Program: 21. Ganglioneuroblastoma Stromal.

Program: 21. Ganglioneuroblastoma Stromal.



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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 LUM 0.0138274 lumican GTEx DepMap Descartes 26.68 3376.91
2 GSN 0.0124919 gelsolin GTEx DepMap Descartes 17.80 915.04
3 GLT8D2 0.0120590 glycosyltransferase 8 domain containing 2 GTEx DepMap Descartes 1.55 263.24
4 CYP1B1 0.0120067 cytochrome P450 family 1 subfamily B member 1 GTEx DepMap Descartes 5.27 322.03
5 OAF 0.0119821 out at first homolog GTEx DepMap Descartes 3.22 440.77
6 SERPINF1 0.0119705 serpin family F member 1 GTEx DepMap Descartes 14.41 3102.80
7 MEST 0.0114190 mesoderm specific transcript GTEx DepMap Descartes 6.93 838.83
8 DCN 0.0107483 decorin GTEx DepMap Descartes 25.11 1207.03
9 SRPX 0.0106881 sushi repeat containing protein X-linked GTEx DepMap Descartes 2.99 507.31
10 PRELP 0.0106436 proline and arginine rich end leucine rich repeat protein GTEx DepMap Descartes 1.40 76.18
11 GPC3 0.0106136 glypican 3 GTEx DepMap Descartes 1.66 236.48
12 IGFBP4 0.0105729 insulin like growth factor binding protein 4 GTEx DepMap Descartes 10.00 1330.84
13 OGN 0.0105432 osteoglycin GTEx DepMap Descartes 1.42 137.40
14 THBS4 0.0104271 thrombospondin 4 GTEx DepMap Descartes 1.61 169.83
15 SFRP4 0.0104192 secreted frizzled related protein 4 GTEx DepMap Descartes 3.80 430.31
16 OLFML3 0.0102556 olfactomedin like 3 GTEx DepMap Descartes 2.38 364.16
17 PDGFRL 0.0102352 platelet derived growth factor receptor like GTEx DepMap Descartes 1.18 199.83
18 PAMR1 0.0101720 peptidase domain containing associated with muscle regeneration 1 GTEx DepMap Descartes 1.05 111.97
19 VIT 0.0098341 vitrin GTEx DepMap Descartes 0.60 68.11
20 ENTPD2 0.0092916 ectonucleoside triphosphate diphosphohydrolase 2 GTEx DepMap Descartes 0.59 92.84
21 ISLR 0.0089532 immunoglobulin superfamily containing leucine rich repeat GTEx DepMap Descartes 1.13 158.71
22 IGF1 0.0087481 insulin like growth factor 1 GTEx DepMap Descartes 2.51 111.55
23 IGFBP6 0.0085069 insulin like growth factor binding protein 6 GTEx DepMap Descartes 7.25 2066.59
24 ABCA9 0.0085019 ATP binding cassette subfamily A member 9 GTEx DepMap Descartes 0.73 40.35
25 CAPN6 0.0083834 calpain 6 GTEx DepMap Descartes 0.41 40.62
26 NID1 0.0082693 nidogen 1 GTEx DepMap Descartes 1.55 89.45
27 MEOX2 0.0081966 mesenchyme homeobox 2 GTEx DepMap Descartes 0.55 76.84
28 CFH 0.0081620 complement factor H GTEx DepMap Descartes 1.87 93.89
29 HTRA3 0.0081438 HtrA serine peptidase 3 GTEx DepMap Descartes 1.23 168.44
30 OLFML2B 0.0081115 olfactomedin like 2B GTEx DepMap Descartes 1.78 181.28
31 PODNL1 0.0079822 podocan like 1 GTEx DepMap Descartes 0.79 98.04
32 OSR2 0.0078869 odd-skipped related transciption factor 2 GTEx DepMap Descartes 0.92 125.96
33 CLDN1 0.0078797 claudin 1 GTEx DepMap Descartes 0.80 81.41
34 SERPING1 0.0078600 serpin family G member 1 GTEx DepMap Descartes 4.00 571.95
35 IGFBP7 0.0078544 insulin like growth factor binding protein 7 GTEx DepMap Descartes 61.17 13079.71
36 SMOC2 0.0077968 SPARC related modular calcium binding 2 GTEx DepMap Descartes 1.46 148.89
37 TPD52L1 0.0076574 TPD52 like 1 GTEx DepMap Descartes 0.87 117.44
38 SRPX2 0.0076128 sushi repeat containing protein X-linked 2 GTEx DepMap Descartes 0.52 22.51
39 EBF2 0.0075319 EBF transcription factor 2 GTEx DepMap Descartes 0.69 46.97
40 LAMA2 0.0074205 laminin subunit alpha 2 GTEx DepMap Descartes 0.59 NA
41 NGF 0.0073412 nerve growth factor GTEx DepMap Descartes 0.73 227.48
42 COL3A1 0.0072907 collagen type III alpha 1 chain GTEx DepMap Descartes 9.81 598.99
43 FGF7 0.0072566 fibroblast growth factor 7 GTEx DepMap Descartes 1.68 105.66
44 ABCA6 0.0071748 ATP binding cassette subfamily A member 6 GTEx DepMap Descartes 0.96 42.52
45 FSTL1 0.0069029 follistatin like 1 GTEx DepMap Descartes 2.40 137.95
46 MMP2 0.0068056 matrix metallopeptidase 2 GTEx DepMap Descartes 2.19 208.77
47 CCL2 0.0066850 C-C motif chemokine ligand 2 GTEx DepMap Descartes 15.15 4998.17
48 CXCL12 0.0065680 C-X-C motif chemokine ligand 12 GTEx DepMap Descartes 2.09 200.10
49 EGFR 0.0065385 epidermal growth factor receptor GTEx DepMap Descartes 0.58 19.07
50 FBLN5 0.0065298 fibulin 5 GTEx DepMap Descartes 1.18 166.22


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UMAP plots showing activity of gene expression program identified in GEP 21. Ganglioneuroblastoma Stromal:

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
CUI_DEVELOPING_HEART_C3_FIBROBLAST_LIKE_CELL 1.40e-28 85.73 44.56 4.71e-26 9.41e-26
20LUM, GLT8D2, SERPINF1, MEST, DCN, SRPX, GPC3, OGN, OLFML3, ISLR, NID1, HTRA3, SERPING1, IGFBP7, SMOC2, EBF2, FSTL1, MMP2, CXCL12, FBLN5
 117
DESCARTES_FETAL_HEART_STROMAL_CELLS 5.80e-13 91.35 33.71 2.78e-11 3.89e-10
8LUM, SERPINF1, DCN, PRELP, GPC3, ISLR, ABCA9, HTRA3
 34
RUBENSTEIN_SKELETAL_MUSCLE_FAP_CELLS 3.06e-28 62.59 33.26 6.83e-26 2.05e-25
22LUM, GSN, SERPINF1, DCN, SFRP4, PDGFRL, VIT, ISLR, IGF1, IGFBP6, ABCA9, CFH, HTRA3, SERPING1, IGFBP7, SMOC2, LAMA2, COL3A1, FSTL1, MMP2, CXCL12, FBLN5
 179
TRAVAGLINI_LUNG_ADVENTITIAL_FIBROBLAST_CELL 2.21e-33 59.37 32.28 1.48e-30 1.48e-30
28LUM, GSN, CYP1B1, OAF, SERPINF1, DCN, SRPX, IGFBP4, OGN, SFRP4, OLFML3, PDGFRL, PAMR1, ISLR, IGF1, IGFBP6, ABCA9, CFH, HTRA3, OSR2, COL3A1, FGF7, ABCA6, FSTL1, MMP2, CCL2, CXCL12, FBLN5
 296
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_FIBROBLASTS_STROMAL_CELLS 2.42e-16 56.26 25.65 1.47e-14 1.62e-13
12LUM, GSN, CYP1B1, SERPINF1, DCN, IGFBP4, IGFBP6, SERPING1, IGFBP7, COL3A1, FGF7, CCL2
 82
GAO_LARGE_INTESTINE_24W_C1_DCLK1POS_PROGENITOR 5.13e-17 50.90 23.99 3.83e-15 3.44e-14
13LUM, SERPINF1, DCN, SRPX, OGN, PDGFRL, PAMR1, ISLR, SERPING1, LAMA2, COL3A1, MMP2, CCL2
 99
DESCARTES_FETAL_KIDNEY_STROMAL_CELLS 6.24e-18 40.86 20.21 6.98e-16 4.19e-15
15LUM, SERPINF1, DCN, SRPX, PRELP, OGN, ENTPD2, ISLR, IGF1, IGFBP6, HTRA3, OLFML2B, OSR2, EBF2, COL3A1
 146
DESCARTES_FETAL_ADRENAL_STROMAL_CELLS 1.27e-17 38.79 19.22 1.17e-15 8.53e-15
15LUM, CYP1B1, DCN, PRELP, OGN, PDGFRL, PAMR1, ISLR, IGFBP6, MEOX2, SRPX2, NGF, COL3A1, FGF7, ABCA6
 153
DESCARTES_FETAL_THYMUS_STROMAL_CELLS 1.00e-16 39.48 19.17 6.74e-15 6.74e-14
14LUM, MEST, DCN, SRPX, GPC3, OGN, OLFML3, ISLR, HTRA3, SERPING1, EBF2, COL3A1, FSTL1, MMP2
 137
CUI_DEVELOPING_HEART_SMOOTH_MUSCLE_CELL 6.52e-10 49.49 17.75 2.58e-08 4.38e-07
7SERPINF1, IGFBP4, PDGFRL, CFH, OLFML2B, OSR2, COL3A1
 48
AIZARANI_LIVER_C21_STELLATE_CELLS_1 1.40e-17 33.03 16.71 1.17e-15 9.37e-15
16LUM, GSN, SERPINF1, DCN, SRPX, PRELP, IGFBP4, OLFML3, CFH, IGFBP7, COL3A1, FSTL1, MMP2, CCL2, CXCL12, FBLN5
 194
FAN_OVARY_CL6_PUTATIVE_EARLY_ATRETIC_FOLLICLE_THECAL_CELL_2 3.09e-20 29.76 15.82 4.14e-18 2.07e-17
20LUM, GSN, SERPINF1, DCN, PRELP, GPC3, IGFBP4, OGN, SFRP4, OLFML3, PDGFRL, IGF1, CFH, OSR2, SERPING1, SMOC2, COL3A1, FSTL1, MMP2, CXCL12
 300
HAY_BONE_MARROW_STROMAL 5.49e-25 25.54 13.96 9.21e-23 3.69e-22
30LUM, GSN, GLT8D2, CYP1B1, DCN, SRPX, PRELP, IGFBP4, OLFML3, PDGFRL, ISLR, IGFBP6, ABCA9, NID1, CFH, OLFML2B, PODNL1, OSR2, SERPING1, IGFBP7, SMOC2, SRPX2, COL3A1, FGF7, ABCA6, FSTL1, MMP2, CCL2, CXCL12, EGFR
 765
DESCARTES_FETAL_STOMACH_STROMAL_CELLS 3.99e-08 38.66 12.81 1.05e-06 2.68e-05
6DCN, SRPX, CAPN6, OSR2, EBF2, COL3A1
 50
DESCARTES_FETAL_EYE_STROMAL_CELLS 2.03e-09 29.01 11.40 7.15e-08 1.36e-06
8LUM, DCN, OGN, PDGFRL, ISLR, IGFBP6, COL3A1, CXCL12
 90
RUBENSTEIN_SKELETAL_MUSCLE_FBN1_FAP_CELLS 7.12e-15 21.55 10.97 3.98e-13 4.77e-12
16GSN, SERPINF1, DCN, OLFML3, PDGFRL, VIT, ISLR, IGFBP6, NID1, HTRA3, OSR2, SERPING1, COL3A1, FSTL1, MMP2, FBLN5
 289
DESCARTES_FETAL_MUSCLE_STROMAL_CELLS 4.00e-09 26.41 10.42 1.34e-07 2.68e-06
8LUM, DCN, OGN, PDGFRL, ISLR, IGFBP6, SMOC2, COL3A1
 98
TRAVAGLINI_LUNG_LIPOFIBROBLAST_CELL 4.61e-09 20.03 8.39 1.47e-07 3.09e-06
9CYP1B1, OAF, SERPINF1, SRPX, IGFBP4, NGF, COL3A1, FGF7, CXCL12
 146
HU_FETAL_RETINA_FIBROBLAST 5.45e-13 15.94 8.14 2.78e-11 3.66e-10
16LUM, GLT8D2, OAF, MEST, DCN, IGFBP4, OGN, OLFML3, IGFBP6, NID1, IGFBP7, COL3A1, FSTL1, MMP2, CXCL12, EGFR
 385
TRAVAGLINI_LUNG_ALVEOLAR_FIBROBLAST_CELL 1.26e-08 17.70 7.43 3.86e-07 8.49e-06
9LUM, PRELP, GPC3, OLFML3, ISLR, SERPING1, ABCA6, MMP2, FBLN5
 164

