_FIBRIL_ORGANIZATION 1.54e-09 43.22 15.60 3.83e-06 1.15e-05
7COL5A2, COL12A1, COL14A1, COL3A1, AEBP1, COMP, COL5A1
 54
GOBP_RESPONSE_TO_CORTICOTROPIN_RELEASING_HORMONE 1.54e-04 172.68 14.09 3.50e-02 1.00e+00
2NR4A1, NR4A3
 5
GOBP_REGULATION_OF_ENDODERMAL_CELL_DIFFERENTIATION 1.54e-04 172.68 14.09 3.50e-02 1.00e+00
2COL5A2, COL5A1
 5
GOBP_REGULATION_OF_FIBRINOLYSIS 2.09e-05 72.24 12.54 7.46e-03 1.57e-01
3THBS1, SERPINE1, FAP
 14
GOBP_FIBRINOLYSIS 2.63e-06 51.58 12.40 1.66e-03 1.97e-02
4THBS1, SERPINE1, FAP, PLAU
 25
GOBP_ENDODERM_FORMATION 5.70e-08 36.21 12.03 8.51e-05 4.27e-04
6COL8A1, COL5A2, COL12A1, DUSP1, INHBA, COL5A1
 53
GOBP_NEGATIVE_REGULATION_OF_PLASMINOGEN_ACTIVATION 2.31e-04 129.66 11.45 4.54e-02 1.00e+00
2THBS1, SERPINE1
 6
GOBP_SMOOTH_MUSCLE_CELL_MATRIX_ADHESION 2.31e-04 129.66 11.45 4.54e-02 1.00e+00
2SERPINE1, PLAU
 6
GOBP_ENDODERMAL_CELL_DIFFERENTIATION 7.77e-07 35.54 10.46 6.46e-04 5.81e-03
5COL8A1, COL5A2, COL12A1, INHBA, COL5A1
 44
GOBP_TENDON_DEVELOPMENT 3.22e-04 103.49 9.64 5.61e-02 1.00e+00
2COMP, COL5A1
 7
GOBP_NEGATIVE_REGULATION_OF_COAGULATION 1.81e-06 29.51 8.75 1.35e-03 1.35e-02
5THBS1, SERPINE1, FAP, PRKG1, PLAU
 52
GOBP_ENDODERM_DEVELOPMENT 5.02e-07 24.31 8.21 4.69e-04 3.75e-03
6COL8A1, COL5A2, COL12A1, DUSP1, INHBA, COL5A1
 76
GOBP_EXTERNAL_ENCAPSULATING_STRUCTURE_ORGANIZATION 8.29e-13 15.48 7.91 6.20e-09 6.20e-09
16THBS1, SERPINE1, COL8A1, COL5A2, FAP, VCAN, ADAM12, COL12A1, CRISPLD2, COL14A1, COL3A1, AEBP1, TIMP1, COMP, MMP19, COL5A1
 396
GOBP_PLASMINOGEN_ACTIVATION 9.91e-05 39.79 7.33 2.47e-02 7.41e-01
3THBS1, SERPINE1, PLAU
 23
GOBP_NEGATIVE_REGULATION_OF_FIBRINOLYSIS 6.85e-04 64.86 6.55 1.00e-01 1.00e+00
2THBS1, SERPINE1
 10
GOBP_REGULATION_OF_COAGULATION 8.50e-06 21.01 6.31 3.74e-03 6.36e-02
5THBS1, SERPINE1, FAP, PRKG1, PLAU
 71
GOBP_MUSCLE_CELL_MIGRATION 2.67e-06 17.93 6.10 1.66e-03 2.00e-02
6SERPINE1, ANXA1, IGF1, NR4A3, PRKG1, PLAU
 101
GOBP_NEGATIVE_REGULATION_OF_WOUND_HEALING 1.04e-05 20.11 6.05 4.33e-03 7.79e-02
5THBS1, SERPINE1, FAP, PRKG1, PLAU
 74
GOBP_REGULATION_OF_TYPE_B_PANCREATIC_CELL_PROLIFERATION 9.99e-04 51.89 5.39 1.31e-01 1.00e+00
2NR4A1, NR4A3
 12
GOBP_FORMATION_OF_PRIMARY_GERM_LAYER 5.64e-06 15.63 5.33 2.89e-03 4.22e-02
6COL8A1, COL5A2, COL12A1, DUSP1, INHBA, COL5A1
 115

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE37605_TREG_VS_TCONV_NOD_FOXP3_FUSION_GFP_UP 1.82e-06 14.23 5.31 8.87e-03 8.87e-03
7SERPINE1, FOSB, NR4A1, NR4A3, LMCD1, DUSP1, ZFP36
 150
GSE37605_FOXP3_FUSION_GFP_VS_IRES_GFP_TREG_C57BL6_UP 7.19e-06 11.43 4.28 1.16e-02 3.50e-02
7THBS1, SERPINE1, FOSB, NR4A1, NR4A3, DUSP1, ZFP36
 185
GSE36891_UNSTIM_VS_POLYIC_TLR3_STIM_PERITONEAL_MACROPHAGE_UP 2.45e-05 11.92 4.08 1.98e-02 1.19e-01
6SERPINE1, FOSB, NR4A1, ADAM12, NR4A3, ZFP36
 149
GSE9988_ANTI_TREM1_VS_CTRL_TREATED_MONOCYTES_UP 1.11e-05 10.65 3.99 1.16e-02 5.42e-02
7IL1R1, NR4A1, GPRC5A, DUSP1, GADD45B, MMP19, INHBA
 198
GSE36891_POLYIC_TLR3_VS_PAM_TLR2_STIM_PERITONEAL_MACROPHAGE_UP 2.84e-05 11.59 3.97 1.98e-02 1.38e-01
6SERPINE1, FOSB, NR4A1, NR4A3, DUSP1, ZFP36
 153
GSE27434_WT_VS_DNMT1_KO_TREG_DN 1.19e-05 10.54 3.95 1.16e-02 5.79e-02
7SERPINE1, COL5A2, NR4A1, DUSP1, GADD45B, INHBA, ZFP36
 200
GSE42088_UNINF_VS_LEISHMANIA_INF_DC_2H_DN 1.19e-05 10.54 3.95 1.16e-02 5.79e-02
7FOSB, ANXA1, NR4A1, CRISPLD2, DUSP1, IGFBP7, ZFP36
 200
GSE6259_FLT3L_INDUCED_VS_WT_SPLENIC_DC_33D1_POS_DN 4.04e-05 10.85 3.73 2.46e-02 1.97e-01
6THBS1, IL1R1, EMP1, GLIS3, PRKG1, PLAU
 163
GSE24671_CTRL_VS_BAKIMULC_INFECTED_MOUSE_SPLENOCYTES_DN 5.10e-05 10.39 3.57 2.76e-02 2.48e-01
6COL5A2, NR4A1, NR4A3, PLOD2, DUSP1, GADD45B
 170
GSE37605_C57BL6_VS_NOD_FOXP3_FUSION_GFP_TREG_DN 9.64e-05 9.21 3.17 3.35e-02 4.70e-01
6SERPINE1, FOSB, NR4A1, NR4A3, DUSP1, ZFP36
 191
GSE45365_NK_CELL_VS_BCELL_UP 1.17e-04 8.88 3.05 3.35e-02 5.71e-01
6THBS1, SERPINE1, FOSB, DUSP1, ZFP36, CDH11
 198
GSE360_HIGH_DOSE_B_MALAYI_VS_M_TUBERCULOSIS_MAC_DN 1.20e-04 8.83 3.04 3.35e-02 5.86e-01
6SERPINE1, VCAN, PLOD2, TIMP1, IGFBP7, ZFP36
 199
GSE45365_NK_CELL_VS_CD11B_DC_DN 1.20e-04 8.83 3.04 3.35e-02 5.86e-01
6SERPINE1, OSMR, TIMP1, GPRC5A, DUSP1, ZFP36
 199
GSE17721_LPS_VS_GARDIQUIMOD_1H_BMDC_UP 1.24e-04 8.78 3.02 3.35e-02 6.03e-01
6THBS2, VCAN, NR4A1, TIMP1, GADD45B, INHBA
 200
GSE17721_12H_VS_24H_PAM3CSK4_BMDC_UP 1.24e-04 8.78 3.02 3.35e-02 6.03e-01
6NR4A3, ATP10A, IFITM10, DUSP1, GADD45B, INHBA
 200
GSE360_HIGH_DOSE_B_MALAYI_VS_M_TUBERCULOSIS_DC_DN 1.24e-04 8.78 3.02 3.35e-02 6.03e-01
6VCAN, NR4A3, MYOF, TIMP1, DUSP1, GADD45B
 200
GSE3982_DC_VS_BASOPHIL_UP 1.24e-04 8.78 3.02 3.35e-02 6.03e-01
6ADAM12, ATP10A, COL14A1, MYOF, COMP, INHBA
 200
GSE4748_CTRL_VS_LPS_STIM_DC_3H_UP 1.24e-04 8.78 3.02 3.35e-02 6.03e-01
6SERPINE1, COL5A2, EMP1, COL3A1, INHBA, CDH11
 200
GSE13547_WT_VS_ZFX_KO_BCELL_DN 6.28e-04 8.07 2.47 1.03e-01 1.00e+00
5FOSB, ANXA1, NR4A1, EMP1, GADD45B
 177
GSE37301_MULTIPOTENT_PROGENITOR_VS_LYMPHOID_PRIMED_MPP_DN 6.94e-04 7.89 2.42 1.03e-01 1.00e+00
5FOSB, ANXA1, NR4A1, PLOD2, ZFP36
 181

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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
FOSB 3 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NR4A1 13 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NR4A3 19 Yes Known motif Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain None
GLIS3 26 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NFATC2 27 Yes Known motif Monomer or homomultimer High-throughput in vitro None PDB:1A02 has NFAT, Fos and Jun trimeric complex with non-consensus bZIP target site
AEBP1 29 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).
ZFP36 49 No ssDNA/RNA binding Not a DNA binding protein No motif None RNA binding protein (PMID: 10330172).
FOS 51 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ERG 52 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ZFP36L1 60 No ssDNA/RNA binding Not a DNA binding protein No motif None RNA-binding protein (PMID: 27102483; PMID: 17013884).
ATF3 62 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
GREM1 63 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
SGK1 69 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
BHLHE40 70 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
RUNX2 72 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
PRRX1 77 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
PRKD1 78 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
FBN1 80 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
LPP 85 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None znfLIM is probably not a DNA binding domain (PMID: 8506279). The protein has been reported to be coactivator for ETV4 (PMID: 16738319).
PTGIS 87 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None It is a cytochrome p450 enzyme

