Program: 17. Neuroblastoma #4.

Program: 17. Neuroblastoma #4.



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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 SSTR2 0.0344108 somatostatin receptor 2 GTEx DepMap Descartes 4.98 270.38
2 SIX1 0.0250132 SIX homeobox 1 GTEx DepMap Descartes 0.65 66.49
3 CYP26A1 0.0216206 cytochrome P450 family 26 subfamily A member 1 GTEx DepMap Descartes 0.56 105.51
4 PPP1R14A 0.0212789 protein phosphatase 1 regulatory inhibitor subunit 14A GTEx DepMap Descartes 2.25 993.31
5 LDB3 0.0199186 LIM domain binding 3 GTEx DepMap Descartes 0.38 31.65
6 DACH1 0.0173399 dachshund family transcription factor 1 GTEx DepMap Descartes 1.00 78.52
7 CHRNA1 0.0170226 cholinergic receptor nicotinic alpha 1 subunit GTEx DepMap Descartes 0.30 48.89
8 EYA2 0.0168411 EYA transcriptional coactivator and phosphatase 2 GTEx DepMap Descartes 0.31 50.45
9 GKAP1 0.0163840 G kinase anchoring protein 1 GTEx DepMap Descartes 2.03 482.60
10 ASB4 0.0151877 ankyrin repeat and SOCS box containing 4 GTEx DepMap Descartes 0.21 30.55
11 RAPSN 0.0151285 receptor associated protein of the synapse GTEx DepMap Descartes 0.20 54.32
12 HES6 0.0130626 hes family bHLH transcription factor 6 GTEx DepMap Descartes 1.78 502.20
13 PAPSS1 0.0128511 3’-phosphoadenosine 5’-phosphosulfate synthase 1 GTEx DepMap Descartes 1.56 248.71
14 THSD7B 0.0126168 thrombospondin type 1 domain containing 7B GTEx DepMap Descartes 0.29 20.21
15 CERKL 0.0123165 ceramide kinase like GTEx DepMap Descartes 0.19 25.68
16 NEUROD2 0.0122400 neuronal differentiation 2 GTEx DepMap Descartes 0.13 11.45
17 ST18 0.0114264 ST18 C2H2C-type zinc finger transcription factor GTEx DepMap Descartes 0.14 9.51
18 FHIT 0.0111671 fragile histidine triad diadenosine triphosphatase GTEx DepMap Descartes 1.02 130.23
19 ASS1 0.0107363 argininosuccinate synthase 1 GTEx DepMap Descartes 0.34 64.87
20 DLK1 0.0105537 delta like non-canonical Notch ligand 1 GTEx DepMap Descartes 3.96 286.85
21 SMAD9 0.0104037 SMAD family member 9 GTEx DepMap Descartes 0.68 45.97
22 RAI14 0.0100483 retinoic acid induced 14 GTEx DepMap Descartes 0.72 45.97
23 LSAMP 0.0098449 limbic system associated membrane protein GTEx DepMap Descartes 0.90 40.53
24 PEX5L 0.0095229 peroxisomal biogenesis factor 5 like GTEx DepMap Descartes 0.32 14.71
25 ANO3 0.0092548 anoctamin 3 GTEx DepMap Descartes 0.18 12.38
26 MYBPHL 0.0090470 myosin binding protein H like GTEx DepMap Descartes 0.05 17.64
27 SVIP 0.0087631 small VCP interacting protein GTEx DepMap Descartes 1.40 106.22
28 IGFBP2 0.0082801 insulin like growth factor binding protein 2 GTEx DepMap Descartes 3.84 312.04
29 NKAIN4 0.0082292 sodium/potassium transporting ATPase interacting 4 GTEx DepMap Descartes 0.49 121.93
30 AFAP1 0.0080883 actin filament associated protein 1 GTEx DepMap Descartes 0.75 37.49
31 RBFOX3 0.0080744 RNA binding fox-1 homolog 3 GTEx DepMap Descartes 0.24 31.25
32 GNA14 0.0079474 G protein subunit alpha 14 GTEx DepMap Descartes 0.12 21.40
33 GRIN2D 0.0079274 glutamate ionotropic receptor NMDA type subunit 2D GTEx DepMap Descartes 0.12 6.94
34 GFRA1 0.0078773 GDNF family receptor alpha 1 GTEx DepMap Descartes 0.26 11.91
35 CLVS1 0.0078117 clavesin 1 GTEx DepMap Descartes 0.34 38.55
36 SATB2 0.0077829 SATB homeobox 2 GTEx DepMap Descartes 0.08 5.60
37 GIPR 0.0077754 gastric inhibitory polypeptide receptor GTEx DepMap Descartes 0.07 10.24
38 DLL3 0.0077411 delta like canonical Notch ligand 3 GTEx DepMap Descartes 1.06 189.59
39 PCDH17 0.0072739 protocadherin 17 GTEx DepMap Descartes 1.00 46.29
40 DDX1 0.0072310 DEAD-box helicase 1 GTEx DepMap Descartes 77.91 8217.05
41 ROBO1 0.0071305 roundabout guidance receptor 1 GTEx DepMap Descartes 0.51 24.25
42 NAV2 0.0070679 neuron navigator 2 GTEx DepMap Descartes 0.35 11.28
43 NNAT 0.0069634 neuronatin GTEx DepMap Descartes 3.03 975.43
44 FAM78B 0.0069573 family with sequence similarity 78 member B GTEx DepMap Descartes 0.46 35.64
45 FZD7 0.0068924 frizzled class receptor 7 GTEx DepMap Descartes 0.22 19.51
46 PSMB5 0.0066929 proteasome 20S subunit beta 5 GTEx DepMap Descartes 4.19 1180.09
47 LDHA 0.0065988 lactate dehydrogenase A GTEx DepMap Descartes 6.31 864.39
48 ENC1 0.0065283 ectodermal-neural cortex 1 GTEx DepMap Descartes 0.49 33.15
49 KCNJ6 0.0062943 potassium inwardly rectifying channel subfamily J member 6 GTEx DepMap Descartes 0.11 NA
50 STARD4 0.0062812 StAR related lipid transfer domain containing 4 GTEx DepMap Descartes 0.39 34.18