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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 2.35e-10 18.65 8.48 1.18e-08 1.18e-08
11LUM, MEST, DCN, IGFBP4, SFRP4, LAMA2, COL3A1, FSTL1, MMP2, CXCL12, FBLN5
 200
HALLMARK_ANGIOGENESIS 3.84e-04 24.16 4.58 5.12e-03 1.92e-02
3LUM, COL3A1, FSTL1
 36
HALLMARK_MYOGENESIS 1.24e-04 8.78 3.02 3.09e-03 6.18e-03
6GSN, IGF1, IGFBP7, TPD52L1, LAMA2, COL3A1
 200
HALLMARK_APOPTOSIS 4.10e-04 8.90 2.72 5.12e-03 2.05e-02
5LUM, GSN, DCN, IGFBP6, MMP2
 161
HALLMARK_COAGULATION 2.09e-03 8.11 2.09 2.09e-02 1.05e-01
4GSN, CFH, SERPING1, MMP2
 138
HALLMARK_HYPOXIA 7.71e-03 5.55 1.44 4.82e-02 3.85e-01
4DCN, SRPX, GPC3, EGFR
 200
HALLMARK_ESTROGEN_RESPONSE_EARLY 7.71e-03 5.55 1.44 4.82e-02 3.85e-01
4IGFBP4, OLFML3, TPD52L1, CXCL12
 200
HALLMARK_ESTROGEN_RESPONSE_LATE 7.71e-03 5.55 1.44 4.82e-02 3.85e-01
4MEST, IGFBP4, TPD52L1, CXCL12
 200
HALLMARK_INTERFERON_GAMMA_RESPONSE 4.35e-02 4.05 0.80 2.18e-01 1.00e+00
3CFH, SERPING1, CCL2
 200
HALLMARK_GLYCOLYSIS 4.35e-02 4.05 0.80 2.18e-01 1.00e+00
3DCN, GPC3, EGFR
 200
HALLMARK_PI3K_AKT_MTOR_SIGNALING 6.46e-02 5.06 0.59 2.94e-01 1.00e+00
2NGF, EGFR
 105
HALLMARK_BILE_ACID_METABOLISM 7.22e-02 4.73 0.55 3.01e-01 1.00e+00
2ABCA9, ABCA6
 112
HALLMARK_UV_RESPONSE_DN 1.10e-01 3.67 0.43 4.24e-01 1.00e+00
2COL3A1, FBLN5
 144
HALLMARK_APICAL_JUNCTION 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2MMP2, EGFR
 200
HALLMARK_COMPLEMENT 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2CFH, SERPING1
 200
HALLMARK_INFLAMMATORY_RESPONSE 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2GPC3, CCL2
 200
HALLMARK_XENOBIOTIC_METABOLISM 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2IGFBP4, IGF1
 200
HALLMARK_ALLOGRAFT_REJECTION 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2CCL2, EGFR
 200
HALLMARK_KRAS_SIGNALING_UP 1.85e-01 2.63 0.31 4.62e-01 1.00e+00
2CFH, NGF
 200
HALLMARK_APICAL_SURFACE 1.61e-01 5.93 0.14 4.62e-01 1.00e+00
1SRPX
 44

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KEGG Pathways:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
KEGG_MELANOMA 2.77e-03 11.73 2.28 2.57e-01 5.15e-01
3IGF1, FGF7, EGFR
 71
KEGG_FOCAL_ADHESION 1.06e-03 7.16 2.19 1.96e-01 1.96e-01
5THBS4, IGF1, LAMA2, COL3A1, EGFR
 199
KEGG_ECM_RECEPTOR_INTERACTION 4.44e-03 9.85 1.92 2.75e-01 8.25e-01
3THBS4, LAMA2, COL3A1
 84
KEGG_BLADDER_CANCER 1.20e-02 13.01 1.48 3.49e-01 1.00e+00
2MMP2, EGFR
 42
KEGG_ABC_TRANSPORTERS 1.31e-02 12.39 1.41 3.49e-01 1.00e+00
2ABCA9, ABCA6
 44
KEGG_LEUKOCYTE_TRANSENDOTHELIAL_MIGRATION 1.07e-02 7.06 1.39 3.49e-01 1.00e+00
3CLDN1, MMP2, CXCL12
 116
KEGG_PATHWAYS_IN_CANCER 8.32e-03 4.34 1.34 3.49e-01 1.00e+00
5IGF1, LAMA2, FGF7, MMP2, EGFR
 325
KEGG_GLIOMA 2.73e-02 8.26 0.95 6.30e-01 1.00e+00
2IGF1, EGFR
 65
KEGG_COMPLEMENT_AND_COAGULATION_CASCADES 3.05e-02 7.77 0.90 6.30e-01 1.00e+00
2CFH, SERPING1
 69
KEGG_REGULATION_OF_ACTIN_CYTOSKELETON 5.07e-02 3.80 0.75 6.73e-01 1.00e+00
3GSN, FGF7, EGFR
 213
KEGG_HYPERTROPHIC_CARDIOMYOPATHY_HCM 4.26e-02 6.43 0.74 6.73e-01 1.00e+00
2IGF1, LAMA2
 83
KEGG_TGF_BETA_SIGNALING_PATHWAY 4.54e-02 6.20 0.72 6.73e-01 1.00e+00
2DCN, THBS4
 86
KEGG_PROSTATE_CANCER 4.83e-02 5.98 0.69 6.73e-01 1.00e+00
2IGF1, EGFR
 89
KEGG_DILATED_CARDIOMYOPATHY 4.93e-02 5.92 0.69 6.73e-01 1.00e+00
2IGF1, LAMA2
 90
KEGG_GNRH_SIGNALING_PATHWAY 6.04e-02 5.26 0.61 7.49e-01 1.00e+00
2MMP2, EGFR
 101
KEGG_CYTOKINE_CYTOKINE_RECEPTOR_INTERACTION 8.44e-02 3.05 0.60 9.39e-01 1.00e+00
3CCL2, CXCL12, EGFR
 265
KEGG_MAPK_SIGNALING_PATHWAY 8.58e-02 3.02 0.60 9.39e-01 1.00e+00
3NGF, FGF7, EGFR
 267
KEGG_CHEMOKINE_SIGNALING_PATHWAY 1.70e-01 2.79 0.33 1.00e+00 1.00e+00
2CCL2, CXCL12
 189
KEGG_DORSO_VENTRAL_AXIS_FORMATION 9.13e-02 11.08 0.26 9.43e-01 1.00e+00
1EGFR
 24
KEGG_TRYPTOPHAN_METABOLISM 1.47e-01 6.54 0.16 1.00e+00 1.00e+00
1CYP1B1
 40

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr17q24 5.32e-02 5.66 0.66 1.00e+00 1.00e+00
2ABCA9, ABCA6
 94
chr2p22 5.73e-02 5.42 0.63 1.00e+00 1.00e+00
2CYP1B1, VIT
 98
chr6q22 8.01e-02 4.45 0.52 1.00e+00 1.00e+00
2TPD52L1, LAMA2
 119
chr12q21 9.06e-02 4.13 0.48 1.00e+00 1.00e+00
2LUM, DCN
 128
chr12q23 1.11e-01 3.64 0.42 1.00e+00 1.00e+00
2GLT8D2, IGF1
 145
chr1p13 1.92e-01 2.57 0.30 1.00e+00 1.00e+00
2OLFML3, NGF
 205
chr3q28 1.13e-01 8.79 0.21 1.00e+00 1.00e+00
1CLDN1
 30
chr8p22 1.64e-01 5.80 0.14 1.00e+00 1.00e+00
1PDGFRL
 45
chr1q31 2.46e-01 3.64 0.09 1.00e+00 1.00e+00
1CFH
 71
chr6q27 2.58e-01 3.45 0.08 1.00e+00 1.00e+00
1SMOC2
 75
chr4q12 2.70e-01 3.27 0.08 1.00e+00 1.00e+00
1IGFBP7
 79
chr7p11 2.78e-01 3.15 0.08 1.00e+00 1.00e+00
1EGFR
 82
chr7p21 2.81e-01 3.11 0.08 1.00e+00 1.00e+00
1MEOX2
 83
chrXq23 2.98e-01 2.90 0.07 1.00e+00 1.00e+00
1CAPN6
 89
chr7q32 3.01e-01 2.87 0.07 1.00e+00 1.00e+00
1MEST
 90
chr16q12 3.17e-01 2.68 0.07 1.00e+00 1.00e+00
1MMP2
 96
chr2q32 3.49e-01 2.38 0.06 1.00e+00 1.00e+00
1COL3A1
 108
chr15q24 3.69e-01 2.22 0.05 1.00e+00 1.00e+00
1ISLR
 116
chr8p21 3.99e-01 2.01 0.05 1.00e+00 1.00e+00
1EBF2
 128
chr5q14 4.03e-01 1.98 0.05 1.00e+00 1.00e+00
1THBS4
 130

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
STAT3_01 3.40e-03 26.01 2.87 2.05e-01 1.00e+00
2SERPING1, CCL2
 22
PAX2_02 5.48e-04 6.58 2.27 2.05e-01 6.20e-01
6GLT8D2, GPC3, IGF1, ABCA6, FSTL1, EGFR
 265
RP58_01 1.39e-03 6.71 2.06 2.05e-01 1.00e+00
5GLT8D2, IGF1, SRPX2, COL3A1, FGF7
 212
WGGAATGY_TEF1_Q6 6.69e-04 5.36 2.02 2.05e-01 7.58e-01
7OLFML3, VIT, IGFBP6, NID1, SMOC2, SRPX2, FSTL1
 387
RTTTNNNYTGGM_UNKNOWN 3.17e-03 7.20 1.86 2.05e-01 1.00e+00
4PDGFRL, NGF, EGFR, FBLN5
 155
TITF1_Q3 2.55e-03 5.81 1.78 2.05e-01 1.00e+00
5OGN, MEOX2, CLDN1, FSTL1, EGFR
 244
TTCYNRGAA_STAT5B_01 1.95e-03 5.09 1.76 2.05e-01 1.00e+00
6SRPX, OLFML3, SERPING1, SRPX2, LAMA2, CCL2
 341
TGGAAA_NFAT_Q4_01 1.59e-04 3.36 1.75 1.80e-01 1.80e-01
17GSN, DCN, SRPX, PRELP, SFRP4, OLFML3, PAMR1, VIT, IGF1, CAPN6, MEOX2, IGFBP7, EBF2, NGF, FGF7, FSTL1, CCL2
 1934
STAT5B_01 3.07e-03 5.56 1.71 2.05e-01 1.00e+00
5SRPX, OLFML3, SERPING1, LAMA2, CCL2
 255
STAT5A_01 3.28e-03 5.47 1.68 2.05e-01 1.00e+00
5SRPX, OLFML3, SERPING1, LAMA2, CCL2
 259
GTGGGTGK_UNKNOWN 5.78e-03 4.76 1.46 2.73e-01 1.00e+00
5DCN, IGF1, IGFBP6, CAPN6, FSTL1
 297
WGTTNNNNNAAA_UNKNOWN 4.79e-03 3.72 1.41 2.59e-01 1.00e+00
7DCN, OGN, IGFBP6, CAPN6, EBF2, FGF7, MMP2
 554
HFH4_01 8.38e-03 5.41 1.40 3.45e-01 1.00e+00
4PAMR1, EBF2, ABCA6, FSTL1
 205
STAT5A_04 9.69e-03 5.18 1.34 3.54e-01 1.00e+00
4VIT, IGF1, CAPN6, FSTL1
 214
AGCYRWTTC_UNKNOWN 1.20e-02 6.76 1.33 3.58e-01 1.00e+00
3IGF1, MEOX2, FSTL1
 121
FOXM1_01 1.58e-02 4.45 1.16 4.10e-01 1.00e+00
4MEOX2, EBF2, COL3A1, FSTL1
 248
AP3_Q6 1.64e-02 4.40 1.14 4.10e-01 1.00e+00
4VIT, MEOX2, EBF2, FSTL1
 251
CP2_01 1.84e-02 4.25 1.10 4.10e-01 1.00e+00
4PRELP, GPC3, IGFBP6, NGF
 260
TEF_Q6 1.89e-02 4.21 1.09 4.10e-01 1.00e+00
4OLFML3, IGF1, EBF2, FGF7
 262
ALPHACP1_01 1.91e-02 4.20 1.09 4.10e-01 1.00e+00
4GPC3, OLFML3, EBF2, FGF7
 263