QQ Plot showing correlations with other Gene Expression Programs 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
NB02_AGCGGTCCAGATCTGT-1 Fibroblasts:breast 0.20 1509.35
Raw ScoresFibroblasts:breast: 0.31, iPS_cells:adipose_stem_cells: 0.3, Smooth_muscle_cells:vascular:IL-17: 0.3, Smooth_muscle_cells:vascular: 0.3, Osteoblasts: 0.29, Chondrocytes:MSC-derived: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Smooth_muscle_cells:bronchial: 0.28, iPS_cells:CRL2097_foreskin: 0.28, Smooth_muscle_cells:bronchial:vit_D: 0.28
NB02_GCTTCCACATTCTCAT-1 iPS_cells:adipose_stem_cells 0.17 1355.22
Raw ScoresFibroblasts:breast: 0.27, Osteoblasts: 0.27, iPS_cells:adipose_stem_cells: 0.27, Chondrocytes:MSC-derived: 0.26, Osteoblasts:BMP2: 0.26, Smooth_muscle_cells:vascular:IL-17: 0.26, Tissue_stem_cells:BM_MSC: 0.26, iPS_cells:CRL2097_foreskin: 0.26, Smooth_muscle_cells:vascular: 0.26, Tissue_stem_cells:BM_MSC:osteogenic: 0.25
NB02_GTCTCGTCATACGCCG-1 Osteoblasts 0.22 1326.60
Raw ScoresFibroblasts:breast: 0.33, Osteoblasts: 0.32, iPS_cells:adipose_stem_cells: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC: 0.31, Smooth_muscle_cells:vascular: 0.31, Smooth_muscle_cells:vascular:IL-17: 0.3, Tissue_stem_cells:BM_MSC:osteogenic: 0.3, Osteoblasts:BMP2: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3
NB03_GCATGCGTCAGTTGAC-1 Osteoblasts 0.20 923.40
Raw ScoresFibroblasts:breast: 0.29, Osteoblasts: 0.29, iPS_cells:adipose_stem_cells: 0.29, Chondrocytes:MSC-derived: 0.28, iPS_cells:CRL2097_foreskin: 0.28, Tissue_stem_cells:BM_MSC: 0.27, Smooth_muscle_cells:vascular: 0.27, iPS_cells:PDB_fibroblasts: 0.27, Tissue_stem_cells:BM_MSC:osteogenic: 0.27, Smooth_muscle_cells:vascular:IL-17: 0.27
NB02_CCCTCCTGTAGGGACT-1 Fibroblasts:breast 0.18 878.01
Raw ScoresFibroblasts:breast: 0.28, Osteoblasts: 0.28, iPS_cells:adipose_stem_cells: 0.27, Smooth_muscle_cells:bronchial:vit_D: 0.27, Smooth_muscle_cells:bronchial: 0.27, Chondrocytes:MSC-derived: 0.27, iPS_cells:CRL2097_foreskin: 0.27, Smooth_muscle_cells:vascular: 0.27, Smooth_muscle_cells:vascular:IL-17: 0.26, Tissue_stem_cells:BM_MSC: 0.26
NB02_TGGCTGGGTCCATCCT-1 Fibroblasts:breast 0.18 861.89
Raw ScoresFibroblasts:breast: 0.24, iPS_cells:adipose_stem_cells: 0.23, Osteoblasts: 0.23, Tissue_stem_cells:BM_MSC: 0.22, Smooth_muscle_cells:vascular: 0.22, Smooth_muscle_cells:vascular:IL-17: 0.21, iPS_cells:CRL2097_foreskin: 0.21, Chondrocytes:MSC-derived: 0.21, Tissue_stem_cells:BM_MSC:osteogenic: 0.21, Osteoblasts:BMP2: 0.21
NB02_CTACGTCAGACATAAC-1 iPS_cells:adipose_stem_cells 0.16 859.62
Raw ScoresFibroblasts:breast: 0.25, Osteoblasts: 0.25, iPS_cells:adipose_stem_cells: 0.24, Smooth_muscle_cells:vascular:IL-17: 0.24, Smooth_muscle_cells:vascular: 0.24, Chondrocytes:MSC-derived: 0.24, Tissue_stem_cells:BM_MSC: 0.24, Tissue_stem_cells:BM_MSC:TGFb3: 0.24, Osteoblasts:BMP2: 0.24, Tissue_stem_cells:BM_MSC:BMP2: 0.23
NB02_TGACTAGAGCGTAATA-1 Fibroblasts:breast 0.17 767.47
Raw ScoresFibroblasts:breast: 0.25, Smooth_muscle_cells:vascular: 0.25, Smooth_muscle_cells:vascular:IL-17: 0.25, iPS_cells:adipose_stem_cells: 0.24, Osteoblasts: 0.24, Chondrocytes:MSC-derived: 0.24, Tissue_stem_cells:BM_MSC:TGFb3: 0.23, Tissue_stem_cells:BM_MSC: 0.23, Osteoblasts:BMP2: 0.23, iPS_cells:CRL2097_foreskin: 0.23
NB02_GCTGCTTGTCTGCAAT-1 Smooth_muscle_cells:vascular:IL-17 0.16 685.71
Raw ScoresiPS_cells:adipose_stem_cells: 0.26, Fibroblasts:breast: 0.26, Smooth_muscle_cells:vascular: 0.26, Smooth_muscle_cells:vascular:IL-17: 0.26, Osteoblasts: 0.25, Osteoblasts:BMP2: 0.25, Tissue_stem_cells:BM_MSC: 0.25, Chondrocytes:MSC-derived: 0.24, Tissue_stem_cells:BM_MSC:TGFb3: 0.24, iPS_cells:CRL2097_foreskin: 0.24
NB02_GCTTCCATCGTTTGCC-1 Fibroblasts:breast 0.14 622.88
Raw ScoresiPS_cells:adipose_stem_cells: 0.22, Fibroblasts:breast: 0.21, Chondrocytes:MSC-derived: 0.21, Smooth_muscle_cells:vascular: 0.21, Osteoblasts: 0.21, Tissue_stem_cells:BM_MSC:TGFb3: 0.2, Smooth_muscle_cells:vascular:IL-17: 0.2, Tissue_stem_cells:BM_MSC:BMP2: 0.2, Smooth_muscle_cells:bronchial: 0.2, Tissue_stem_cells:BM_MSC: 0.2
NB02_GCCAAATCAATGAATG-1 Smooth_muscle_cells:vascular 0.15 618.93
Raw ScoresFibroblasts:breast: 0.24, Osteoblasts: 0.24, Smooth_muscle_cells:vascular: 0.24, Smooth_muscle_cells:vascular:IL-17: 0.24, iPS_cells:adipose_stem_cells: 0.23, Tissue_stem_cells:BM_MSC:TGFb3: 0.23, Tissue_stem_cells:BM_MSC: 0.23, Smooth_muscle_cells:bronchial: 0.23, Osteoblasts:BMP2: 0.23, Chondrocytes:MSC-derived: 0.23
NB02_ATTGGTGTCATGCATG-1 Fibroblasts:breast 0.16 567.04
Raw ScoresFibroblasts:breast: 0.26, Smooth_muscle_cells:vascular:IL-17: 0.25, Osteoblasts: 0.25, Tissue_stem_cells:BM_MSC: 0.25, Smooth_muscle_cells:vascular: 0.25, iPS_cells:adipose_stem_cells: 0.24, Tissue_stem_cells:BM_MSC:BMP2: 0.24, Tissue_stem_cells:BM_MSC:osteogenic: 0.24, Chondrocytes:MSC-derived: 0.24, Tissue_stem_cells:BM_MSC:TGFb3: 0.24
NB02_TGGACGCTCAGGTAAA-1 Chondrocytes:MSC-derived 0.15 550.43
Raw ScoresOsteoblasts: 0.24, Chondrocytes:MSC-derived: 0.24, Fibroblasts:breast: 0.23, Tissue_stem_cells:BM_MSC:TGFb3: 0.23, Smooth_muscle_cells:vascular: 0.23, iPS_cells:adipose_stem_cells: 0.23, Tissue_stem_cells:BM_MSC: 0.23, Tissue_stem_cells:BM_MSC:BMP2: 0.23, Smooth_muscle_cells:vascular:IL-17: 0.22, iPS_cells:CRL2097_foreskin: 0.22
NB02_GTTCGGGAGATGCCAG-1 Tissue_stem_cells:BM_MSC 0.14 544.89
Raw ScoresFibroblasts:breast: 0.2, Osteoblasts: 0.2, Smooth_muscle_cells:vascular: 0.19, iPS_cells:adipose_stem_cells: 0.19, Chondrocytes:MSC-derived: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, iPS_cells:CRL2097_foreskin: 0.19, Osteoblasts:BMP2: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.18
NB02_TATGCCCGTTGTGGCC-1 Tissue_stem_cells:BM_MSC:BMP2 0.14 539.78
Raw ScoresChondrocytes:MSC-derived: 0.22, Osteoblasts: 0.22, Tissue_stem_cells:BM_MSC:TGFb3: 0.22, Tissue_stem_cells:BM_MSC: 0.22, Fibroblasts:breast: 0.22, Tissue_stem_cells:BM_MSC:BMP2: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.21, Smooth_muscle_cells:vascular: 0.21, iPS_cells:adipose_stem_cells: 0.21, Tissue_stem_cells:BM_MSC:osteogenic: 0.21
NB02_AGAGCGAGTTCAGTAC-1 Fibroblasts:breast 0.13 518.80
Raw ScoresFibroblasts:breast: 0.22, Osteoblasts: 0.22, Smooth_muscle_cells:bronchial:vit_D: 0.22, Smooth_muscle_cells:vascular: 0.22, Smooth_muscle_cells:bronchial: 0.22, Smooth_muscle_cells:vascular:IL-17: 0.22, Chondrocytes:MSC-derived: 0.22, Tissue_stem_cells:BM_MSC:TGFb3: 0.22, iPS_cells:adipose_stem_cells: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.21
NB02_GTGCAGCGTACCCAAT-1 Tissue_stem_cells:BM_MSC 0.14 501.44
Raw ScoresSmooth_muscle_cells:vascular: 0.23, Smooth_muscle_cells:vascular:IL-17: 0.23, Fibroblasts:breast: 0.23, iPS_cells:adipose_stem_cells: 0.23, Tissue_stem_cells:BM_MSC:BMP2: 0.23, Tissue_stem_cells:BM_MSC: 0.23, Osteoblasts: 0.23, Osteoblasts:BMP2: 0.22, Tissue_stem_cells:BM_MSC:TGFb3: 0.22, Smooth_muscle_cells:bronchial: 0.22
NB02_CCCAGTTTCGAATGGG-1 Fibroblasts:breast 0.14 496.98
Raw ScoresFibroblasts:breast: 0.19, Chondrocytes:MSC-derived: 0.19, iPS_cells:adipose_stem_cells: 0.19, Osteoblasts: 0.19, iPS_cells:CRL2097_foreskin: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, Tissue_stem_cells:BM_MSC: 0.18, Tissue_stem_cells:BM_MSC:osteogenic: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.17, Smooth_muscle_cells:vascular: 0.17
NB02_GCATGTATCTCAACTT-1 Tissue_stem_cells:BM_MSC 0.12 492.24
Raw ScoresSmooth_muscle_cells:vascular:IL-17: 0.21, Smooth_muscle_cells:vascular: 0.21, Fibroblasts:breast: 0.2, Osteoblasts: 0.2, Tissue_stem_cells:BM_MSC:TGFb3: 0.19, iPS_cells:adipose_stem_cells: 0.19, Chondrocytes:MSC-derived: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.19, iPS_cells:CRL2097_foreskin: 0.19
NB02_TCTATTGTCAGATAAG-1 iPS_cells:adipose_stem_cells 0.10 482.31
Raw ScoresOsteoblasts: 0.18, Chondrocytes:MSC-derived: 0.18, iPS_cells:adipose_stem_cells: 0.18, Fibroblasts:breast: 0.18, Smooth_muscle_cells:vascular:IL-17: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.18, iPS_cells:CRL2097_foreskin: 0.18, Smooth_muscle_cells:vascular: 0.17, Smooth_muscle_cells:bronchial: 0.17
NB02_TCGTACCAGAGTACCG-1 Tissue_stem_cells:BM_MSC:BMP2 0.11 466.09
Raw ScoresOsteoblasts: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.18, Chondrocytes:MSC-derived: 0.18, Fibroblasts:breast: 0.17, Osteoblasts:BMP2: 0.17, Tissue_stem_cells:BM_MSC: 0.17, Tissue_stem_cells:BM_MSC:TGFb3: 0.17, iPS_cells:adipose_stem_cells: 0.17, Fibroblasts:foreskin: 0.17, iPS_cells:CRL2097_foreskin: 0.17
NB02_GTACTTTTCGCCAAAT-1 Fibroblasts:breast 0.14 462.40
Raw ScoresFibroblasts:breast: 0.22, Chondrocytes:MSC-derived: 0.22, iPS_cells:adipose_stem_cells: 0.22, Tissue_stem_cells:BM_MSC:TGFb3: 0.21, Osteoblasts: 0.21, Osteoblasts:BMP2: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.21, Tissue_stem_cells:BM_MSC: 0.21, Smooth_muscle_cells:vascular: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.21
NB02_GGAATAAAGCGGATCA-1 Tissue_stem_cells:BM_MSC 0.13 445.78
Raw ScoresOsteoblasts: 0.21, Chondrocytes:MSC-derived: 0.21, Tissue_stem_cells:BM_MSC:TGFb3: 0.2, Tissue_stem_cells:BM_MSC:BMP2: 0.2, Fibroblasts:breast: 0.2, Tissue_stem_cells:BM_MSC: 0.2, iPS_cells:adipose_stem_cells: 0.2, Tissue_stem_cells:BM_MSC:osteogenic: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, Smooth_muscle_cells:vascular: 0.19
NB02_TTCCCAGGTACATGTC-1 Fibroblasts:breast 0.14 412.99
Raw ScoresFibroblasts:breast: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.2, Smooth_muscle_cells:vascular: 0.2, iPS_cells:CRL2097_foreskin: 0.2, iPS_cells:adipose_stem_cells: 0.2, Osteoblasts: 0.2, Tissue_stem_cells:BM_MSC: 0.19, Chondrocytes:MSC-derived: 0.19, Osteoblasts:BMP2: 0.19, Tissue_stem_cells:BM_MSC:osteogenic: 0.19
NB02_TGAAAGACACCGCTAG-1 Fibroblasts:breast 0.12 401.75
Raw ScoresChondrocytes:MSC-derived: 0.21, Tissue_stem_cells:BM_MSC:TGFb3: 0.21, iPS_cells:adipose_stem_cells: 0.21, Fibroblasts:breast: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.2, Osteoblasts: 0.2, Smooth_muscle_cells:vascular: 0.2, Smooth_muscle_cells:vascular:IL-17: 0.2, Smooth_muscle_cells:bronchial: 0.2, iPS_cells:CRL2097_foreskin: 0.2
NB02_AGCCTAAAGATGAGAG-1 Smooth_muscle_cells:bronchial:vit_D 0.12 401.27
Raw ScoresFibroblasts:breast: 0.16, Smooth_muscle_cells:vascular:IL-17: 0.16, Tissue_stem_cells:BM_MSC:TGFb3: 0.15, Chondrocytes:MSC-derived: 0.15, Smooth_muscle_cells:bronchial:vit_D: 0.15, Smooth_muscle_cells:vascular: 0.15, iPS_cells:adipose_stem_cells: 0.15, Smooth_muscle_cells:bronchial: 0.15, Tissue_stem_cells:BM_MSC:BMP2: 0.15, Tissue_stem_cells:BM_MSC: 0.14
NB02_CTTCTCTTCATCGATG-1 Tissue_stem_cells:BM_MSC 0.12 400.98
Raw ScoresOsteoblasts: 0.2, Smooth_muscle_cells:vascular: 0.19, Fibroblasts:breast: 0.19, Tissue_stem_cells:BM_MSC: 0.19, iPS_cells:adipose_stem_cells: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, Chondrocytes:MSC-derived: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.19, iPS_cells:CRL2097_foreskin: 0.19
NB02_CATATGGAGAGCTATA-1 Fibroblasts:breast 0.12 397.04
Raw ScoresFibroblasts:breast: 0.18, iPS_cells:adipose_stem_cells: 0.17, Smooth_muscle_cells:vascular:IL-17: 0.17, Osteoblasts: 0.17, Tissue_stem_cells:BM_MSC:TGFb3: 0.17, Smooth_muscle_cells:bronchial: 0.17, Smooth_muscle_cells:vascular: 0.17, Chondrocytes:MSC-derived: 0.17, Smooth_muscle_cells:bronchial:vit_D: 0.17, Tissue_stem_cells:BM_MSC: 0.17
NB02_GGGAGATCAGGATCGA-1 Tissue_stem_cells:BM_MSC 0.11 395.15
Raw ScoresTissue_stem_cells:BM_MSC:TGFb3: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.21, Osteoblasts: 0.21, Tissue_stem_cells:BM_MSC: 0.21, Smooth_muscle_cells:vascular: 0.21, Fibroblasts:breast: 0.2, Chondrocytes:MSC-derived: 0.2, Tissue_stem_cells:BM_MSC:osteogenic: 0.2, iPS_cells:adipose_stem_cells: 0.2
NB02_CATGGCGAGGCGATAC-1 Fibroblasts:breast 0.11 393.75
Raw ScoresFibroblasts:breast: 0.2, iPS_cells:adipose_stem_cells: 0.2, Smooth_muscle_cells:vascular:IL-17: 0.19, Chondrocytes:MSC-derived: 0.19, Osteoblasts: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.19, Smooth_muscle_cells:vascular: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.19, Smooth_muscle_cells:bronchial: 0.19, Tissue_stem_cells:BM_MSC: 0.18
NB02_TACGGGCTCCCATTTA-1 Fibroblasts:breast 0.13 390.38
Raw ScoresFibroblasts:breast: 0.17, Smooth_muscle_cells:vascular: 0.16, Osteoblasts: 0.16, Smooth_muscle_cells:vascular:IL-17: 0.16, iPS_cells:adipose_stem_cells: 0.16, Chondrocytes:MSC-derived: 0.16, Tissue_stem_cells:BM_MSC: 0.15, Tissue_stem_cells:BM_MSC:TGFb3: 0.15, Osteoblasts:BMP2: 0.15, iPS_cells:CRL2097_foreskin: 0.15
NB02_TTTGGTTCAAGTAGTA-1 Tissue_stem_cells:BM_MSC 0.13 381.87
Raw ScoresFibroblasts:breast: 0.17, iPS_cells:adipose_stem_cells: 0.17, Osteoblasts: 0.17, Chondrocytes:MSC-derived: 0.17, Osteoblasts:BMP2: 0.17, Tissue_stem_cells:BM_MSC: 0.16, iPS_cells:CRL2097_foreskin: 0.16, Smooth_muscle_cells:vascular:IL-17: 0.16, Tissue_stem_cells:BM_MSC:TGFb3: 0.16, Tissue_stem_cells:BM_MSC:osteogenic: 0.16
NB02_AGTCTTTTCCTTGGTC-1 Tissue_stem_cells:BM_MSC 0.16 379.78
Raw ScoresFibroblasts:breast: 0.22, Osteoblasts: 0.21, iPS_cells:adipose_stem_cells: 0.21, Tissue_stem_cells:BM_MSC: 0.21, Osteoblasts:BMP2: 0.2, iPS_cells:CRL2097_foreskin: 0.2, Tissue_stem_cells:BM_MSC:BMP2: 0.2, Chondrocytes:MSC-derived: 0.2, Smooth_muscle_cells:vascular: 0.2, Tissue_stem_cells:BM_MSC:osteogenic: 0.2
NB11_ATTGGTGAGGCACATG-1 Tissue_stem_cells:BM_MSC 0.11 378.79
Raw ScoresiPS_cells:CRL2097_foreskin: 0.21, iPS_cells:adipose_stem_cells: 0.21, Osteoblasts: 0.2, Osteoblasts:BMP2: 0.2, Fibroblasts:breast: 0.2, MSC: 0.2, Smooth_muscle_cells:bronchial: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.19, Chondrocytes:MSC-derived: 0.19
NB02_ACGAGCCAGTCTCGGC-1 Tissue_stem_cells:BM_MSC 0.12 364.46
Raw ScoresSmooth_muscle_cells:bronchial: 0.19, Osteoblasts: 0.19, Smooth_muscle_cells:bronchial:vit_D: 0.19, Chondrocytes:MSC-derived: 0.19, iPS_cells:CRL2097_foreskin: 0.18, Fibroblasts:breast: 0.18, Smooth_muscle_cells:vascular: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, MSC: 0.17, Smooth_muscle_cells:vascular:IL-17: 0.17
NB02_AGACGTTTCTGTCTAT-1 Tissue_stem_cells:BM_MSC 0.13 352.50
Raw ScoresOsteoblasts: 0.2, Chondrocytes:MSC-derived: 0.2, Tissue_stem_cells:BM_MSC: 0.19, Fibroblasts:breast: 0.19, Smooth_muscle_cells:vascular: 0.19, iPS_cells:adipose_stem_cells: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, iPS_cells:CRL2097_foreskin: 0.19, Smooth_muscle_cells:bronchial: 0.19, Tissue_stem_cells:BM_MSC:osteogenic: 0.19
NB02_CGGAGCTAGATCCCGC-1 Fibroblasts:breast 0.12 351.42
Raw ScoresFibroblasts:breast: 0.18, Smooth_muscle_cells:vascular: 0.18, iPS_cells:adipose_stem_cells: 0.18, Smooth_muscle_cells:vascular:IL-17: 0.17, Smooth_muscle_cells:bronchial: 0.17, Osteoblasts:BMP2: 0.17, Osteoblasts: 0.17, Smooth_muscle_cells:bronchial:vit_D: 0.17, Tissue_stem_cells:BM_MSC: 0.17, iPS_cells:CRL2097_foreskin: 0.16
NB02_TACTCATAGTCGTTTG-1 iPS_cells:adipose_stem_cells 0.14 347.73
Raw ScoresFibroblasts:breast: 0.22, iPS_cells:adipose_stem_cells: 0.22, Chondrocytes:MSC-derived: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.21, Smooth_muscle_cells:vascular: 0.21, Osteoblasts: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.21, Tissue_stem_cells:BM_MSC:TGFb3: 0.2, iPS_cells:CRL2097_foreskin: 0.2, Tissue_stem_cells:BM_MSC: 0.2
NB02_TCTCTAAGTACCCAAT-1 Fibroblasts:breast 0.14 346.98
Raw ScoresFibroblasts:breast: 0.23, iPS_cells:adipose_stem_cells: 0.22, Osteoblasts: 0.21, Chondrocytes:MSC-derived: 0.21, Tissue_stem_cells:BM_MSC:TGFb3: 0.21, Smooth_muscle_cells:vascular:IL-17: 0.21, iPS_cells:CRL2097_foreskin: 0.21, Smooth_muscle_cells:vascular: 0.21, Osteoblasts:BMP2: 0.21, Tissue_stem_cells:BM_MSC:BMP2: 0.21
NB02_AGTGGGAAGCTCAACT-1 Fibroblasts:breast 0.14 342.67
Raw ScoresChondrocytes:MSC-derived: 0.2, Fibroblasts:breast: 0.2, Osteoblasts: 0.19, iPS_cells:adipose_stem_cells: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.18, Smooth_muscle_cells:vascular: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, Smooth_muscle_cells:bronchial: 0.18, Smooth_muscle_cells:bronchial:vit_D: 0.18, iPS_cells:CRL2097_foreskin: 0.18
NB02_TCTGAGACATCCTAGA-1 iPS_cells:adipose_stem_cells 0.13 342.31
Raw ScoresFibroblasts:breast: 0.2, Osteoblasts: 0.19, Smooth_muscle_cells:vascular: 0.19, iPS_cells:adipose_stem_cells: 0.19, Chondrocytes:MSC-derived: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.18, Osteoblasts:BMP2: 0.18
NB02_GATCAGTAGAAGGCCT-1 Tissue_stem_cells:BM_MSC 0.13 342.03
Raw ScoresOsteoblasts: 0.2, Fibroblasts:breast: 0.2, Chondrocytes:MSC-derived: 0.2, Tissue_stem_cells:BM_MSC: 0.2, Tissue_stem_cells:BM_MSC:BMP2: 0.2, Smooth_muscle_cells:vascular:IL-17: 0.19, iPS_cells:adipose_stem_cells: 0.19, Tissue_stem_cells:BM_MSC:osteogenic: 0.19, Smooth_muscle_cells:vascular: 0.19, Osteoblasts:BMP2: 0.19
NB02_CCTTACGAGTATGACA-1 Fibroblasts:breast 0.11 339.92
Raw ScoresFibroblasts:breast: 0.2, Chondrocytes:MSC-derived: 0.2, Smooth_muscle_cells:vascular:IL-17: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.19, Tissue_stem_cells:BM_MSC: 0.19, iPS_cells:adipose_stem_cells: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.19, Osteoblasts: 0.19, Smooth_muscle_cells:vascular: 0.19, Osteoblasts:BMP2: 0.18
NB02_ATTCTACCAAACTGTC-1 Tissue_stem_cells:BM_MSC 0.13 335.45
Raw ScoresFibroblasts:breast: 0.2, Chondrocytes:MSC-derived: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, iPS_cells:adipose_stem_cells: 0.19, Smooth_muscle_cells:vascular: 0.19, Osteoblasts: 0.19, Tissue_stem_cells:BM_MSC:osteogenic: 0.19, Tissue_stem_cells:BM_MSC:BMP2: 0.19, Tissue_stem_cells:BM_MSC:TGFb3: 0.18
NB02_GGAGCAATCCAGATCA-1 iPS_cells:adipose_stem_cells 0.13 323.64
Raw ScoresOsteoblasts: 0.19, Fibroblasts:breast: 0.19, Smooth_muscle_cells:bronchial: 0.19, iPS_cells:adipose_stem_cells: 0.19, Smooth_muscle_cells:bronchial:vit_D: 0.19, Tissue_stem_cells:BM_MSC: 0.19, Smooth_muscle_cells:vascular:IL-17: 0.19, Smooth_muscle_cells:vascular: 0.18, Chondrocytes:MSC-derived: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18
NB02_GGCTGGTTCTGATACG-1 Fibroblasts:breast 0.10 321.27
Raw ScoresFibroblasts:breast: 0.17, Chondrocytes:MSC-derived: 0.17, Tissue_stem_cells:BM_MSC:TGFb3: 0.16, iPS_cells:adipose_stem_cells: 0.16, Osteoblasts: 0.16, Tissue_stem_cells:BM_MSC:BMP2: 0.16, Smooth_muscle_cells:vascular:IL-17: 0.16, Smooth_muscle_cells:bronchial: 0.16, Smooth_muscle_cells:vascular: 0.16, Smooth_muscle_cells:bronchial:vit_D: 0.16
NB02_AGGGATGAGATCTGAA-1 Chondrocytes:MSC-derived 0.10 320.40
Raw ScoresOsteoblasts: 0.16, Fibroblasts:breast: 0.16, Chondrocytes:MSC-derived: 0.16, iPS_cells:adipose_stem_cells: 0.15, Smooth_muscle_cells:vascular:IL-17: 0.15, Tissue_stem_cells:BM_MSC: 0.15, Tissue_stem_cells:BM_MSC:TGFb3: 0.15, iPS_cells:CRL2097_foreskin: 0.15, Smooth_muscle_cells:vascular: 0.15, Tissue_stem_cells:BM_MSC:osteogenic: 0.15
NB02_TCACGAACACCCATGG-1 Smooth_muscle_cells:bronchial 0.14 303.03
Raw ScoresSmooth_muscle_cells:bronchial: 0.18, Fibroblasts:breast: 0.18, Smooth_muscle_cells:bronchial:vit_D: 0.18, Chondrocytes:MSC-derived: 0.17, Smooth_muscle_cells:vascular: 0.17, Osteoblasts: 0.17, Smooth_muscle_cells:vascular:IL-17: 0.17, iPS_cells:adipose_stem_cells: 0.17, Osteoblasts:BMP2: 0.17, Tissue_stem_cells:BM_MSC:TGFb3: 0.17
NB02_GACACGCCAACGATCT-1 Tissue_stem_cells:BM_MSC 0.09 298.27
Raw ScoresSmooth_muscle_cells:vascular:IL-17: 0.19, Chondrocytes:MSC-derived: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, Fibroblasts:breast: 0.18, Osteoblasts: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.18, Smooth_muscle_cells:vascular: 0.18, iPS_cells:adipose_stem_cells: 0.18, Tissue_stem_cells:BM_MSC: 0.18, Smooth_muscle_cells:bronchial: 0.17
NB02_TCACGAAAGAAGGCCT-1 Tissue_stem_cells:BM_MSC 0.12 297.93
Raw ScoresOsteoblasts: 0.19, Fibroblasts:breast: 0.19, Chondrocytes:MSC-derived: 0.18, Tissue_stem_cells:BM_MSC:TGFb3: 0.18, iPS_cells:adipose_stem_cells: 0.18, Tissue_stem_cells:BM_MSC:BMP2: 0.18, Tissue_stem_cells:BM_MSC: 0.18, Osteoblasts:BMP2: 0.18, Tissue_stem_cells:BM_MSC:osteogenic: 0.18, iPS_cells:CRL2097_foreskin: 0.17