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_KERATAN_SULFATE_CATABOLIC_PROCESS 1.27e-05 88.17 14.90 8.88e-03 9.52e-02
3LUM, PRELP, OGN
 12
GOBP_KERATINOCYTE_APOPTOTIC_PROCESS 2.31e-04 129.66 11.45 6.91e-02 1.00e+00
2GSN, SFRP4
 6
GOBP_REGULATION_OF_INSULIN_LIKE_GROWTH_FACTOR_RECEPTOR_SIGNALING_PATHWAY 1.13e-04 37.87 7.01 4.45e-02 8.45e-01
3IGFBP4, IGF1, IGFBP6
 24
GOBP_AMINOGLYCAN_CATABOLIC_PROCESS 6.88e-06 22.02 6.60 7.03e-03 5.15e-02
5LUM, DCN, PRELP, GPC3, OGN
 68
GOBP_KERATAN_SULFATE_BIOSYNTHETIC_PROCESS 1.81e-04 31.85 5.95 5.63e-02 1.00e+00
3LUM, PRELP, OGN
 28
GOBP_SULFUR_COMPOUND_CATABOLIC_PROCESS 6.91e-05 20.88 5.27 3.58e-02 5.17e-01
4LUM, DCN, PRELP, OGN
 56
GOBP_KERATAN_SULFATE_METABOLIC_PROCESS 2.96e-04 26.56 5.01 8.52e-02 1.00e+00
3LUM, PRELP, OGN
 33
GOBP_POSITIVE_REGULATION_OF_INSULIN_LIKE_GROWTH_FACTOR_RECEPTOR_SIGNALING_PATHWAY 1.18e-03 47.19 4.96 1.96e-01 1.00e+00
2IGFBP4, IGF1
 13
GOBP_INSULIN_LIKE_GROWTH_FACTOR_RECEPTOR_SIGNALING_PATHWAY 3.53e-04 24.91 4.72 9.44e-02 1.00e+00
3IGFBP4, IGF1, IGFBP6
 35
GOBP_RESPONSE_TO_UV_A 1.37e-03 43.30 4.59 2.18e-01 1.00e+00
2MMP2, EGFR
 14
GOBP_RESPONSE_TO_DEXAMETHASONE 4.51e-04 22.75 4.33 1.05e-01 1.00e+00
3SERPINF1, CLDN1, EGFR
 38
GOBP_POSITIVE_REGULATION_OF_EPITHELIAL_CELL_APOPTOTIC_PROCESS 5.25e-04 21.53 4.11 1.19e-01 1.00e+00
3GSN, SFRP4, CCL2
 40
GOBP_POSITIVE_REGULATION_OF_EPITHELIAL_CELL_PROLIFERATION 1.31e-05 10.38 3.89 8.88e-03 9.77e-02
7THBS4, IGF1, OSR2, CLDN1, FGF7, CXCL12, EGFR
 203
GOBP_EPITHELIAL_CELL_PROLIFERATION 5.17e-07 8.46 3.88 3.87e-03 3.87e-03
11SERPINF1, GPC3, IGFBP4, THBS4, IGF1, OSR2, CLDN1, FGF7, CCL2, CXCL12, EGFR
 428
GOBP_AMINOGLYCAN_BIOSYNTHETIC_PROCESS 8.31e-05 12.74 3.87 3.88e-02 6.21e-01
5LUM, DCN, PRELP, GPC3, OGN
 114
GOBP_EPITHELIAL_CELL_CELL_ADHESION 2.03e-03 34.68 3.75 2.98e-01 1.00e+00
2CYP1B1, THBS4
 17
GOBP_EXTERNAL_ENCAPSULATING_STRUCTURE_ORGANIZATION 2.20e-06 8.10 3.58 5.50e-03 1.65e-02
10LUM, CYP1B1, DCN, VIT, NID1, SMOC2, LAMA2, COL3A1, MMP2, FBLN5
 396
GOBP_REGULATION_OF_BMP_SIGNALING_PATHWAY 4.50e-04 12.49 3.20 1.05e-01 1.00e+00
4GPC3, SFRP4, HTRA3, FSTL1
 91
GOBP_POSITIVE_REGULATION_OF_CALCIUM_ION_IMPORT 2.81e-03 28.89 3.17 3.97e-01 1.00e+00
2CCL2, CXCL12
 20
GOBP_COLLAGEN_FIBRIL_ORGANIZATION 1.26e-03 15.63 3.02 2.06e-01 1.00e+00
3LUM, CYP1B1, COL3A1
 54

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE19888_ADENOSINE_A3R_ACT_VS_TCELL_MEMBRANES_ACT_IN_MAST_CELL_UP 1.19e-05 10.54 3.95 5.79e-02 5.79e-02
7LUM, OAF, DCN, NID1, OSR2, SERPING1, COL3A1
 200
GSE1460_CD4_THYMOCYTE_VS_THYMIC_STROMAL_CELL_DN 1.20e-04 8.83 3.04 1.51e-01 5.86e-01
6GLT8D2, MEST, OLFML3, PDGFRL, NID1, SRPX2
 199
GSE5589_WT_VS_IL6_KO_LPS_AND_IL6_STIM_MACROPHAGE_45MIN_DN 1.20e-04 8.83 3.04 1.51e-01 5.86e-01
6OAF, DCN, OLFML3, IGFBP6, NID1, FGF7
 199
GSE4748_CTRL_VS_LPS_STIM_DC_3H_UP 1.24e-04 8.78 3.02 1.51e-01 6.03e-01
6CYP1B1, NID1, SERPING1, COL3A1, FSTL1, CXCL12
 200
GSE24671_CTRL_VS_BAKIMULC_INFECTED_MOUSE_SPLENOCYTES_DN 5.24e-04 8.42 2.57 3.51e-01 1.00e+00
5DCN, GPC3, IGFBP6, LAMA2, FSTL1
 170
GSE6259_FLT3L_INDUCED_33D1_POS_DC_VS_CD4_TCELL_UP 5.38e-04 8.37 2.56 3.51e-01 1.00e+00
5SERPINF1, IGF1, ABCA9, CFH, MMP2
 171
GSE19512_NAUTRAL_VS_INDUCED_TREG_UP 1.01e-03 7.23 2.22 3.51e-01 1.00e+00
5SRPX, ENTPD2, MEOX2, CCL2, FBLN5
 197
GSE2405_0H_VS_24H_A_PHAGOCYTOPHILUM_STIM_NEUTROPHIL_DN 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5CFH, SERPING1, TPD52L1, MMP2, FBLN5
 200
GSE2405_0H_VS_1.5H_A_PHAGOCYTOPHILUM_STIM_NEUTROPHIL_UP 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5PRELP, SFRP4, OLFML2B, COL3A1, EGFR
 200
GSE8835_HEALTHY_VS_CLL_CD8_TCELL_DN 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5LUM, DCN, SRPX2, COL3A1, MMP2
 200
GSE2585_CTEC_VS_THYMIC_DC_DN 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5PAMR1, NID1, CFH, IGFBP7, MMP2
 200
GSE3039_CD4_TCELL_VS_B2_BCELL_UP 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5IGFBP4, OLFML3, CFH, SERPING1, FSTL1
 200
GSE16450_CTRL_VS_IFNA_12H_STIM_MATURE_NEURON_CELL_LINE_UP 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5CYP1B1, PDGFRL, IGFBP6, MEOX2, IGFBP7
 200
GSE23505_IL6_IL1_IL23_VS_IL6_IL1_TGFB_TREATED_CD4_TCELL_UP 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5LUM, DCN, SFRP4, MMP2, CXCL12
 200
GSE32164_RESTING_DIFFERENTIATED_VS_ALTERNATIVELY_ACT_M2_MACROPHAGE_UP 1.08e-03 7.12 2.18 3.51e-01 1.00e+00
5LUM, IGFBP7, TPD52L1, LAMA2, EGFR
 200
GSE6259_FLT3L_INDUCED_33D1_POS_DC_VS_CD8_TCELL_UP 2.56e-03 7.65 1.97 7.81e-01 1.00e+00
4SERPINF1, CFH, CCL2, EGFR
 146
GSE37605_FOXP3_FUSION_GFP_VS_IRES_GFP_TREG_C57BL6_DN 4.96e-03 6.32 1.63 7.82e-01 1.00e+00
4SRPX, OGN, IGFBP6, FBLN5
 176
GSE6259_CD4_TCELL_VS_CD8_TCELL_UP 6.12e-03 5.94 1.54 7.82e-01 1.00e+00
4SERPINF1, OGN, IGFBP6, FSTL1
 187
GSE2706_R848_VS_LPS_2H_STIM_DC_UP 6.35e-03 5.87 1.52 7.82e-01 1.00e+00
4PRELP, CLDN1, FGF7, CCL2
 189
GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN 6.95e-03 5.72 1.48 7.82e-01 1.00e+00
4LUM, GPC3, THBS4, LAMA2
 194

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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
CYP1B1 4 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
SFRP4 15 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
MEOX2 27 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
OSR2 32 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
EBF2 39 Yes Known motif Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain EBF1 has a nice HT-SELEX model and based on this paper (PMID:23499423). EBF2 binds similar motif to control brown/beige fat cell identity.
TWIST2 60 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None
NR1H3 63 Yes Inferred motif Obligate heteromer In vivo/Misc source None Binds as an obligate heterodimer with RXR-proteins. (PDB: 2ACL) is a crystal structure of the two proteins without DNA
SFRP5 65 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
PTCH1 66 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
NFIA 73 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ETV4 76 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
CC2D1A 94 Yes Likely to be sequence specific TF Monomer or homomultimer No motif None (PMID: 17714190) states that human Freud-1L bound specifically to its dual repressor element in the 5-HT1A receptor gene in vitro
TBX18 100 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
GLI1 101 Yes Known motif Monomer or homomultimer In vivo/Misc source None None
NR2F2 108 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None
FBN1 116 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
SOX9 132 Yes Known motif Monomer or homomultimer High-throughput in vitro None Also binds ssDNA loops.
JUN 133 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
GAS7 134 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None (PMID: 9736752) only shows that it has a proline-rich domain similar to the one in Oct2. No evidence of DNA binding.
NRK 138 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Protein is a kinase