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.


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: 1.06e-23
Mean rank of genes in gene set: 1126.61
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
THBS1 0.0168432 1 GTEx DepMap Descartes 1.73 816.02
THBS2 0.0139843 4 GTEx DepMap Descartes 1.07 664.87
COL8A1 0.0133032 5 GTEx DepMap Descartes 0.80 429.63
COL5A2 0.0124605 8 GTEx DepMap Descartes 1.46 665.52
VCAN 0.0114270 12 GTEx DepMap Descartes 1.26 328.37
COL12A1 0.0109872 15 GTEx DepMap Descartes 0.54 138.89
COL14A1 0.0091133 21 GTEx DepMap Descartes 0.38 171.34
COL3A1 0.0083839 28 GTEx DepMap Descartes 3.01 1612.77
COL5A1 0.0073162 44 GTEx DepMap Descartes 0.74 286.41
MYL9 0.0071514 46 GTEx DepMap Descartes 0.35 419.11
IGFBP7 0.0070574 48 GTEx DepMap Descartes 1.48 2839.58
FN1 0.0068893 57 GTEx DepMap Descartes 2.55 781.35
COL1A2 0.0063551 68 GTEx DepMap Descartes 4.66 2495.84
TPM2 0.0063172 71 GTEx DepMap Descartes 0.50 1096.28
COL11A1 0.0056019 91 GTEx DepMap Descartes 0.30 107.88
COL1A1 0.0047772 121 GTEx DepMap Descartes 3.58 1668.72
TAGLN 0.0047065 124 GTEx DepMap Descartes 0.37 259.46
BGN 0.0044166 135 GTEx DepMap Descartes 0.56 804.69
MMP2 0.0043332 137 GTEx DepMap Descartes 0.43 436.88
COL4A1 0.0040985 147 GTEx DepMap Descartes 0.70 329.95
DCN 0.0040748 151 GTEx DepMap Descartes 0.31 132.67
MYLK 0.0037222 169 GTEx DepMap Descartes 0.15 47.72
ACTA2 0.0028989 234 GTEx DepMap Descartes 0.26 475.83
TPM1 0.0028015 242 GTEx DepMap Descartes 0.59 373.38
VEGFA 0.0025854 265 GTEx DepMap Descartes 0.26 86.95
LUM 0.0024644 283 GTEx DepMap Descartes 0.33 355.26
CNN3 0.0024630 284 GTEx DepMap Descartes 0.28 439.37
TNC 0.0023736 301 GTEx DepMap Descartes 0.57 167.20
MYH11 0.0021608 336 GTEx DepMap Descartes 0.09 37.73
COL15A1 0.0020944 352 GTEx DepMap Descartes 0.12 69.54
THY1 0.0020894 354 GTEx DepMap Descartes 0.25 184.29
TGFBR2 0.0019092 400 GTEx DepMap Descartes 0.21 98.86
TGFBR1 0.0018023 425 GTEx DepMap Descartes 0.24 118.03
CNN2 0.0015670 505 GTEx DepMap Descartes 0.11 140.21
TMEM119 0.0012549 643 GTEx DepMap Descartes 0.04 39.87
ITGA7 0.0011737 697 GTEx DepMap Descartes 0.07 43.55
ACTG2 0.0009105 884 GTEx DepMap Descartes 0.01 42.26
IGFBP3 0.0006142 1267 GTEx DepMap Descartes 0.09 67.23
WNT5A 0.0005489 1365 GTEx DepMap Descartes 0.01 6.06
TGFB2 0.0004982 1460 GTEx DepMap Descartes 0.08 34.07
TGFB1 0.0004847 1501 GTEx DepMap Descartes 0.11 125.07
MEF2C 0.0004362 1616 GTEx DepMap Descartes 0.37 109.65
COL10A1 0.0003669 1823 GTEx DepMap Descartes 0.02 12.12
COL13A1 0.0002644 2260 GTEx DepMap Descartes 0.04 42.21
POSTN 0.0002049 2624 GTEx DepMap Descartes 0.60 402.72
MMP11 0.0000721 3925 GTEx DepMap Descartes 0.03 23.03
HOPX -0.0000563 6493 GTEx DepMap Descartes 0.01 6.16
PGF -0.0002571 10774 GTEx DepMap Descartes 0.01 11.17
RGS5 -0.0007007 12388 GTEx DepMap Descartes 0.23 76.78