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
T19_GGACAAGCACGCATCG.1 Tissue_stem_cells:BM_MSC:TGFb3 0.16 2871.01
Raw ScoresSmooth_muscle_cells:bronchial: 0.37, Smooth_muscle_cells:bronchial:vit_D: 0.37, Fibroblasts:breast: 0.37, iPS_cells:adipose_stem_cells: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Osteoblasts: 0.36, Chondrocytes:MSC-derived: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.36, Tissue_stem_cells:iliac_MSC: 0.35, iPS_cells:CRL2097_foreskin: 0.35
T19_CGGACACGTAACGCGA.1 Smooth_muscle_cells:bronchial 0.16 1822.26
Raw ScoresFibroblasts:breast: 0.33, Osteoblasts: 0.33, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.32, iPS_cells:adipose_stem_cells: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Tissue_stem_cells:iliac_MSC: 0.31, Tissue_stem_cells:BM_MSC: 0.31, Chondrocytes:MSC-derived: 0.31
T19_CGTTGGGGTTGATTCG.1 Smooth_muscle_cells:bronchial 0.16 1572.38
Raw ScoresiPS_cells:adipose_stem_cells: 0.33, Fibroblasts:breast: 0.33, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Chondrocytes:MSC-derived: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Tissue_stem_cells:iliac_MSC: 0.32, Tissue_stem_cells:BM_MSC: 0.31
T19_CGAGCACCATTAACCG.1 Tissue_stem_cells:BM_MSC:TGFb3 0.13 1466.12
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, iPS_cells:adipose_stem_cells: 0.34, Fibroblasts:breast: 0.34, Chondrocytes:MSC-derived: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Osteoblasts: 0.33, Tissue_stem_cells:iliac_MSC: 0.32, Fibroblasts:foreskin: 0.32
T19_CACCACTAGAGCTTCT.1 Smooth_muscle_cells:bronchial 0.17 1425.04
Raw ScoresOsteoblasts: 0.33, Smooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Fibroblasts:breast: 0.32, Chondrocytes:MSC-derived: 0.32, iPS_cells:adipose_stem_cells: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Tissue_stem_cells:BM_MSC: 0.32, iPS_cells:CRL2097_foreskin: 0.31
T19_GATGAGGGTAGCTAAA.1 Smooth_muscle_cells:bronchial 0.14 1154.12
Raw ScoresSmooth_muscle_cells:bronchial: 0.36, Smooth_muscle_cells:bronchial:vit_D: 0.36, Fibroblasts:breast: 0.36, iPS_cells:adipose_stem_cells: 0.35, Chondrocytes:MSC-derived: 0.34, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Fibroblasts:foreskin: 0.34, Neurons:Schwann_cell: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34
T19_TATCTCATCCAGAAGG.1 Smooth_muscle_cells:bronchial 0.16 1092.83
Raw ScoresSmooth_muscle_cells:bronchial: 0.36, Smooth_muscle_cells:bronchial:vit_D: 0.36, Fibroblasts:breast: 0.36, iPS_cells:adipose_stem_cells: 0.35, Chondrocytes:MSC-derived: 0.35, Tissue_stem_cells:iliac_MSC: 0.35, iPS_cells:CRL2097_foreskin: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34
T19_CGGAGTCGTACTTCTT.1 Chondrocytes:MSC-derived 0.14 1074.57
Raw ScoresiPS_cells:adipose_stem_cells: 0.36, Fibroblasts:breast: 0.36, Smooth_muscle_cells:bronchial: 0.36, Smooth_muscle_cells:bronchial:vit_D: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Chondrocytes:MSC-derived: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Osteoblasts: 0.35, Smooth_muscle_cells:vascular: 0.35, iPS_cells:CRL2097_foreskin: 0.35
T19_TTATGCTTCGTTGCCT.1 Smooth_muscle_cells:bronchial 0.14 1031.91
Raw ScoresSmooth_muscle_cells:bronchial: 0.36, Smooth_muscle_cells:bronchial:vit_D: 0.36, Fibroblasts:breast: 0.35, iPS_cells:adipose_stem_cells: 0.34, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Chondrocytes:MSC-derived: 0.33, Smooth_muscle_cells:vascular: 0.33, iPS_cells:CRL2097_foreskin: 0.33
T19_AACCGCGAGGATGCGT.1 Fibroblasts:breast 0.16 1030.27
Raw ScoresOsteoblasts: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.36, Fibroblasts:breast: 0.36, Smooth_muscle_cells:bronchial: 0.36, iPS_cells:adipose_stem_cells: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Tissue_stem_cells:BM_MSC: 0.35, Tissue_stem_cells:BM_MSC:osteogenic: 0.35, Tissue_stem_cells:iliac_MSC: 0.35
T19_ACAGCTATCTTGGGTA.1 Smooth_muscle_cells:bronchial 0.14 1012.56
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Chondrocytes:MSC-derived: 0.35, iPS_cells:adipose_stem_cells: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Fibroblasts:breast: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC: 0.33, Tissue_stem_cells:BM_MSC:osteogenic: 0.33
T19_CTTACCGCAATACGCT.1 Tissue_stem_cells:BM_MSC:TGFb3 0.12 1011.48
Raw ScoresFibroblasts:breast: 0.34, Smooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.33, Osteoblasts: 0.33, iPS_cells:adipose_stem_cells: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Tissue_stem_cells:iliac_MSC: 0.32, iPS_cells:CRL2097_foreskin: 0.32
T19_AGCAGCCAGCTTTGGT.1 Fibroblasts:foreskin 0.12 1004.01
Raw ScoresFibroblasts:breast: 0.36, Smooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, iPS_cells:adipose_stem_cells: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.35, Osteoblasts: 0.35, iPS_cells:CRL2097_foreskin: 0.34, Chondrocytes:MSC-derived: 0.34, Fibroblasts:foreskin: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34
T19_GTCGTAAGTTAAGTAG.1 Smooth_muscle_cells:bronchial 0.12 998.50
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Fibroblasts:breast: 0.34, iPS_cells:adipose_stem_cells: 0.34, Osteoblasts: 0.33, Tissue_stem_cells:iliac_MSC: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Chondrocytes:MSC-derived: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Smooth_muscle_cells:vascular: 0.32
T19_CCTTACGCAATAGAGT.1 Tissue_stem_cells:BM_MSC:TGFb3 0.15 977.68
Raw ScoresSmooth_muscle_cells:bronchial: 0.38, Fibroblasts:breast: 0.38, Smooth_muscle_cells:bronchial:vit_D: 0.37, iPS_cells:adipose_stem_cells: 0.37, Osteoblasts: 0.37, Tissue_stem_cells:BM_MSC:BMP2: 0.37, Tissue_stem_cells:BM_MSC:TGFb3: 0.37, Tissue_stem_cells:iliac_MSC: 0.37, Chondrocytes:MSC-derived: 0.36, iPS_cells:CRL2097_foreskin: 0.35
T19_GGTGTTAGTGGTACAG.1 Neurons:Schwann_cell 0.10 975.74
Raw ScoresTissue_stem_cells:BM_MSC:BMP2: 0.34, Smooth_muscle_cells:bronchial: 0.34, iPS_cells:adipose_stem_cells: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Osteoblasts: 0.33, Chondrocytes:MSC-derived: 0.33, Fibroblasts:foreskin: 0.33, Fibroblasts:breast: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Neurons:Schwann_cell: 0.33
T19_CTGCCTACAGTATCTG.1 Fibroblasts:breast 0.14 966.30
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Fibroblasts:breast: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Chondrocytes:MSC-derived: 0.33, iPS_cells:adipose_stem_cells: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Osteoblasts: 0.33, iPS_cells:CRL2097_foreskin: 0.32, Tissue_stem_cells:iliac_MSC: 0.32
T19_ACCCACTTCTACGAGT.1 Smooth_muscle_cells:bronchial 0.14 954.20
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, iPS_cells:adipose_stem_cells: 0.34, Fibroblasts:breast: 0.34, Chondrocytes:MSC-derived: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, iPS_cells:foreskin_fibrobasts: 0.33, iPS_cells:CRL2097_foreskin: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33
T19_TGCACCTCAGGATCGA.1 Smooth_muscle_cells:bronchial 0.14 932.98
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Fibroblasts:breast: 0.35, iPS_cells:adipose_stem_cells: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34, Chondrocytes:MSC-derived: 0.34, Tissue_stem_cells:iliac_MSC: 0.34, Osteoblasts: 0.33, Smooth_muscle_cells:vascular: 0.33
T19_TATCTCAGTTGGACCC.1 Smooth_muscle_cells:bronchial 0.16 891.37
Raw ScoresSmooth_muscle_cells:bronchial: 0.36, Smooth_muscle_cells:bronchial:vit_D: 0.36, Fibroblasts:breast: 0.36, iPS_cells:adipose_stem_cells: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.35, Chondrocytes:MSC-derived: 0.35, Osteoblasts: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Smooth_muscle_cells:vascular: 0.34, iPS_cells:fibroblasts: 0.34
T19_AAAGTAGCATATGGTC.1 Smooth_muscle_cells:bronchial 0.16 890.19
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Osteoblasts: 0.34, Fibroblasts:breast: 0.34, Chondrocytes:MSC-derived: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, iPS_cells:adipose_stem_cells: 0.33, Tissue_stem_cells:iliac_MSC: 0.33, Tissue_stem_cells:BM_MSC: 0.33
T19_TCAGCTCGTGTATGGG.1 Smooth_muscle_cells:bronchial 0.15 887.52
Raw ScoresSmooth_muscle_cells:bronchial: 0.37, Smooth_muscle_cells:bronchial:vit_D: 0.36, iPS_cells:adipose_stem_cells: 0.36, Fibroblasts:breast: 0.35, Tissue_stem_cells:BM_MSC:BMP2: 0.35, Osteoblasts: 0.35, Chondrocytes:MSC-derived: 0.35, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Tissue_stem_cells:iliac_MSC: 0.34, Fibroblasts:foreskin: 0.34
T19_TGCGGGTTCATGCAAC.1 Smooth_muscle_cells:bronchial 0.09 870.70
Raw ScoresiPS_cells:adipose_stem_cells: 0.33, Smooth_muscle_cells:bronchial: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.32, Fibroblasts:breast: 0.32, Osteoblasts: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC:osteogenic: 0.32, Tissue_stem_cells:iliac_MSC: 0.31
T19_GCACATAGTAAACGCG.1 Tissue_stem_cells:BM_MSC:BMP2 0.13 867.18
Raw ScoresSmooth_muscle_cells:bronchial: 0.35, Smooth_muscle_cells:bronchial:vit_D: 0.35, Fibroblasts:breast: 0.35, iPS_cells:adipose_stem_cells: 0.35, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Chondrocytes:MSC-derived: 0.34, iPS_cells:CRL2097_foreskin: 0.34, Fibroblasts:foreskin: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.34
T19_TTCCCAGGTTAAGATG.1 Macrophage:monocyte-derived:M-CSF 0.10 861.06
Raw ScoresMacrophage:monocyte-derived:S._aureus: 0.32, Macrophage:monocyte-derived:M-CSF: 0.32, DC:monocyte-derived:AEC-conditioned: 0.32, Macrophage:monocyte-derived:IFNa: 0.32, DC:monocyte-derived:LPS: 0.32, Monocyte:anti-FcgRIIB: 0.32, DC:monocyte-derived:anti-DC-SIGN_2h: 0.32, DC:monocyte-derived:Poly(IC): 0.32, DC:monocyte-derived:A._fumigatus_germ_tubes_6h: 0.31, DC:monocyte-derived:antiCD40/VAF347: 0.31
T19_GTCACGGTCCTTTACA.1 Chondrocytes:MSC-derived 0.10 833.22
Raw ScoresSmooth_muscle_cells:bronchial: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Fibroblasts:breast: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3, Osteoblasts: 0.3, iPS_cells:adipose_stem_cells: 0.3, Tissue_stem_cells:iliac_MSC: 0.3, Tissue_stem_cells:BM_MSC:TGFb3: 0.3, Smooth_muscle_cells:vascular: 0.29, Chondrocytes:MSC-derived: 0.29
T19_CGTTAGATCCCATTAT.1 Tissue_stem_cells:BM_MSC:TGFb3 0.12 818.71
Raw ScoresSmooth_muscle_cells:bronchial:vit_D: 0.32, Smooth_muscle_cells:bronchial: 0.32, Fibroblasts:breast: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, iPS_cells:adipose_stem_cells: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Osteoblasts: 0.31, Tissue_stem_cells:iliac_MSC: 0.31, Chondrocytes:MSC-derived: 0.3, Smooth_muscle_cells:vascular: 0.29
T19_ACGTCAAGTACCGGCT.1 Fibroblasts:breast 0.14 803.79
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Fibroblasts:breast: 0.33, Osteoblasts: 0.33, iPS_cells:adipose_stem_cells: 0.33, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Tissue_stem_cells:iliac_MSC: 0.32, Tissue_stem_cells:BM_MSC:osteogenic: 0.32
T19_GCCAAATGTCCGTGAC.1 Neurons:Schwann_cell 0.16 793.68
Raw ScoresNeurons:Schwann_cell: 0.37, Smooth_muscle_cells:bronchial: 0.37, Fibroblasts:breast: 0.37, Smooth_muscle_cells:bronchial:vit_D: 0.37, iPS_cells:adipose_stem_cells: 0.36, Chondrocytes:MSC-derived: 0.36, Osteoblasts: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.35, Tissue_stem_cells:iliac_MSC: 0.35
T19_TGACGGCCATTTCAGG.1 Tissue_stem_cells:iliac_MSC 0.12 789.56
Raw ScoresFibroblasts:breast: 0.34, Smooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, iPS_cells:adipose_stem_cells: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Tissue_stem_cells:iliac_MSC: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Smooth_muscle_cells:vascular: 0.33, Chondrocytes:MSC-derived: 0.33
T19_ATCCGAAGTGTGGTTT.1 Fibroblasts:breast 0.15 778.05
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
T19_CTCTAATGTCTGCCAG.1 Fibroblasts:breast 0.15 771.72
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Fibroblasts:breast: 0.34, Osteoblasts: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, iPS_cells:adipose_stem_cells: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Chondrocytes:MSC-derived: 0.33, Smooth_muscle_cells:vascular: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Tissue_stem_cells:BM_MSC: 0.32
T19_TACCTATGTACAGTTC.1 Chondrocytes:MSC-derived 0.11 766.38
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
T19_TCAGGTAGTCTAACGT.1 Smooth_muscle_cells:bronchial 0.13 761.06
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Fibroblasts:breast: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, iPS_cells:adipose_stem_cells: 0.34, iPS_cells:CRL2097_foreskin: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Osteoblasts: 0.33, Chondrocytes:MSC-derived: 0.33, iPS_cells:fibroblasts: 0.32
T19_GACGGCTTCGAGGTAG.1 Chondrocytes:MSC-derived 0.12 758.82
Raw ScoresiPS_cells:adipose_stem_cells: 0.32, Fibroblasts:breast: 0.32, Chondrocytes:MSC-derived: 0.32, Smooth_muscle_cells:bronchial: 0.32, Osteoblasts: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Smooth_muscle_cells:vascular: 0.31, iPS_cells:CRL2097_foreskin: 0.31
T19_GTTTCTACACGGTAAG.1 Smooth_muscle_cells:bronchial 0.13 758.57
Raw ScoresSmooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Fibroblasts:breast: 0.32, iPS_cells:adipose_stem_cells: 0.32, Osteoblasts: 0.32, Tissue_stem_cells:iliac_MSC: 0.31, Chondrocytes:MSC-derived: 0.31, iPS_cells:CRL2097_foreskin: 0.31
T19_TCAACGACAACTGCTA.1 Tissue_stem_cells:BM_MSC:BMP2 0.14 758.19
Raw ScoresSmooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.32, Fibroblasts:breast: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, iPS_cells:adipose_stem_cells: 0.31, Osteoblasts: 0.31, Chondrocytes:MSC-derived: 0.31, Smooth_muscle_cells:vascular: 0.31, Smooth_muscle_cells:vascular:IL-17: 0.31
T19_GTACGTAAGTCCGGTC.1 Fibroblasts:breast 0.13 755.67
Raw ScoresFibroblasts:breast: 0.35, iPS_cells:adipose_stem_cells: 0.35, Smooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.33, Chondrocytes:MSC-derived: 0.33, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Smooth_muscle_cells:vascular: 0.32, Fibroblasts:foreskin: 0.32, Osteoblasts: 0.32, Tissue_stem_cells:BM_MSC: 0.32
T19_CACACAAAGAGTCTGG.1 Tissue_stem_cells:BM_MSC:TGFb3 0.14 744.82
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_TTATGCTAGTAGCGGT.1 Fibroblasts:breast 0.13 743.87
Raw ScoresiPS_cells:adipose_stem_cells: 0.35, Fibroblasts:breast: 0.35, Smooth_muscle_cells:bronchial: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Chondrocytes:MSC-derived: 0.33, iPS_cells:CRL2097_foreskin: 0.33, Fibroblasts:foreskin: 0.33, Osteoblasts: 0.33
T19_CGATCGGTCAGCTGGC.1 Fibroblasts:breast 0.13 731.33
Raw ScoresSmooth_muscle_cells:bronchial: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Fibroblasts:breast: 0.3, iPS_cells:adipose_stem_cells: 0.3, Chondrocytes:MSC-derived: 0.3, Osteoblasts: 0.3, Tissue_stem_cells:BM_MSC:BMP2: 0.3, Tissue_stem_cells:BM_MSC: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Smooth_muscle_cells:vascular: 0.29
T19_CCATGTCGTCGAACAG.1 Smooth_muscle_cells:bronchial 0.13 723.05
Raw ScoresSmooth_muscle_cells:bronchial: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, iPS_cells:adipose_stem_cells: 0.33, Fibroblasts:breast: 0.32, Osteoblasts: 0.32, Tissue_stem_cells:iliac_MSC: 0.32, Fibroblasts:foreskin: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, iPS_cells:CRL2097_foreskin: 0.31
T19_GTCTCGTAGTTGTAGA.1 Tissue_stem_cells:BM_MSC:TGFb3 0.12 715.74
Raw ScoresiPS_cells:adipose_stem_cells: 0.32, Fibroblasts:breast: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Osteoblasts: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, Smooth_muscle_cells:bronchial: 0.31, Chondrocytes:MSC-derived: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Tissue_stem_cells:iliac_MSC: 0.31, iPS_cells:CRL2097_foreskin: 0.3
T19_CGGAGTCCAGGATCGA.1 Smooth_muscle_cells:bronchial 0.11 703.21
Raw ScoresSmooth_muscle_cells:bronchial: 0.31, Smooth_muscle_cells:bronchial:vit_D: 0.31, Tissue_stem_cells:BM_MSC:BMP2: 0.31, iPS_cells:adipose_stem_cells: 0.31, Chondrocytes:MSC-derived: 0.31, Tissue_stem_cells:BM_MSC:TGFb3: 0.31, Fibroblasts:breast: 0.31, Fibroblasts:foreskin: 0.3, Osteoblasts: 0.3, Tissue_stem_cells:iliac_MSC: 0.3
T19_GATGCTAGTGTGACCC.1 Tissue_stem_cells:BM_MSC:BMP2 0.13 701.52
Raw ScoresiPS_cells:adipose_stem_cells: 0.34, Smooth_muscle_cells:bronchial: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.33, Fibroblasts:breast: 0.33, Smooth_muscle_cells:bronchial:vit_D: 0.33, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Chondrocytes:MSC-derived: 0.33, Osteoblasts: 0.33, Tissue_stem_cells:BM_MSC: 0.32, iPS_cells:CRL2097_foreskin: 0.32
T19_GAACCTATCTGATTCT.1 Tissue_stem_cells:BM_MSC:BMP2 0.12 695.93
Raw ScoresSmooth_muscle_cells:bronchial: 0.34, Fibroblasts:breast: 0.34, iPS_cells:adipose_stem_cells: 0.34, Tissue_stem_cells:BM_MSC:BMP2: 0.34, Smooth_muscle_cells:bronchial:vit_D: 0.34, Tissue_stem_cells:iliac_MSC: 0.34, Osteoblasts: 0.34, Tissue_stem_cells:BM_MSC:TGFb3: 0.33, Tissue_stem_cells:BM_MSC:osteogenic: 0.33, iPS_cells:CRL2097_foreskin: 0.33
T19_TGTGGTAGTTTCGCTC.1 Smooth_muscle_cells:bronchial 0.11 694.78
Raw ScoresFibroblasts:breast: 0.33, iPS_cells:adipose_stem_cells: 0.33, Smooth_muscle_cells:bronchial: 0.33, Chondrocytes:MSC-derived: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Neurons:Schwann_cell: 0.32, Osteoblasts: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32
T19_AACCGCGTCGGCGGTT.1 Smooth_muscle_cells:bronchial 0.13 693.48
Raw ScoresSmooth_muscle_cells:bronchial: 0.33, iPS_cells:adipose_stem_cells: 0.32, Fibroblasts:breast: 0.32, Smooth_muscle_cells:bronchial:vit_D: 0.32, Tissue_stem_cells:BM_MSC:BMP2: 0.32, Tissue_stem_cells:BM_MSC:TGFb3: 0.32, Chondrocytes:MSC-derived: 0.32, Osteoblasts: 0.32, Smooth_muscle_cells:vascular: 0.31, Tissue_stem_cells:iliac_MSC: 0.31
T19_CCGGGATCAACTTGAC.1 Fibroblasts:breast 0.14 692.96
Raw ScoresFibroblasts:breast: 0.37, Smooth_muscle_cells:bronchial: 0.37, Smooth_muscle_cells:bronchial:vit_D: 0.37, Osteoblasts: 0.36, iPS_cells:adipose_stem_cells: 0.36, Tissue_stem_cells:BM_MSC:BMP2: 0.36, Tissue_stem_cells:iliac_MSC: 0.36, Tissue_stem_cells:BM_MSC:TGFb3: 0.36, iPS_cells:fibroblasts: 0.36, Smooth_muscle_cells:vascular: 0.35
T19_TGGCCAGCACGGTTTA.1 Fibroblasts:foreskin 0.09 692.93
Raw ScoresChondrocytes:MSC-derived: 0.29, Smooth_muscle_cells:bronchial: 0.29, Osteoblasts: 0.29, Smooth_muscle_cells:bronchial:vit_D: 0.29, iPS_cells:adipose_stem_cells: 0.29, Fibroblasts:breast: 0.29, Tissue_stem_cells:BM_MSC:TGFb3: 0.29, Neurons:Schwann_cell: 0.29, Tissue_stem_cells:BM_MSC:BMP2: 0.29, Fibroblasts:foreskin: 0.29