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: 7.47e-10
Mean rank of genes in gene set: 1899.44
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
IGF1 0.0127384 7 GTEx DepMap Descartes 0.52 280.94
IL1R1 0.0116421 11 GTEx DepMap Descartes 0.57 438.89
CCL2 0.0047007 126 GTEx DepMap Descartes 0.40 1431.07
C3 0.0044258 133 GTEx DepMap Descartes 1.17 892.06
PDGFD 0.0042327 142 GTEx DepMap Descartes 0.17 152.52
C7 0.0037792 163 GTEx DepMap Descartes 0.26 178.99
LIF 0.0037336 167 GTEx DepMap Descartes 0.11 89.63
PDGFRA 0.0036603 172 GTEx DepMap Descartes 0.10 47.26
PDPN 0.0035446 179 GTEx DepMap Descartes 0.05 51.17
PDGFRB 0.0031915 203 GTEx DepMap Descartes 0.28 133.37
SERPING1 0.0019827 383 GTEx DepMap Descartes 0.26 353.06
CXCL12 0.0018440 409 GTEx DepMap Descartes 0.11 112.04
GPX3 0.0011948 683 GTEx DepMap Descartes 0.08 176.60
IL33 0.0008413 945 GTEx DepMap Descartes 0.05 33.56
CXCL2 0.0007630 1038 GTEx DepMap Descartes 0.11 390.83
SOD2 0.0007263 1078 GTEx DepMap Descartes 0.34 82.06
CFD 0.0004466 1596 GTEx DepMap Descartes 0.02 61.63
CFB 0.0004229 1653 GTEx DepMap Descartes 0.05 67.25
IGFBP6 0.0003229 1988 GTEx DepMap Descartes 0.05 115.03
CXCL14 0.0000556 4167 GTEx DepMap Descartes 0.02 12.83
IL10 0.0000278 4584 GTEx DepMap Descartes 0.00 0.00
SCARA5 -0.0000036 5176 GTEx DepMap Descartes 0.00 0.00
SCARA3 -0.0000099 5308 GTEx DepMap Descartes 0.02 8.35
RGMA -0.0000677 6805 GTEx DepMap Descartes 0.02 2.76
HGF -0.0002276 10370 GTEx DepMap Descartes 0.02 13.60


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: 4.96e-09
Mean rank of genes in gene set: 518.38
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
COL3A1 0.0083839 28 GTEx DepMap Descartes 3.01 1612.77
CALD1 0.0078469 35 GTEx DepMap Descartes 2.31 1398.36
SPARC 0.0069452 54 GTEx DepMap Descartes 1.85 1622.50
COL6A2 0.0069345 55 GTEx DepMap Descartes 1.09 1004.38
MGP 0.0067685 59 GTEx DepMap Descartes 0.73 1434.24
COL1A2 0.0063551 68 GTEx DepMap Descartes 4.66 2495.84
PRRX1 0.0060186 77 GTEx DepMap Descartes 0.33 235.66
COL1A1 0.0047772 121 GTEx DepMap Descartes 3.58 1668.72
BGN 0.0044166 135 GTEx DepMap Descartes 0.56 804.69
DCN 0.0040748 151 GTEx DepMap Descartes 0.31 132.67
PDGFRA 0.0036603 172 GTEx DepMap Descartes 0.10 47.26
LUM 0.0024644 283 GTEx DepMap Descartes 0.33 355.26
LEPR -0.0000176 5501 GTEx DepMap Descartes 0.05 17.14




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: 9945.28
Median rank of genes in gene set: 11366
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
DPYSL3 0.0020628 359 GTEx DepMap Descartes 0.68 357.74
CELF2 0.0012775 633 GTEx DepMap Descartes 0.33 102.68
AKAP12 0.0011400 719 GTEx DepMap Descartes 0.54 195.17
NFIL3 0.0009998 822 GTEx DepMap Descartes 0.08 166.47
EML4 0.0007519 1049 GTEx DepMap Descartes 0.48 247.95
PRSS12 0.0006960 1129 GTEx DepMap Descartes 0.13 74.10
SLIT3 0.0006544 1191 GTEx DepMap Descartes 1.05 264.35
PTS 0.0006534 1193 GTEx DepMap Descartes 0.17 536.01
GRB10 0.0006209 1253 GTEx DepMap Descartes 0.22 130.39
LMO3 0.0005458 1369 GTEx DepMap Descartes 0.01 8.72
RALGDS 0.0003061 2074 GTEx DepMap Descartes 0.23 121.93
KLF13 0.0002680 2236 GTEx DepMap Descartes 0.09 35.88
PARP6 0.0002646 2259 GTEx DepMap Descartes 0.15 136.61
FHOD3 0.0002627 2268 GTEx DepMap Descartes 0.20 97.05
ABLIM1 0.0002536 2315 GTEx DepMap Descartes 0.19 69.83
KLC1 0.0002240 2487 GTEx DepMap Descartes 0.23 41.39
GDI1 0.0002182 2523 GTEx DepMap Descartes 0.21 162.97
NEFL 0.0001933 2704 GTEx DepMap Descartes 0.06 64.04
GLDC 0.0001791 2812 GTEx DepMap Descartes 0.02 12.89
PBX3 0.0001640 2932 GTEx DepMap Descartes 0.40 411.62
BMP7 0.0001482 3067 GTEx DepMap Descartes 0.02 12.91
NCS1 0.0001417 3130 GTEx DepMap Descartes 0.06 32.29
SYT4 0.0001359 3187 GTEx DepMap Descartes 0.12 117.72
RPS6KA2 0.0001206 3346 GTEx DepMap Descartes 0.16 56.07
EVL 0.0001062 3496 GTEx DepMap Descartes 0.46 289.59
TUBB4B 0.0001010 3573 GTEx DepMap Descartes 0.11 179.05
NAPB 0.0000955 3644 GTEx DepMap Descartes 0.07 53.53
NCOA7 0.0000859 3757 GTEx DepMap Descartes 0.38 NA
RUFY3 0.0000594 4109 GTEx DepMap Descartes 0.33 200.09
ARHGEF7 0.0000552 4174 GTEx DepMap Descartes 0.20 101.45


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: 9.53e-104
Mean rank of genes in gene set: 2589.22
Median rank of genes in gene set: 1134
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
THBS1 0.0168432 1 GTEx DepMap Descartes 1.73 816.02
ANXA1 0.0130613 6 GTEx DepMap Descartes 1.19 1911.66
COL5A2 0.0124605 8 GTEx DepMap Descartes 1.46 665.52
COL12A1 0.0109872 15 GTEx DepMap Descartes 0.54 138.89
EMP1 0.0102362 18 GTEx DepMap Descartes 0.89 572.62
PLOD2 0.0086185 25 GTEx DepMap Descartes 0.46 385.65
COL3A1 0.0083839 28 GTEx DepMap Descartes 3.01 1612.77
AEBP1 0.0082526 29 GTEx DepMap Descartes 1.56 1518.95
TIMP1 0.0079781 32 GTEx DepMap Descartes 2.25 7429.49
CALD1 0.0078469 35 GTEx DepMap Descartes 2.31 1398.36
COL5A1 0.0073162 44 GTEx DepMap Descartes 0.74 286.41
CDH11 0.0070042 50 GTEx DepMap Descartes 0.59 258.81
SPARC 0.0069452 54 GTEx DepMap Descartes 1.85 1622.50
COL6A2 0.0069345 55 GTEx DepMap Descartes 1.09 1004.38
FN1 0.0068893 57 GTEx DepMap Descartes 2.55 781.35
MGP 0.0067685 59 GTEx DepMap Descartes 0.73 1434.24
ZFP36L1 0.0067114 60 GTEx DepMap Descartes 0.65 770.15
CCDC80 0.0067113 61 GTEx DepMap Descartes 0.34 85.92
MICAL2 0.0064247 65 GTEx DepMap Descartes 0.27 125.08
LMNA 0.0064104 66 GTEx DepMap Descartes 1.19 1360.85
SGK1 0.0063470 69 GTEx DepMap Descartes 0.43 300.15
TPM2 0.0063172 71 GTEx DepMap Descartes 0.50 1096.28
MRC2 0.0061045 74 GTEx DepMap Descartes 0.48 316.42
PRRX1 0.0060186 77 GTEx DepMap Descartes 0.33 235.66
FBN1 0.0059217 80 GTEx DepMap Descartes 0.64 151.82
VIM 0.0059102 83 GTEx DepMap Descartes 1.18 1556.78
LTBP1 0.0058837 84 GTEx DepMap Descartes 0.30 158.89
LPP 0.0058596 85 GTEx DepMap Descartes 1.34 192.85
EGR1 0.0056055 90 GTEx DepMap Descartes 0.80 963.90
COL11A1 0.0056019 91 GTEx DepMap Descartes 0.30 107.88


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: 9.19e-01
Mean rank of genes in gene set: 7118.86
Median rank of genes in gene set: 7686
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SH3PXD2B 0.0023996 297 GTEx DepMap Descartes 0.25 93.44
PAPSS2 0.0008393 949 GTEx DepMap Descartes 0.12 70.34
LDLR 0.0003523 1870 GTEx DepMap Descartes 0.15 89.60
NPC1 0.0003187 2012 GTEx DepMap Descartes 0.12 70.39
APOC1 0.0002551 2307 GTEx DepMap Descartes 0.38 2374.86
DHCR7 0.0002266 2470 GTEx DepMap Descartes 0.04 49.65
SH3BP5 0.0001881 2747 GTEx DepMap Descartes 0.08 83.40
ERN1 0.0001875 2751 GTEx DepMap Descartes 0.07 24.39
DHCR24 0.0001185 3368 GTEx DepMap Descartes 0.07 53.94
FDX1 0.0000850 3769 GTEx DepMap Descartes 0.02 33.38
PDE10A 0.0000319 4518 GTEx DepMap Descartes 0.32 83.68
INHA 0.0000167 4771 GTEx DepMap Descartes 0.01 21.14
SCAP -0.0000396 6085 GTEx DepMap Descartes 0.10 66.77
HMGCS1 -0.0000437 6185 GTEx DepMap Descartes 0.06 32.86
STAR -0.0000454 6225 GTEx DepMap Descartes 0.00 0.00
CLU -0.0000645 6714 GTEx DepMap Descartes 0.24 246.78
GRAMD1B -0.0000675 6800 GTEx DepMap Descartes 0.04 15.57
POR -0.0000722 6918 GTEx DepMap Descartes 0.06 64.34
BAIAP2L1 -0.0001328 8454 GTEx DepMap Descartes 0.08 62.22
FREM2 -0.0001341 8490 GTEx DepMap Descartes 0.00 0.74
IGF1R -0.0001368 8563 GTEx DepMap Descartes 0.40 74.29
FDXR -0.0001446 8759 GTEx DepMap Descartes 0.02 23.15
MSMO1 -0.0001727 9368 GTEx DepMap Descartes 0.03 72.51
HMGCR -0.0001926 9763 GTEx DepMap Descartes 0.06 35.19
SCARB1 -0.0002073 10045 GTEx DepMap Descartes 0.07 32.57
FDPS -0.0002151 10173 GTEx DepMap Descartes 0.17 227.54
CYB5B -0.0002250 10331 GTEx DepMap Descartes 0.07 37.79
SGCZ -0.0002264 10355 GTEx DepMap Descartes 0.08 28.40
TM7SF2 -0.0002304 10410 GTEx DepMap Descartes 0.03 26.98
GSTA4 -0.0002447 10634 GTEx DepMap Descartes 0.07 84.58


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: 11243.88
Median rank of genes in gene set: 12244
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GREM1 0.0065939 63 GTEx DepMap Descartes 0.15 39.43
RPH3A 0.0000134 4841 GTEx DepMap Descartes 0.03 7.97
BASP1 -0.0001046 7790 GTEx DepMap Descartes 0.31 483.81
PLXNA4 -0.0001075 7867 GTEx DepMap Descartes 0.20 29.71
GAL -0.0001479 8831 GTEx DepMap Descartes 0.19 824.43
TUBB2A -0.0001529 8958 GTEx DepMap Descartes 0.20 446.62
SYNPO2 -0.0002043 9986 GTEx DepMap Descartes 0.25 44.93
CNTFR -0.0002688 10900 GTEx DepMap Descartes 0.04 34.54
MAB21L1 -0.0002916 11135 GTEx DepMap Descartes 0.03 25.18
MAB21L2 -0.0002964 11183 GTEx DepMap Descartes 0.02 18.25
RGMB -0.0003367 11490 GTEx DepMap Descartes 0.07 34.01
MAP1B -0.0003521 11586 GTEx DepMap Descartes 0.59 129.33
GAP43 -0.0003848 11760 GTEx DepMap Descartes 0.25 291.79
SLC6A2 -0.0003904 11781 GTEx DepMap Descartes 0.04 21.95
REEP1 -0.0003938 11801 GTEx DepMap Descartes 0.06 33.87
PTCHD1 -0.0003939 11802 GTEx DepMap Descartes 0.03 2.66
MLLT11 -0.0004182 11904 GTEx DepMap Descartes 0.16 200.56
FAT3 -0.0004313 11950 GTEx DepMap Descartes 0.11 10.28
TMEFF2 -0.0004447 11997 GTEx DepMap Descartes 0.05 33.31
NTRK1 -0.0004961 12130 GTEx DepMap Descartes 0.06 50.13
EPHA6 -0.0005587 12244 GTEx DepMap Descartes 0.19 57.75
CNKSR2 -0.0006137 12307 GTEx DepMap Descartes 0.15 26.74
HS3ST5 -0.0006545 12343 GTEx DepMap Descartes 0.19 71.20
SLC44A5 -0.0006571 12347 GTEx DepMap Descartes 0.18 78.07
ANKFN1 -0.0006599 12351 GTEx DepMap Descartes 0.13 24.96
ISL1 -0.0007051 12394 GTEx DepMap Descartes 0.14 97.53
KCNB2 -0.0007816 12428 GTEx DepMap Descartes 0.20 52.54
EYA1 -0.0008146 12439 GTEx DepMap Descartes 0.17 56.42
MARCH11 -0.0008156 12440 GTEx DepMap Descartes 0.25 NA
EYA4 -0.0008616 12453 GTEx DepMap Descartes 0.18 45.00


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: 2.87e-02
Mean rank of genes in gene set: 5160.13
Median rank of genes in gene set: 4190
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TMEM88 0.0011749 695 GTEx DepMap Descartes 0.08 302.58
CALCRL 0.0008914 897 GTEx DepMap Descartes 0.14 66.10
FLT4 0.0008338 962 GTEx DepMap Descartes 0.03 17.75
NPR1 0.0005753 1317 GTEx DepMap Descartes 0.00 4.52
CRHBP 0.0004890 1491 GTEx DepMap Descartes 0.00 1.09
GALNT15 0.0004262 1646 GTEx DepMap Descartes 0.02 NA
KANK3 0.0003600 1846 GTEx DepMap Descartes 0.05 49.13
RASIP1 0.0003065 2070 GTEx DepMap Descartes 0.02 13.08
SHANK3 0.0002971 2108 GTEx DepMap Descartes 0.06 18.70
ARHGAP29 0.0002154 2542 GTEx DepMap Descartes 0.15 57.03
SLCO2A1 0.0002130 2557 GTEx DepMap Descartes 0.03 19.81
CYP26B1 0.0002050 2622 GTEx DepMap Descartes 0.01 4.77
TEK 0.0001631 2943 GTEx DepMap Descartes 0.02 9.63
TIE1 0.0001403 3144 GTEx DepMap Descartes 0.03 21.21
ROBO4 0.0001207 3345 GTEx DepMap Descartes 0.01 6.14
CDH5 0.0001088 3473 GTEx DepMap Descartes 0.01 3.63
KDR 0.0001052 3508 GTEx DepMap Descartes 0.03 17.52
ID1 0.0000642 4028 GTEx DepMap Descartes 0.11 315.24
NR5A2 0.0000560 4162 GTEx DepMap Descartes 0.07 54.01
BTNL9 0.0000519 4218 GTEx DepMap Descartes 0.00 1.68
EHD3 0.0000468 4286 GTEx DepMap Descartes 0.02 14.01
SHE 0.0000193 4719 GTEx DepMap Descartes 0.01 2.74
MMRN2 0.0000030 5042 GTEx DepMap Descartes 0.01 3.42
HYAL2 -0.0000023 5149 GTEx DepMap Descartes 0.03 19.01
IRX3 -0.0000588 6552 GTEx DepMap Descartes 0.01 6.47
NOTCH4 -0.0000617 6641 GTEx DepMap Descartes 0.04 14.43
F8 -0.0000675 6798 GTEx DepMap Descartes 0.00 0.18
PTPRB -0.0000816 7162 GTEx DepMap Descartes 0.11 24.87
PODXL -0.0000869 7312 GTEx DepMap Descartes 0.04 18.99
CEACAM1 -0.0001157 8065 GTEx DepMap Descartes 0.02 19.60