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: 6.27e-08
Mean rank of genes in gene set: 2449.28
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
IGF1 0.0087481 22 GTEx DepMap Descartes 2.51 111.55
IGFBP6 0.0085069 23 GTEx DepMap Descartes 7.25 2066.59
SERPING1 0.0078600 34 GTEx DepMap Descartes 4.00 571.95
CCL2 0.0066850 47 GTEx DepMap Descartes 15.15 4998.17
CXCL12 0.0065680 48 GTEx DepMap Descartes 2.09 200.10
SCARA5 0.0051077 79 GTEx DepMap Descartes 0.23 19.13
CFB 0.0022579 253 GTEx DepMap Descartes 0.12 14.80
GPX3 0.0022401 256 GTEx DepMap Descartes 1.43 231.36
C3 0.0021180 274 GTEx DepMap Descartes 1.62 92.54
C7 0.0014254 419 GTEx DepMap Descartes 0.75 45.45
PDPN 0.0012909 460 GTEx DepMap Descartes 0.23 19.87
RGMA 0.0012278 494 GTEx DepMap Descartes 0.20 5.63
PDGFD 0.0010740 577 GTEx DepMap Descartes 0.10 8.49
PDGFRA 0.0008299 731 GTEx DepMap Descartes 0.49 22.89
LIF 0.0007786 766 GTEx DepMap Descartes 0.10 6.66
PDGFRB 0.0006892 860 GTEx DepMap Descartes 0.79 40.81
SCARA3 0.0001995 2065 GTEx DepMap Descartes 0.06 4.69
IL33 0.0000829 2928 GTEx DepMap Descartes 0.08 9.56
CXCL2 -0.0000135 4402 GTEx DepMap Descartes 1.64 312.95
CFD -0.0000151 4445 GTEx DepMap Descartes 1.45 543.48
IL10 -0.0000427 5276 GTEx DepMap Descartes 0.11 8.91
HGF -0.0000542 5661 GTEx DepMap Descartes 0.13 4.89
SOD2 -0.0001229 7647 GTEx DepMap Descartes 1.11 17.40
IL1R1 -0.0003869 11691 GTEx DepMap Descartes 0.11 4.50
CXCL14 -0.0004032 11774 GTEx DepMap Descartes 0.28 46.59


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: 1.26e-07
Mean rank of genes in gene set: 3611.41
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
LUM 0.0138274 1 GTEx DepMap Descartes 26.68 3376.91
DCN 0.0107483 8 GTEx DepMap Descartes 25.11 1207.03
IGFBP7 0.0078544 35 GTEx DepMap Descartes 61.17 13079.71
COL3A1 0.0072907 42 GTEx DepMap Descartes 9.81 598.99
MMP2 0.0068056 46 GTEx DepMap Descartes 2.19 208.77
COL15A1 0.0049265 86 GTEx DepMap Descartes 1.24 78.06
COL1A2 0.0047099 96 GTEx DepMap Descartes 10.52 548.22
COL1A1 0.0044521 103 GTEx DepMap Descartes 14.48 772.02
THBS1 0.0040786 115 GTEx DepMap Descartes 1.38 52.87
THBS2 0.0026607 208 GTEx DepMap Descartes 0.76 42.69
FN1 0.0025887 217 GTEx DepMap Descartes 5.42 190.16
CNN3 0.0022649 252 GTEx DepMap Descartes 2.43 369.32
COL8A1 0.0021104 275 GTEx DepMap Descartes 0.69 32.14
COL5A2 0.0019757 297 GTEx DepMap Descartes 0.79 33.32
COL5A1 0.0019722 298 GTEx DepMap Descartes 0.65 23.89
MYL9 0.0017766 328 GTEx DepMap Descartes 2.71 270.61
TGFBR2 0.0015777 379 GTEx DepMap Descartes 0.64 39.30
PGF 0.0012204 498 GTEx DepMap Descartes 0.75 67.62
TMEM119 0.0006050 980 GTEx DepMap Descartes 0.15 17.45
COL4A1 0.0005327 1073 GTEx DepMap Descartes 1.53 63.50
TPM2 0.0005210 1097 GTEx DepMap Descartes 1.89 305.35
BGN 0.0004283 1270 GTEx DepMap Descartes 1.41 154.00
COL12A1 0.0003854 1352 GTEx DepMap Descartes 0.20 4.48
TPM1 0.0003315 1502 GTEx DepMap Descartes 2.45 156.91
TAGLN 0.0003149 1561 GTEx DepMap Descartes 4.59 298.73
CNN2 0.0002815 1673 GTEx DepMap Descartes 0.35 42.05
IGFBP3 0.0001510 2350 GTEx DepMap Descartes 0.28 34.04
MMP11 0.0001450 2399 GTEx DepMap Descartes 0.27 21.05
ITGA7 0.0001048 2715 GTEx DepMap Descartes 0.07 5.26
HOPX 0.0000434 3373 GTEx DepMap Descartes 0.18 15.22
TNC 0.0000313 3534 GTEx DepMap Descartes 0.28 8.20
COL11A1 0.0000167 3737 GTEx DepMap Descartes 0.06 1.44
ACTA2 -0.0000130 4381 GTEx DepMap Descartes 1.88 323.29
COL10A1 -0.0000173 4510 GTEx DepMap Descartes 0.00 0.00
VCAN -0.0000324 4993 GTEx DepMap Descartes 0.67 16.01
COL14A1 -0.0000337 5025 GTEx DepMap Descartes 0.29 11.86
WNT5A -0.0000610 5833 GTEx DepMap Descartes 0.03 1.38
COL13A1 -0.0000690 6094 GTEx DepMap Descartes 0.01 0.64
MYH11 -0.0000959 6895 GTEx DepMap Descartes 0.14 3.79
TGFB2 -0.0001579 8590 GTEx DepMap Descartes 0.01 0.47
ACTG2 -0.0001651 8773 GTEx DepMap Descartes 0.07 5.78
VEGFA -0.0001986 9525 GTEx DepMap Descartes 0.10 2.69
MYLK -0.0002863 10916 GTEx DepMap Descartes 0.39 6.67
MEF2C -0.0002876 10929 GTEx DepMap Descartes 0.33 11.79
TGFBR1 -0.0002999 11053 GTEx DepMap Descartes 0.08 3.78
THY1 -0.0003529 11489 GTEx DepMap Descartes 0.97 50.95
TGFB1 -0.0003570 11517 GTEx DepMap Descartes 0.19 13.93
POSTN -0.0004994 12127 GTEx DepMap Descartes 0.78 56.41
RGS5 -0.0006956 12409 GTEx DepMap Descartes 1.35 51.54


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: 1.83e-07
Mean rank of genes in gene set: 1167.46
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
LUM 0.0138274 1 GTEx DepMap Descartes 26.68 3376.91
DCN 0.0107483 8 GTEx DepMap Descartes 25.11 1207.03
COL3A1 0.0072907 42 GTEx DepMap Descartes 9.81 598.99
COL6A2 0.0049282 85 GTEx DepMap Descartes 4.29 384.00
COL1A2 0.0047099 96 GTEx DepMap Descartes 10.52 548.22
COL1A1 0.0044521 103 GTEx DepMap Descartes 14.48 772.02
CALD1 0.0027024 199 GTEx DepMap Descartes 5.35 309.43
SPARC 0.0015745 382 GTEx DepMap Descartes 6.37 523.54
PDGFRA 0.0008299 731 GTEx DepMap Descartes 0.49 22.89
PRRX1 0.0007525 805 GTEx DepMap Descartes 0.31 23.05
BGN 0.0004283 1270 GTEx DepMap Descartes 1.41 154.00
LEPR 0.0002207 1941 GTEx DepMap Descartes 0.07 2.61
MGP -0.0001981 9514 GTEx DepMap Descartes 4.18 850.22




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: 10616.59
Median rank of genes in gene set: 11565
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TIAM1 0.0012808 465 GTEx DepMap Descartes 0.43 20.31
CYGB 0.0012588 474 GTEx DepMap Descartes 0.93 157.56
SYNPO2 0.0011054 559 GTEx DepMap Descartes 0.61 12.87
CELF2 0.0007711 780 GTEx DepMap Descartes 0.75 28.62
SLIT3 0.0007636 789 GTEx DepMap Descartes 1.04 34.29
RNF157 0.0007161 843 GTEx DepMap Descartes 0.48 30.68
ABLIM1 0.0004434 1234 GTEx DepMap Descartes 0.29 14.04
BMP7 0.0003723 1390 GTEx DepMap Descartes 0.13 11.07
SETD7 0.0002476 1805 GTEx DepMap Descartes 0.13 5.61
CDKN2C 0.0002269 1906 GTEx DepMap Descartes 0.28 32.07
RBMS3 0.0001964 2085 GTEx DepMap Descartes 0.83 30.12
RBP1 0.0001839 2144 GTEx DepMap Descartes 1.96 331.63
HEY1 0.0001511 2349 GTEx DepMap Descartes 0.09 6.46
CETN3 0.0001053 2708 GTEx DepMap Descartes 0.18 19.33
AKAP12 0.0000953 2815 GTEx DepMap Descartes 0.90 29.54
SHC3 0.0000880 2879 GTEx DepMap Descartes 0.01 0.35
STRA6 0.0000795 2970 GTEx DepMap Descartes 0.04 3.77
NANOS1 0.0000688 3060 GTEx DepMap Descartes 0.09 5.78
RNF144A 0.0000529 3255 GTEx DepMap Descartes 0.09 4.67
TTC8 -0.0000144 4425 GTEx DepMap Descartes 0.09 4.39
FBXO8 -0.0000308 4942 GTEx DepMap Descartes 0.15 17.52
SLC35G2 -0.0000575 5739 GTEx DepMap Descartes 0.09 NA
DLK1 -0.0000738 6235 GTEx DepMap Descartes 0.46 20.46
EXOC5 -0.0000783 6367 GTEx DepMap Descartes 0.16 4.54
LSM3 -0.0000825 6479 GTEx DepMap Descartes 1.11 94.87
BEND4 -0.0000881 6676 GTEx DepMap Descartes 0.00 0.00
EML6 -0.0000988 6979 GTEx DepMap Descartes 0.01 0.23
FAM167A -0.0001118 7346 GTEx DepMap Descartes 0.01 0.32
SLIT1 -0.0001134 7391 GTEx DepMap Descartes 0.01 0.55
HK2 -0.0001160 7457 GTEx DepMap Descartes 0.02 0.59


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: 7.05e-110
Mean rank of genes in gene set: 2479.53
Median rank of genes in gene set: 1179
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GSN 0.0124919 2 GTEx DepMap Descartes 17.80 915.04
MEST 0.0114190 7 GTEx DepMap Descartes 6.93 838.83
SRPX 0.0106881 9 GTEx DepMap Descartes 2.99 507.31
OLFML3 0.0102556 16 GTEx DepMap Descartes 2.38 364.16
IGFBP6 0.0085069 23 GTEx DepMap Descartes 7.25 2066.59
CAPN6 0.0083834 25 GTEx DepMap Descartes 0.41 40.62
NID1 0.0082693 26 GTEx DepMap Descartes 1.55 89.45
MEOX2 0.0081966 27 GTEx DepMap Descartes 0.55 76.84
CFH 0.0081620 28 GTEx DepMap Descartes 1.87 93.89
OLFML2B 0.0081115 30 GTEx DepMap Descartes 1.78 181.28
COL3A1 0.0072907 42 GTEx DepMap Descartes 9.81 598.99
FSTL1 0.0069029 45 GTEx DepMap Descartes 2.40 137.95
MMP2 0.0068056 46 GTEx DepMap Descartes 2.19 208.77
CXCL12 0.0065680 48 GTEx DepMap Descartes 2.09 200.10
EGFR 0.0065385 49 GTEx DepMap Descartes 0.58 19.07
EFEMP2 0.0062944 51 GTEx DepMap Descartes 1.47 195.84
CFI 0.0061498 53 GTEx DepMap Descartes 0.64 90.73
KDELR3 0.0058186 57 GTEx DepMap Descartes 0.47 85.96
PLEKHH2 0.0057991 58 GTEx DepMap Descartes 0.36 18.22
PPIC 0.0055565 64 GTEx DepMap Descartes 1.00 229.30
COL6A3 0.0054333 70 GTEx DepMap Descartes 1.94 62.00
NFIA 0.0052663 73 GTEx DepMap Descartes 0.96 6.71
IFITM3 0.0051732 74 GTEx DepMap Descartes 18.68 8330.88
KCNK2 0.0050802 80 GTEx DepMap Descartes 0.29 30.05
SERPINH1 0.0049436 84 GTEx DepMap Descartes 1.90 164.03
COL6A2 0.0049282 85 GTEx DepMap Descartes 4.29 384.00
LAMC1 0.0048241 88 GTEx DepMap Descartes 1.07 43.15
COL1A1 0.0044521 103 GTEx DepMap Descartes 14.48 772.02
CYBRD1 0.0042490 109 GTEx DepMap Descartes 0.64 50.74
TNFRSF1A 0.0041230 113 GTEx DepMap Descartes 1.17 174.46


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: 8.72e-01
Mean rank of genes in gene set: 6960.47
Median rank of genes in gene set: 7110
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SH3BP5 0.0005796 1015 GTEx DepMap Descartes 0.50 49.22
POR 0.0002464 1811 GTEx DepMap Descartes 0.25 30.12
FDX1 0.0002252 1919 GTEx DepMap Descartes 0.46 42.82
FREM2 0.0001397 2430 GTEx DepMap Descartes 0.01 0.08
SCARB1 0.0001366 2447 GTEx DepMap Descartes 0.11 4.98
SCAP 0.0000658 3101 GTEx DepMap Descartes 0.12 8.59
LDLR 0.0000549 3230 GTEx DepMap Descartes 0.06 2.97
PAPSS2 0.0000485 3315 GTEx DepMap Descartes 0.05 3.03
PDE10A 0.0000416 3396 GTEx DepMap Descartes 0.06 2.50
CYB5B 0.0000316 3528 GTEx DepMap Descartes 0.27 20.99
ERN1 0.0000096 3862 GTEx DepMap Descartes 0.14 3.94
NPC1 -0.0000132 4386 GTEx DepMap Descartes 0.05 2.82
GRAMD1B -0.0000304 4930 GTEx DepMap Descartes 0.03 1.10
CLU -0.0000670 6026 GTEx DepMap Descartes 1.60 175.20
FDXR -0.0000767 6312 GTEx DepMap Descartes 0.09 10.24
INHA -0.0000922 6791 GTEx DepMap Descartes 0.00 0.21
DHCR24 -0.0000980 6950 GTEx DepMap Descartes 0.03 1.69
SGCZ -0.0001021 7089 GTEx DepMap Descartes 0.00 0.06
BAIAP2L1 -0.0001041 7131 GTEx DepMap Descartes 0.00 0.00
HMGCR -0.0001059 7191 GTEx DepMap Descartes 0.07 4.34
SH3PXD2B -0.0001082 7250 GTEx DepMap Descartes 0.06 1.65
STAR -0.0001221 7625 GTEx DepMap Descartes 0.00 0.00
HMGCS1 -0.0001811 9160 GTEx DepMap Descartes 0.12 5.84
APOC1 -0.0001954 9464 GTEx DepMap Descartes 3.48 1071.38
DHCR7 -0.0002015 9581 GTEx DepMap Descartes 0.02 2.47
SLC16A9 -0.0002040 9634 GTEx DepMap Descartes 0.01 0.22
FRMD5 -0.0002297 10133 GTEx DepMap Descartes 0.00 0.19
IGF1R -0.0002347 10213 GTEx DepMap Descartes 0.10 2.25
MSMO1 -0.0002709 10743 GTEx DepMap Descartes 0.09 11.22
PEG3 -0.0002985 11034 GTEx DepMap Descartes 0.06 NA