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: 4.01e-17
Mean rank of genes in gene set: 1733.05
Median rank of genes in gene set: 464
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
COL12A1 0.0109872 15 GTEx DepMap Descartes 0.54 138.89
COL3A1 0.0083839 28 GTEx DepMap Descartes 3.01 1612.77
CDH11 0.0070042 50 GTEx DepMap Descartes 0.59 258.81
MGP 0.0067685 59 GTEx DepMap Descartes 0.73 1434.24
CCDC80 0.0067113 61 GTEx DepMap Descartes 0.34 85.92
COL1A2 0.0063551 68 GTEx DepMap Descartes 4.66 2495.84
ITGA11 0.0061151 73 GTEx DepMap Descartes 0.22 60.63
PRRX1 0.0060186 77 GTEx DepMap Descartes 0.33 235.66
SFRP2 0.0057483 86 GTEx DepMap Descartes 0.23 375.99
GLI2 0.0055992 92 GTEx DepMap Descartes 0.23 117.09
ELN 0.0052270 104 GTEx DepMap Descartes 0.40 358.20
COL6A3 0.0048774 118 GTEx DepMap Descartes 0.70 193.72
COL1A1 0.0047772 121 GTEx DepMap Descartes 3.58 1668.72
DCN 0.0040748 151 GTEx DepMap Descartes 0.31 132.67
C7 0.0037792 163 GTEx DepMap Descartes 0.26 178.99
PDGFRA 0.0036603 172 GTEx DepMap Descartes 0.10 47.26
ADAMTS2 0.0035727 177 GTEx DepMap Descartes 0.35 172.42
ACTA2 0.0028989 234 GTEx DepMap Descartes 0.26 475.83
LOX 0.0026467 257 GTEx DepMap Descartes 0.09 67.43
LUM 0.0024644 283 GTEx DepMap Descartes 0.33 355.26
BICC1 0.0021420 341 GTEx DepMap Descartes 1.10 687.49
CD248 0.0017698 437 GTEx DepMap Descartes 0.09 84.30
COL27A1 0.0016191 491 GTEx DepMap Descartes 0.18 94.51
ABCC9 0.0015655 506 GTEx DepMap Descartes 0.11 29.54
EDNRA 0.0011858 687 GTEx DepMap Descartes 0.16 87.41
PRICKLE1 0.0010067 818 GTEx DepMap Descartes 0.46 185.47
ADAMTSL3 0.0009683 842 GTEx DepMap Descartes 0.07 24.40
PAMR1 0.0006514 1201 GTEx DepMap Descartes 0.07 64.52
IGFBP3 0.0006142 1267 GTEx DepMap Descartes 0.09 67.23
LAMC3 0.0005497 1362 GTEx DepMap Descartes 0.01 11.47


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: 1.00e+00
Mean rank of genes in gene set: 10390.71
Median rank of genes in gene set: 11893.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
PENK 0.0010229 807 GTEx DepMap Descartes 0.05 139.41
MGAT4C 0.0003982 1726 GTEx DepMap Descartes 0.22 22.01
GRM7 0.0002342 2407 GTEx DepMap Descartes 0.13 66.65
LAMA3 0.0001744 2848 GTEx DepMap Descartes 0.07 17.19
SORCS3 0.0000874 3740 GTEx DepMap Descartes 0.02 5.67
SLC24A2 -0.0001302 8401 GTEx DepMap Descartes 0.02 4.14
CNTN3 -0.0001367 8558 GTEx DepMap Descartes 0.04 12.29
DGKK -0.0001461 8789 GTEx DepMap Descartes 0.00 0.00
HTATSF1 -0.0001805 9523 GTEx DepMap Descartes 0.03 41.70
GCH1 -0.0002530 10718 GTEx DepMap Descartes 0.11 71.94
ARC -0.0002572 10776 GTEx DepMap Descartes 0.01 10.06
CDH12 -0.0003027 11241 GTEx DepMap Descartes 0.04 9.77
SLC35F3 -0.0003146 11333 GTEx DepMap Descartes 0.14 72.33
TBX20 -0.0003344 11468 GTEx DepMap Descartes 0.04 38.73
C1QL1 -0.0003622 11636 GTEx DepMap Descartes 0.02 22.55
KCTD16 -0.0003684 11683 GTEx DepMap Descartes 0.25 30.78
SPOCK3 -0.0003781 11733 GTEx DepMap Descartes 0.07 49.20
KSR2 -0.0003926 11790 GTEx DepMap Descartes 0.08 5.96
ST18 -0.0004073 11856 GTEx DepMap Descartes 0.03 10.69
PACRG -0.0004251 11931 GTEx DepMap Descartes 0.10 85.35
EML6 -0.0004633 12055 GTEx DepMap Descartes 0.21 39.75
GALNTL6 -0.0004660 12063 GTEx DepMap Descartes 0.08 48.25
GRID2 -0.0004925 12121 GTEx DepMap Descartes 0.14 27.58
TENM1 -0.0005134 12168 GTEx DepMap Descartes 0.17 NA
CDH18 -0.0005202 12181 GTEx DepMap Descartes 0.07 17.85
SLC18A1 -0.0005565 12243 GTEx DepMap Descartes 0.04 13.01
PCSK2 -0.0005596 12245 GTEx DepMap Descartes 0.07 20.26
TIAM1 -0.0006059 12305 GTEx DepMap Descartes 0.19 50.60
NTNG1 -0.0006270 12315 GTEx DepMap Descartes 0.15 37.75
PCSK1N -0.0007647 12418 GTEx DepMap Descartes 0.26 582.49


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: 7.16e-01
Mean rank of genes in gene set: 6658
Median rank of genes in gene set: 6290
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
MICAL2 0.0064247 65 GTEx DepMap Descartes 0.27 125.08
MARCH3 0.0021894 325 GTEx DepMap Descartes 0.23 NA
SPECC1 0.0007657 1035 GTEx DepMap Descartes 0.04 9.33
SLC25A37 0.0003746 1799 GTEx DepMap Descartes 0.11 65.56
GYPC 0.0002622 2274 GTEx DepMap Descartes 0.03 32.08
SLC25A21 0.0001417 3129 GTEx DepMap Descartes 0.01 4.60
DENND4A 0.0000732 3917 GTEx DepMap Descartes 0.37 116.17
CPOX 0.0000642 4030 GTEx DepMap Descartes 0.02 9.47
BLVRB 0.0000596 4106 GTEx DepMap Descartes 0.04 67.63
TRAK2 0.0000290 4564 GTEx DepMap Descartes 0.07 29.73
SNCA 0.0000077 4953 GTEx DepMap Descartes 0.08 62.59
ALAS2 -0.0000188 5526 GTEx DepMap Descartes 0.00 0.00
SELENBP1 -0.0000305 5829 GTEx DepMap Descartes 0.02 12.54
ABCB10 -0.0000320 5875 GTEx DepMap Descartes 0.06 33.31
RGS6 -0.0000483 6290 GTEx DepMap Descartes 0.01 1.07
SLC4A1 -0.0000612 6629 GTEx DepMap Descartes 0.00 0.00
CAT -0.0000913 7439 GTEx DepMap Descartes 0.03 40.95
RAPGEF2 -0.0000952 7543 GTEx DepMap Descartes 0.23 65.30
RHD -0.0001173 8108 GTEx DepMap Descartes 0.01 2.18
TMCC2 -0.0001688 9287 GTEx DepMap Descartes 0.00 1.59
SPTB -0.0001815 9544 GTEx DepMap Descartes 0.03 4.80
FECH -0.0002021 9954 GTEx DepMap Descartes 0.02 5.67
GCLC -0.0002617 10828 GTEx DepMap Descartes 0.06 53.67
XPO7 -0.0002632 10843 GTEx DepMap Descartes 0.09 31.71
TSPAN5 -0.0003319 11455 GTEx DepMap Descartes 0.28 156.94
TFR2 -0.0003735 11709 GTEx DepMap Descartes 0.06 46.21
ANK1 -0.0004357 11960 GTEx DepMap Descartes 0.04 8.64
SOX6 -0.0004450 11999 GTEx DepMap Descartes 0.21 46.03
EPB41 -0.0004684 12067 GTEx DepMap Descartes 0.15 53.63
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: 3.87e-02
Mean rank of genes in gene set: 5238.71
Median rank of genes in gene set: 4270.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
AXL 0.0037928 162 GTEx DepMap Descartes 0.18 127.36
HRH1 0.0032247 199 GTEx DepMap Descartes 0.13 75.60
PTPRE 0.0022303 316 GTEx DepMap Descartes 0.37 216.26
TGFBI 0.0017941 429 GTEx DepMap Descartes 0.22 147.70
ABCA1 0.0013110 621 GTEx DepMap Descartes 0.18 63.86
SLC9A9 0.0012448 651 GTEx DepMap Descartes 0.17 120.03
ITPR2 0.0010099 815 GTEx DepMap Descartes 0.29 70.27
CTSC 0.0006933 1131 GTEx DepMap Descartes 0.07 41.68
SLCO2B1 0.0005947 1289 GTEx DepMap Descartes 0.06 28.32
CTSD 0.0005286 1395 GTEx DepMap Descartes 0.40 747.98
CTSB 0.0005285 1396 GTEx DepMap Descartes 0.40 366.30
CSF1R 0.0005025 1451 GTEx DepMap Descartes 0.04 23.22
ATP8B4 0.0002548 2309 GTEx DepMap Descartes 0.04 18.59
IFNGR1 0.0002020 2634 GTEx DepMap Descartes 0.10 132.59
CD14 0.0001970 2675 GTEx DepMap Descartes 0.06 157.97
MSR1 0.0001632 2941 GTEx DepMap Descartes 0.07 62.11
MERTK 0.0000884 3729 GTEx DepMap Descartes 0.04 45.01
RBPJ 0.0000761 3873 GTEx DepMap Descartes 0.31 145.75
LGMN 0.0000755 3880 GTEx DepMap Descartes 0.09 146.90
CST3 0.0000235 4661 GTEx DepMap Descartes 0.21 186.62
SFMBT2 0.0000176 4747 GTEx DepMap Descartes 0.21 59.47
CD163 -0.0000225 5614 GTEx DepMap Descartes 0.02 12.79
SLC1A3 -0.0000306 5832 GTEx DepMap Descartes 0.03 22.49
ADAP2 -0.0000319 5869 GTEx DepMap Descartes 0.04 39.09
CPVL -0.0000476 6268 GTEx DepMap Descartes 0.04 68.57
MS4A4A -0.0000862 7284 GTEx DepMap Descartes 0.01 27.41
HCK -0.0001203 8180 GTEx DepMap Descartes 0.01 14.50
WWP1 -0.0001524 8947 GTEx DepMap Descartes 0.14 77.96
CD74 -0.0001866 9655 GTEx DepMap Descartes 0.18 147.26
MARCH1 -0.0002050 10000 GTEx DepMap Descartes 0.08 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: 6.16e-02
Mean rank of genes in gene set: 5434.43
Median rank of genes in gene set: 3303.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
COL5A2 0.0124605 8 GTEx DepMap Descartes 1.46 665.52
VCAN 0.0114270 12 GTEx DepMap Descartes 1.26 328.37
VIM 0.0059102 83 GTEx DepMap Descartes 1.18 1556.78
GAS7 0.0055992 93 GTEx DepMap Descartes 0.42 162.51
COL18A1 0.0043111 139 GTEx DepMap Descartes 0.78 403.42
STARD13 0.0026368 258 GTEx DepMap Descartes 0.40 183.38
LAMC1 0.0018290 415 GTEx DepMap Descartes 0.37 131.94
LAMA4 0.0008953 895 GTEx DepMap Descartes 0.09 32.67
EDNRB 0.0007946 1002 GTEx DepMap Descartes 0.01 12.01
HMGA2 0.0007925 1008 GTEx DepMap Descartes 0.04 6.33
PLCE1 0.0006629 1175 GTEx DepMap Descartes 0.13 20.80
KCTD12 0.0006425 1215 GTEx DepMap Descartes 0.06 28.70
FIGN 0.0005316 1389 GTEx DepMap Descartes 0.19 49.24
PMP22 0.0005252 1405 GTEx DepMap Descartes 0.29 442.63
NRXN3 0.0003913 1741 GTEx DepMap Descartes 0.42 130.80
SFRP1 0.0003904 1745 GTEx DepMap Descartes 0.08 46.38
PTPRZ1 0.0003589 1854 GTEx DepMap Descartes 0.03 6.53
IL1RAPL2 0.0003475 1884 GTEx DepMap Descartes 0.12 95.51
IL1RAPL1 0.0003062 2072 GTEx DepMap Descartes 0.21 132.03
DST 0.0002908 2127 GTEx DepMap Descartes 1.25 145.76
OLFML2A 0.0002612 2282 GTEx DepMap Descartes 0.03 9.83
PLP1 0.0001832 2785 GTEx DepMap Descartes 0.01 7.38
GRIK3 0.0000808 3822 GTEx DepMap Descartes 0.02 6.09
SLC35F1 0.0000708 3944 GTEx DepMap Descartes 0.07 19.56
COL25A1 0.0000558 4165 GTEx DepMap Descartes 0.02 6.85
ADAMTS5 -0.0000037 5179 GTEx DepMap Descartes 0.04 10.60
MDGA2 -0.0000449 6208 GTEx DepMap Descartes 0.00 0.00
MPZ -0.0001358 8532 GTEx DepMap Descartes 0.00 3.96
LAMB1 -0.0001447 8761 GTEx DepMap Descartes 0.23 93.19
TRPM3 -0.0001614 9143 GTEx DepMap Descartes 0.10 16.17