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: 10914.95
Median rank of genes in gene set: 11874
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SYNPO2 0.0011054 559 GTEx DepMap Descartes 0.61 12.87
EPHA6 -0.0001271 7766 GTEx DepMap Descartes 0.01 0.15
HS3ST5 -0.0001314 7899 GTEx DepMap Descartes 0.02 1.03
ANKFN1 -0.0001351 8006 GTEx DepMap Descartes 0.01 0.76
SLC44A5 -0.0001467 8299 GTEx DepMap Descartes 0.01 0.54
ALK -0.0001676 8836 GTEx DepMap Descartes 0.01 0.74
RPH3A -0.0001760 9029 GTEx DepMap Descartes 0.00 0.04
EYA4 -0.0002021 9599 GTEx DepMap Descartes 0.01 0.51
RYR2 -0.0002035 9623 GTEx DepMap Descartes 0.02 0.15
CNKSR2 -0.0002247 10035 GTEx DepMap Descartes 0.02 0.35
FAT3 -0.0002402 10302 GTEx DepMap Descartes 0.01 0.07
KCNB2 -0.0002430 10352 GTEx DepMap Descartes 0.00 0.00
EYA1 -0.0002433 10356 GTEx DepMap Descartes 0.01 0.31
PLXNA4 -0.0002475 10422 GTEx DepMap Descartes 0.02 0.44
PTCHD1 -0.0002632 10645 GTEx DepMap Descartes 0.00 0.02
TMEM132C -0.0003011 11063 GTEx DepMap Descartes 0.02 0.74
RGMB -0.0003031 11084 GTEx DepMap Descartes 0.12 7.74
GREM1 -0.0003194 11239 GTEx DepMap Descartes 0.00 0.00
SLC6A2 -0.0003441 11438 GTEx DepMap Descartes 0.01 0.39
RBFOX1 -0.0004199 11862 GTEx DepMap Descartes 0.01 0.52
TMEFF2 -0.0004220 11874 GTEx DepMap Descartes 0.01 0.24
GAL -0.0004574 12003 GTEx DepMap Descartes 0.08 17.51
REEP1 -0.0004673 12032 GTEx DepMap Descartes 0.02 1.57
MAB21L2 -0.0005170 12166 GTEx DepMap Descartes 0.08 3.27
NTRK1 -0.0005306 12189 GTEx DepMap Descartes 0.03 1.70
MAB21L1 -0.0005452 12220 GTEx DepMap Descartes 0.09 7.47
IL7 -0.0005570 12243 GTEx DepMap Descartes 0.02 2.90
ELAVL2 -0.0006076 12317 GTEx DepMap Descartes 0.05 1.97
NPY -0.0006117 12321 GTEx DepMap Descartes 1.96 367.18
CNTFR -0.0006180 12327 GTEx DepMap Descartes 0.05 5.78


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: 7.44e-01
Mean rank of genes in gene set: 6659.95
Median rank of genes in gene set: 7197
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SHE 0.0002585 1765 GTEx DepMap Descartes 0.03 1.83
ARHGAP29 0.0002224 1935 GTEx DepMap Descartes 0.29 9.11
ID1 0.0002193 1947 GTEx DepMap Descartes 0.50 125.15
F8 0.0001916 2105 GTEx DepMap Descartes 0.02 1.02
EFNB2 0.0001820 2156 GTEx DepMap Descartes 0.16 8.81
CYP26B1 0.0001630 2279 GTEx DepMap Descartes 0.04 2.73
NPR1 0.0001053 2709 GTEx DepMap Descartes 0.02 1.81
KANK3 0.0001010 2761 GTEx DepMap Descartes 0.04 4.54
EHD3 0.0000968 2803 GTEx DepMap Descartes 0.03 2.17
CALCRL 0.0000149 3772 GTEx DepMap Descartes 0.03 1.45
BTNL9 -0.0000318 4974 GTEx DepMap Descartes 0.00 0.25
TIE1 -0.0000353 5076 GTEx DepMap Descartes 0.02 1.43
CRHBP -0.0000375 5137 GTEx DepMap Descartes 0.02 1.69
ESM1 -0.0000392 5181 GTEx DepMap Descartes 0.00 0.00
CEACAM1 -0.0000516 5564 GTEx DepMap Descartes 0.01 0.65
RASIP1 -0.0000712 6160 GTEx DepMap Descartes 0.01 1.07
TEK -0.0000741 6242 GTEx DepMap Descartes 0.00 0.19
RAMP2 -0.0000934 6819 GTEx DepMap Descartes 0.55 177.91
NR5A2 -0.0001055 7177 GTEx DepMap Descartes 0.00 0.00
HYAL2 -0.0001069 7217 GTEx DepMap Descartes 0.25 18.70
GALNT15 -0.0001282 7803 GTEx DepMap Descartes 0.01 NA
MMRN2 -0.0001306 7875 GTEx DepMap Descartes 0.02 1.98
SHANK3 -0.0001343 7989 GTEx DepMap Descartes 0.00 0.18
MYRIP -0.0001425 8194 GTEx DepMap Descartes 0.00 0.00
IRX3 -0.0001529 8451 GTEx DepMap Descartes 0.00 0.00
KDR -0.0001712 8912 GTEx DepMap Descartes 0.00 0.00
ROBO4 -0.0001716 8925 GTEx DepMap Descartes 0.00 0.25
FLT4 -0.0001749 9001 GTEx DepMap Descartes 0.00 0.00
SLCO2A1 -0.0001749 9007 GTEx DepMap Descartes 0.00 0.00
CDH5 -0.0001957 9469 GTEx DepMap Descartes 0.00 0.27


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: 6.90e-09
Mean rank of genes in gene set: 3180.59
Median rank of genes in gene set: 681
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
LUM 0.0138274 1 GTEx DepMap Descartes 26.68 3376.91
DCN 0.0107483 8 GTEx DepMap Descartes 25.11 1207.03
OGN 0.0105432 13 GTEx DepMap Descartes 1.42 137.40
PAMR1 0.0101720 18 GTEx DepMap Descartes 1.05 111.97
ISLR 0.0089532 21 GTEx DepMap Descartes 1.13 158.71
COL3A1 0.0072907 42 GTEx DepMap Descartes 9.81 598.99
ABCA6 0.0071748 44 GTEx DepMap Descartes 0.96 42.52
BICC1 0.0054795 68 GTEx DepMap Descartes 0.56 32.70
COL6A3 0.0054333 70 GTEx DepMap Descartes 1.94 62.00
SCARA5 0.0051077 79 GTEx DepMap Descartes 0.23 19.13
PCOLCE 0.0047992 90 GTEx DepMap Descartes 4.06 867.94
COL1A2 0.0047099 96 GTEx DepMap Descartes 10.52 548.22
COL1A1 0.0044521 103 GTEx DepMap Descartes 14.48 772.02
LRRC17 0.0024902 221 GTEx DepMap Descartes 0.13 19.86
FREM1 0.0016920 348 GTEx DepMap Descartes 0.10 3.72
CDH11 0.0016115 373 GTEx DepMap Descartes 0.48 21.59
PCDH18 0.0015566 386 GTEx DepMap Descartes 0.14 7.77
C7 0.0014254 419 GTEx DepMap Descartes 0.75 45.45
ADAMTSL3 0.0012444 484 GTEx DepMap Descartes 0.05 1.99
LOX 0.0010670 581 GTEx DepMap Descartes 0.27 16.40
CD248 0.0010261 603 GTEx DepMap Descartes 0.26 31.24
GLI2 0.0009731 631 GTEx DepMap Descartes 0.02 1.37
PDGFRA 0.0008299 731 GTEx DepMap Descartes 0.49 22.89
PRRX1 0.0007525 805 GTEx DepMap Descartes 0.31 23.05
COL12A1 0.0003854 1352 GTEx DepMap Descartes 0.20 4.48
ADAMTS2 0.0002224 1934 GTEx DepMap Descartes 0.11 4.49
COL27A1 0.0001751 2199 GTEx DepMap Descartes 0.06 2.47
IGFBP3 0.0001510 2350 GTEx DepMap Descartes 0.28 34.04
PRICKLE1 0.0001054 2706 GTEx DepMap Descartes 0.15 8.54
ITGA11 0.0000390 3430 GTEx DepMap Descartes 0.04 0.86


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: 8628.34
Median rank of genes in gene set: 9546.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
PENK 0.0017270 338 GTEx DepMap Descartes 0.33 67.79
TIAM1 0.0012808 465 GTEx DepMap Descartes 0.43 20.31
CNTN3 0.0001675 2251 GTEx DepMap Descartes 0.02 1.05
LAMA3 -0.0000198 4597 GTEx DepMap Descartes 0.01 0.09
SLC24A2 -0.0000494 5496 GTEx DepMap Descartes 0.00 0.00
TBX20 -0.0000633 5908 GTEx DepMap Descartes 0.00 0.53
GRM7 -0.0000675 6045 GTEx DepMap Descartes 0.00 0.00
ST18 -0.0000802 6416 GTEx DepMap Descartes 0.00 0.00
SLC35F3 -0.0000903 6745 GTEx DepMap Descartes 0.00 0.00
TENM1 -0.0000967 6918 GTEx DepMap Descartes 0.02 NA
SORCS3 -0.0000971 6929 GTEx DepMap Descartes 0.00 0.00
EML6 -0.0000988 6979 GTEx DepMap Descartes 0.01 0.23
CDH12 -0.0001088 7265 GTEx DepMap Descartes 0.00 0.00
CDH18 -0.0001186 7522 GTEx DepMap Descartes 0.00 0.00
GALNTL6 -0.0001220 7622 GTEx DepMap Descartes 0.01 0.31
DGKK -0.0001343 7988 GTEx DepMap Descartes 0.00 0.00
CCSER1 -0.0001507 8401 GTEx DepMap Descartes 0.01 NA
AGBL4 -0.0001713 8914 GTEx DepMap Descartes 0.01 0.14
PCSK2 -0.0001929 9406 GTEx DepMap Descartes 0.00 0.10
GRID2 -0.0002066 9687 GTEx DepMap Descartes 0.01 0.45
SPOCK3 -0.0002185 9922 GTEx DepMap Descartes 0.01 0.59
PACRG -0.0002215 9974 GTEx DepMap Descartes 0.01 0.81
NTNG1 -0.0002316 10164 GTEx DepMap Descartes 0.01 0.25
KSR2 -0.0002329 10182 GTEx DepMap Descartes 0.01 0.04
FGF14 -0.0002366 10247 GTEx DepMap Descartes 0.02 0.15
ROBO1 -0.0002470 10411 GTEx DepMap Descartes 0.07 1.92
SLC18A1 -0.0002902 10968 GTEx DepMap Descartes 0.01 0.50
UNC80 -0.0002910 10976 GTEx DepMap Descartes 0.01 0.08
FAM155A -0.0002936 10999 GTEx DepMap Descartes 0.03 0.68
MGAT4C -0.0003055 11109 GTEx DepMap Descartes 0.02 0.09


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: 1.55e-01
Mean rank of genes in gene set: 5593.72
Median rank of genes in gene set: 5520
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SELENBP1 0.0024132 231 GTEx DepMap Descartes 0.20 22.19
RGS6 0.0021649 268 GTEx DepMap Descartes 0.05 3.53
GYPC 0.0006553 906 GTEx DepMap Descartes 1.16 182.24
SOX6 0.0006278 940 GTEx DepMap Descartes 0.14 5.32
SLC25A37 0.0003491 1457 GTEx DepMap Descartes 0.37 25.65
SLC25A21 0.0002872 1653 GTEx DepMap Descartes 0.01 0.72
ANK1 0.0002118 1995 GTEx DepMap Descartes 0.04 1.37
SLC4A1 0.0001048 2714 GTEx DepMap Descartes 0.00 0.00
CPOX 0.0000904 2861 GTEx DepMap Descartes 0.06 6.08
BLVRB 0.0000667 3090 GTEx DepMap Descartes 0.44 84.16
TRAK2 -0.0000064 4178 GTEx DepMap Descartes 0.10 3.68
RHD -0.0000185 4556 GTEx DepMap Descartes 0.00 0.00
CAT -0.0000299 4910 GTEx DepMap Descartes 0.20 24.10
ABCB10 -0.0000459 5372 GTEx DepMap Descartes 0.03 2.50
FECH -0.0000500 5520 GTEx DepMap Descartes 0.05 1.40
ALAS2 -0.0000507 5542 GTEx DepMap Descartes 0.00 0.00
MARCH3 -0.0000632 5905 GTEx DepMap Descartes 0.05 NA
SPECC1 -0.0000703 6131 GTEx DepMap Descartes 0.06 1.93
XPO7 -0.0000864 6620 GTEx DepMap Descartes 0.10 5.04
GCLC -0.0001309 7886 GTEx DepMap Descartes 0.02 1.55
TMCC2 -0.0001410 8145 GTEx DepMap Descartes 0.00 0.00
SPTB -0.0001639 8744 GTEx DepMap Descartes 0.01 0.24
DENND4A -0.0001662 8804 GTEx DepMap Descartes 0.08 3.03
TFR2 -0.0001849 9242 GTEx DepMap Descartes 0.01 0.13
TSPAN5 -0.0001871 9287 GTEx DepMap Descartes 0.29 21.51
RAPGEF2 -0.0002135 9821 GTEx DepMap Descartes 0.08 1.89
MICAL2 -0.0003434 11430 GTEx DepMap Descartes 0.03 1.02
EPB41 -0.0004012 11762 GTEx DepMap Descartes 0.02 0.99
SNCA -0.0005604 12248 GTEx DepMap Descartes 0.15 14.56
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: 4.32e-01
Mean rank of genes in gene set: 6174.45
Median rank of genes in gene set: 7031.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TGFBI 0.0060580 56 GTEx DepMap Descartes 3.04 200.13
CST3 0.0051120 78 GTEx DepMap Descartes 23.98 2274.09
RGL1 0.0020043 290 GTEx DepMap Descartes 0.39 24.11
AXL 0.0012496 479 GTEx DepMap Descartes 0.53 31.96
ABCA1 0.0010042 614 GTEx DepMap Descartes 0.39 12.54
IFNGR1 0.0006721 881 GTEx DepMap Descartes 0.49 56.30
SLC9A9 0.0005142 1114 GTEx DepMap Descartes 0.11 10.24
SLC1A3 0.0005081 1126 GTEx DepMap Descartes 0.11 7.55
ATP8B4 0.0004145 1294 GTEx DepMap Descartes 0.06 2.91
SLCO2B1 0.0003499 1452 GTEx DepMap Descartes 0.21 10.68
FGD2 0.0000681 3070 GTEx DepMap Descartes 0.03 1.59
LGMN -0.0000037 4107 GTEx DepMap Descartes 0.62 77.21
CD14 -0.0000164 4485 GTEx DepMap Descartes 0.87 135.76
CTSC -0.0000293 4892 GTEx DepMap Descartes 0.87 43.79
HCK -0.0000437 5306 GTEx DepMap Descartes 0.08 10.44
ITPR2 -0.0000631 5902 GTEx DepMap Descartes 0.09 2.13
CTSB -0.0000848 6560 GTEx DepMap Descartes 1.45 101.16
CPVL -0.0000933 6815 GTEx DepMap Descartes 0.16 17.87
CD163 -0.0001000 7016 GTEx DepMap Descartes 0.11 5.70
HRH1 -0.0001009 7047 GTEx DepMap Descartes 0.03 2.10
CSF1R -0.0001138 7399 GTEx DepMap Descartes 0.17 9.34
SPP1 -0.0001292 7834 GTEx DepMap Descartes 0.33 40.21
SFMBT2 -0.0001311 7892 GTEx DepMap Descartes 0.04 0.79
CTSD -0.0001355 8017 GTEx DepMap Descartes 1.65 197.94
MERTK -0.0001512 8416 GTEx DepMap Descartes 0.03 1.57
MSR1 -0.0001553 8521 GTEx DepMap Descartes 0.15 8.28
MS4A4A -0.0001750 9011 GTEx DepMap Descartes 0.30 43.67
CYBB -0.0001950 9456 GTEx DepMap Descartes 0.17 9.15
WWP1 -0.0002056 9663 GTEx DepMap Descartes 0.10 6.14
MARCH1 -0.0002114 9788 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: 7.05e-02
Mean rank of genes in gene set: 5472.41
Median rank of genes in gene set: 5122.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
LAMC1 0.0048241 88 GTEx DepMap Descartes 1.07 43.15
GAS7 0.0035650 134 GTEx DepMap Descartes 0.63 25.99
SCN7A 0.0019763 296 GTEx DepMap Descartes 0.66 31.18
COL5A2 0.0019757 297 GTEx DepMap Descartes 0.79 33.32
STARD13 0.0018742 311 GTEx DepMap Descartes 0.26 14.92
LAMA4 0.0016174 369 GTEx DepMap Descartes 0.78 32.45
KCTD12 0.0015144 398 GTEx DepMap Descartes 0.55 27.16
COL18A1 0.0011184 548 GTEx DepMap Descartes 1.24 57.02
EGFLAM 0.0009535 642 GTEx DepMap Descartes 0.18 10.55
LAMB1 0.0008469 721 GTEx DepMap Descartes 0.43 23.23
EDNRB 0.0004927 1145 GTEx DepMap Descartes 0.16 10.83
VIM 0.0004339 1257 GTEx DepMap Descartes 12.49 1177.68
GRIK3 0.0004231 1277 GTEx DepMap Descartes 0.04 1.27
PMP22 0.0003538 1441 GTEx DepMap Descartes 1.86 320.32
PLCE1 0.0001795 2175 GTEx DepMap Descartes 0.08 1.98
ERBB3 0.0001195 2593 GTEx DepMap Descartes 0.10 6.82
PLP1 0.0000941 2827 GTEx DepMap Descartes 0.59 60.74
TRPM3 0.0000902 2862 GTEx DepMap Descartes 0.01 0.30
IL1RAPL1 0.0000799 2963 GTEx DepMap Descartes 0.02 2.37
NRXN3 0.0000431 3375 GTEx DepMap Descartes 0.03 1.31
COL25A1 -0.0000230 4690 GTEx DepMap Descartes 0.01 0.26
VCAN -0.0000324 4993 GTEx DepMap Descartes 0.67 16.01
MDGA2 -0.0000417 5252 GTEx DepMap Descartes 0.00 0.00
IL1RAPL2 -0.0000622 5873 GTEx DepMap Descartes 0.00 0.00
OLFML2A -0.0000685 6080 GTEx DepMap Descartes 0.14 5.38
HMGA2 -0.0000707 6142 GTEx DepMap Descartes 0.01 0.29
XKR4 -0.0000927 6803 GTEx DepMap Descartes 0.04 0.52
ERBB4 -0.0001268 7754 GTEx DepMap Descartes 0.00 0.02
SFRP1 -0.0001361 8026 GTEx DepMap Descartes 0.32 19.09
ADAMTS5 -0.0001428 8201 GTEx DepMap Descartes 0.01 0.36


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: 2.13e-01
Mean rank of genes in gene set: 5844.96
Median rank of genes in gene set: 5502
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GSN 0.0124919 2 GTEx DepMap Descartes 17.80 915.04
THBS1 0.0040786 115 GTEx DepMap Descartes 1.38 52.87
LTBP1 0.0026522 210 GTEx DepMap Descartes 0.35 16.15
SLC2A3 0.0018209 320 GTEx DepMap Descartes 1.29 83.67
STOM 0.0011528 528 GTEx DepMap Descartes 0.64 61.89
ARHGAP6 0.0009548 641 GTEx DepMap Descartes 0.07 4.26
VCL 0.0008595 709 GTEx DepMap Descartes 0.41 14.61
TPM4 0.0008289 732 GTEx DepMap Descartes 1.99 112.77
ZYX 0.0003417 1472 GTEx DepMap Descartes 0.46 60.03
MYH9 0.0002758 1689 GTEx DepMap Descartes 0.68 26.20
PDE3A 0.0002713 1715 GTEx DepMap Descartes 0.11 3.68
MED12L 0.0001029 2737 GTEx DepMap Descartes 0.04 1.31
PSTPIP2 0.0000875 2883 GTEx DepMap Descartes 0.02 2.63
ITGB3 0.0000742 3015 GTEx DepMap Descartes 0.00 0.11
FLNA 0.0000688 3061 GTEx DepMap Descartes 0.72 22.30
MCTP1 0.0000616 3149 GTEx DepMap Descartes 0.03 1.52
TMSB4X 0.0000583 3187 GTEx DepMap Descartes 59.04 9679.10
TLN1 0.0000087 3871 GTEx DepMap Descartes 0.45 12.96
ITGA2B 0.0000063 3915 GTEx DepMap Descartes 0.01 1.21
SLC24A3 0.0000037 3966 GTEx DepMap Descartes 0.01 0.30
GP1BA -0.0000279 4848 GTEx DepMap Descartes 0.03 2.42
TRPC6 -0.0000407 5216 GTEx DepMap Descartes 0.02 1.34
UBASH3B -0.0000496 5502 GTEx DepMap Descartes 0.03 1.37
TUBB1 -0.0000510 5547 GTEx DepMap Descartes 0.00 0.55
ANGPT1 -0.0000529 5608 GTEx DepMap Descartes 0.05 2.00
FLI1 -0.0000729 6208 GTEx DepMap Descartes 0.03 2.45
P2RX1 -0.0000750 6259 GTEx DepMap Descartes 0.01 0.43
INPP4B -0.0001535 8466 GTEx DepMap Descartes 0.04 0.96
MMRN1 -0.0001674 8828 GTEx DepMap Descartes 0.01 0.62
STON2 -0.0001712 8913 GTEx DepMap Descartes 0.01 0.62


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: 9.94e-01
Mean rank of genes in gene set: 7693.86
Median rank of genes in gene set: 9487
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
B2M 0.0011438 532 GTEx DepMap Descartes 61.85 7841.90
SP100 0.0009599 640 GTEx DepMap Descartes 0.67 36.29
CELF2 0.0007711 780 GTEx DepMap Descartes 0.75 28.62
PLEKHA2 0.0006076 976 GTEx DepMap Descartes 0.17 10.23
ARID5B 0.0004505 1214 GTEx DepMap Descartes 0.71 28.57
ABLIM1 0.0004434 1234 GTEx DepMap Descartes 0.29 14.04
GNG2 0.0003721 1391 GTEx DepMap Descartes 0.66 56.30
MBNL1 0.0002762 1688 GTEx DepMap Descartes 0.49 23.18
NCALD 0.0002347 1862 GTEx DepMap Descartes 0.16 14.80
LEF1 0.0002240 1929 GTEx DepMap Descartes 0.19 16.64
CCND3 0.0001307 2497 GTEx DepMap Descartes 0.32 41.45
WIPF1 0.0000966 2805 GTEx DepMap Descartes 0.32 20.13
ITPKB 0.0000199 3687 GTEx DepMap Descartes 0.04 2.13
MCTP2 -0.0000498 5512 GTEx DepMap Descartes 0.02 0.67
SORL1 -0.0000755 6270 GTEx DepMap Descartes 0.16 4.22
SAMD3 -0.0001415 8163 GTEx DepMap Descartes 0.01 1.01
ANKRD44 -0.0001543 8488 GTEx DepMap Descartes 0.09 3.64
PRKCH -0.0001772 9057 GTEx DepMap Descartes 0.03 1.81
CCL5 -0.0001817 9173 GTEx DepMap Descartes 0.23 76.25
MSN -0.0001888 9315 GTEx DepMap Descartes 0.39 28.40
DOCK10 -0.0001895 9331 GTEx DepMap Descartes 0.06 2.03
SKAP1 -0.0002045 9643 GTEx DepMap Descartes 0.01 2.36
BACH2 -0.0002140 9827 GTEx DepMap Descartes 0.03 0.51
RCSD1 -0.0002186 9925 GTEx DepMap Descartes 0.07 3.81
IKZF1 -0.0002337 10192 GTEx DepMap Descartes 0.03 0.93
ETS1 -0.0002546 10537 GTEx DepMap Descartes 0.12 5.05
PDE3B -0.0002724 10760 GTEx DepMap Descartes 0.00 0.04
PITPNC1 -0.0002743 10780 GTEx DepMap Descartes 0.06 2.68
SCML4 -0.0002820 10875 GTEx DepMap Descartes 0.00 0.04
BCL2 -0.0002876 10930 GTEx DepMap Descartes 0.12 5.68


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: 2.31e-05
Mean rank of genes in gene set: 1357.33
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
SMOC2 0.0077968 36 GTEx DepMap Descartes 1.46 148.89
EBF2 0.0075319 39 GTEx DepMap Descartes 0.69 46.97
OLFML1 0.0047340 93 GTEx DepMap Descartes 0.23 24.52
F10 0.0022100 261 GTEx DepMap Descartes 0.16 37.51
NTRK2 0.0017967 322 GTEx DepMap Descartes 0.54 20.76
PDGFRA 0.0008299 731 GTEx DepMap Descartes 0.49 22.89
PRRX1 0.0007525 805 GTEx DepMap Descartes 0.31 23.05
ANGPTL1 0.0002275 1903 GTEx DepMap Descartes 0.05 4.92
SFRP1 -0.0001361 8026 GTEx DepMap Descartes 0.32 19.09


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: 1.50e-03
Mean rank of genes in gene set: 69
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
DCN 0.0107483 8 GTEx DepMap Descartes 25.11 1207.03
COL1A2 0.0047099 96 GTEx DepMap Descartes 10.52 548.22
COL1A1 0.0044521 103 GTEx DepMap Descartes 14.48 772.02


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: 1.10e-02
Mean rank of genes in gene set: 404
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
KLF4 0.0017765 329 GTEx DepMap Descartes 1.18 111.12
AXL 0.0012496 479 GTEx DepMap Descartes 0.53 31.96