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: 1.06e-06
Mean rank of genes in gene set: 3719.33
Median rank of genes in gene set: 2066
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
THBS1 0.0168432 1 GTEx DepMap Descartes 1.73 816.02
LTBP1 0.0058837 84 GTEx DepMap Descartes 0.30 158.89
FLNA 0.0040770 150 GTEx DepMap Descartes 0.57 233.83
MYLK 0.0037222 169 GTEx DepMap Descartes 0.15 47.72
GSN 0.0033081 191 GTEx DepMap Descartes 0.36 183.13
VCL 0.0030718 216 GTEx DepMap Descartes 0.34 117.89
ACTN1 0.0028670 238 GTEx DepMap Descartes 0.49 310.53
SLC2A3 0.0027997 243 GTEx DepMap Descartes 0.43 299.70
MYH9 0.0023557 303 GTEx DepMap Descartes 0.41 167.58
SLC24A3 0.0020378 368 GTEx DepMap Descartes 0.14 117.78
ARHGAP6 0.0018200 420 GTEx DepMap Descartes 0.10 43.11
TPM4 0.0017085 455 GTEx DepMap Descartes 0.27 162.85
PDE3A 0.0016581 474 GTEx DepMap Descartes 0.65 247.43
TRPC6 0.0014400 556 GTEx DepMap Descartes 0.06 43.04
LIMS1 0.0013580 592 GTEx DepMap Descartes 0.28 180.59
STOM 0.0013195 611 GTEx DepMap Descartes 0.10 112.91
P2RX1 0.0012757 635 GTEx DepMap Descartes 0.02 33.60
UBASH3B 0.0012577 642 GTEx DepMap Descartes 0.18 83.90
ZYX 0.0011594 704 GTEx DepMap Descartes 0.13 196.09
RAP1B 0.0006884 1134 GTEx DepMap Descartes 0.21 53.91
TGFB1 0.0004847 1501 GTEx DepMap Descartes 0.11 125.07
FLI1 0.0003716 1805 GTEx DepMap Descartes 0.11 45.62
ACTB 0.0003073 2066 GTEx DepMap Descartes 1.92 2597.29
DOK6 0.0002779 2193 GTEx DepMap Descartes 0.18 55.36
STON2 0.0002537 2314 GTEx DepMap Descartes 0.06 32.93
CD9 0.0001968 2678 GTEx DepMap Descartes 0.11 184.21
PSTPIP2 0.0001922 2710 GTEx DepMap Descartes 0.02 18.86
MMRN1 0.0001446 3095 GTEx DepMap Descartes 0.01 3.24
TLN1 0.0001438 3107 GTEx DepMap Descartes 0.06 19.72
ANGPT1 0.0001290 3257 GTEx DepMap Descartes 0.02 13.55


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: 4.63e-01
Mean rank of genes in gene set: 6223.55
Median rank of genes in gene set: 5102
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ARID5B 0.0050003 116 GTEx DepMap Descartes 0.54 213.33
MCTP2 0.0030986 213 GTEx DepMap Descartes 0.10 37.00
MBNL1 0.0017667 438 GTEx DepMap Descartes 0.60 268.37
FOXP1 0.0015683 504 GTEx DepMap Descartes 1.49 449.37
CELF2 0.0012775 633 GTEx DepMap Descartes 0.33 102.68
ETS1 0.0012221 663 GTEx DepMap Descartes 0.19 116.40
ITPKB 0.0012033 672 GTEx DepMap Descartes 0.08 34.78
SP100 0.0011950 682 GTEx DepMap Descartes 0.17 97.14
MSN 0.0011259 734 GTEx DepMap Descartes 0.13 91.22
SAMD3 0.0005985 1284 GTEx DepMap Descartes 0.05 27.81
PRKCH 0.0005982 1286 GTEx DepMap Descartes 0.17 113.44
CD44 0.0004975 1462 GTEx DepMap Descartes 0.42 196.53
ABLIM1 0.0002536 2315 GTEx DepMap Descartes 0.19 69.83
LEF1 0.0001287 3261 GTEx DepMap Descartes 0.04 26.07
ARHGDIB 0.0001067 3492 GTEx DepMap Descartes 0.03 52.64
EVL 0.0001062 3496 GTEx DepMap Descartes 0.46 289.59
NCALD 0.0000861 3755 GTEx DepMap Descartes 0.20 125.85
WIPF1 0.0000822 3801 GTEx DepMap Descartes 0.16 88.37
CCND3 0.0000662 3997 GTEx DepMap Descartes 0.11 128.23
PLEKHA2 0.0000252 4634 GTEx DepMap Descartes 0.06 35.39
CCL5 0.0000019 5060 GTEx DepMap Descartes 0.01 18.84
BACH2 -0.0000020 5144 GTEx DepMap Descartes 0.39 114.82
SKAP1 -0.0000627 6666 GTEx DepMap Descartes 0.02 27.41
DOCK10 -0.0000693 6841 GTEx DepMap Descartes 0.22 78.94
ARHGAP15 -0.0000718 6906 GTEx DepMap Descartes 0.19 137.32
ANKRD44 -0.0001427 8710 GTEx DepMap Descartes 0.22 61.74
PTPRC -0.0001436 8735 GTEx DepMap Descartes 0.03 25.98
IKZF1 -0.0002063 10021 GTEx DepMap Descartes 0.02 9.75
PITPNC1 -0.0002217 10272 GTEx DepMap Descartes 0.49 206.57
B2M -0.0002333 10460 GTEx DepMap Descartes 1.13 1002.93


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: 1.32e-03
Mean rank of genes in gene set: 2644.11
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
SMOC2 0.0060869 75 GTEx DepMap Descartes 0.23 243.55
PRRX1 0.0060186 77 GTEx DepMap Descartes 0.33 235.66
PDGFRA 0.0036603 172 GTEx DepMap Descartes 0.10 47.26
NTRK2 0.0017283 445 GTEx DepMap Descartes 0.12 44.14
EBF2 0.0010814 762 GTEx DepMap Descartes 0.04 20.41
SFRP1 0.0003904 1745 GTEx DepMap Descartes 0.08 46.38
F10 0.0001446 3096 GTEx DepMap Descartes 0.01 39.84
OLFML1 -0.0000389 6057 GTEx DepMap Descartes 0.00 2.19
ANGPTL1 -0.0003199 11368 GTEx DepMap Descartes 0.05 24.54


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: 1.61e-03
Mean rank of genes in gene set: 113.33
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
COL1A2 0.0063551 68 GTEx DepMap Descartes 4.66 2495.84
COL1A1 0.0047772 121 GTEx DepMap Descartes 3.58 1668.72
DCN 0.0040748 151 GTEx DepMap Descartes 0.31 132.67


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: 8.92e-03
Mean rank of genes in gene set: 207
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
AXL 0.0037928 162 GTEx DepMap Descartes 0.18 127.36
KLF4 0.0027032 252 GTEx DepMap Descartes 0.06 56.59