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UMAP plots showing activity of gene expression program identified in GEP 17. Neuroblastoma #4:

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
ZHONG_PFC_C2_SOX5_BCL11B_POS_EXCITATORY_NEURON 1.81e-04 31.85 5.95 1.35e-02 1.21e-01
3ST18, LSAMP, LDHA
 28
MANNO_MIDBRAIN_NEUROTYPES_HNBM 1.31e-08 12.42 5.67 8.80e-06 8.80e-06
11SSTR2, ST18, PEX5L, SVIP, AFAP1, RBFOX3, GFRA1, CLVS1, DLL3, ROBO1, NNAT
 295
DESCARTES_FETAL_INTESTINE_CHROMAFFIN_CELLS 7.64e-05 12.97 3.94 1.03e-02 5.13e-02
5SSTR2, CERKL, ST18, PEX5L, GIPR
 112
DESCARTES_FETAL_PANCREAS_ISLET_ENDOCRINE_CELLS 4.77e-05 10.52 3.61 9.64e-03 3.20e-02
6EYA2, CERKL, NEUROD2, ST18, GIPR, KCNJ6
 168
FAN_EMBRYONIC_CTX_BIG_GROUPS_EXCITATORY_NEURON 8.44e-04 18.11 3.48 5.66e-02 5.66e-01
3NEUROD2, SATB2, ENC1
 47
HU_FETAL_RETINA_RGC 4.15e-05 6.32 2.69 9.64e-03 2.79e-02
9DACH1, PAPSS1, SMAD9, NKAIN4, AFAP1, RBFOX3, DLL3, NAV2, LDHA
 443
DESCARTES_FETAL_CEREBRUM_EXCITATORY_NEURONS 4.05e-03 23.65 2.62 2.09e-01 1.00e+00
2NEUROD2, SATB2
 24
ZHONG_PFC_C7_ORG_UNDERGOING_NEURONAL_DIFFERENTIATION 2.35e-03 12.46 2.42 1.31e-01 1.00e+00
3NEUROD2, SATB2, ENC1
 67
MANNO_MIDBRAIN_NEUROTYPES_HDA1 5.75e-05 5.45 2.42 9.64e-03 3.86e-02
10SSTR2, ASB4, DLK1, LSAMP, GFRA1, CLVS1, ROBO1, NNAT, ENC1, KCNJ6
 584
MANNO_MIDBRAIN_NEUROTYPES_HDA 1.11e-04 5.52 2.35 1.03e-02 7.48e-02
9SSTR2, THSD7B, DLK1, LSAMP, GFRA1, CLVS1, ROBO1, NNAT, ENC1
 506
MANNO_MIDBRAIN_NEUROTYPES_HDA2 1.23e-04 5.45 2.31 1.03e-02 8.27e-02
9SSTR2, ASB4, DLK1, PEX5L, GFRA1, PCDH17, ROBO1, NNAT, KCNJ6
 513
HAY_BONE_MARROW_STROMAL 9.96e-05 4.68 2.15 1.03e-02 6.68e-02
11SSTR2, SIX1, THSD7B, ASS1, SMAD9, RAI14, IGFBP2, GFRA1, SATB2, NAV2, FZD7
 765
DESCARTES_FETAL_LUNG_NEUROENDOCRINE_CELLS 5.21e-03 9.27 1.81 2.50e-01 1.00e+00
3HES6, DLL3, KCNJ6
 89
MANNO_MIDBRAIN_NEUROTYPES_HNBGABA 1.12e-03 3.96 1.68 6.81e-02 7.50e-01
9THSD7B, LSAMP, PEX5L, RBFOX3, CLVS1, PCDH17, ROBO1, NNAT, ENC1
 703
DESCARTES_FETAL_HEART_SATB2_LRRC7_POSITIVE_CELLS 1.07e-02 7.06 1.39 4.50e-01 1.00e+00
3HES6, NEUROD2, SATB2
 116
DESCARTES_FETAL_STOMACH_ENS_GLIA 1.55e-02 11.31 1.29 5.11e-01 1.00e+00
2NKAIN4, FAM78B
 48
MANNO_MIDBRAIN_NEUROTYPES_HGABA 6.01e-03 2.86 1.27 2.69e-01 1.00e+00
10SSTR2, LSAMP, PEX5L, RBFOX3, GFRA1, CLVS1, PCDH17, ROBO1, NNAT, ENC1
 1105
MANNO_MIDBRAIN_NEUROTYPES_HNPROG 1.22e-02 4.83 1.25 4.80e-01 1.00e+00
4HES6, ST18, CLVS1, DLL3
 229
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_OLFACTORY_MICROVILLAR_CELLS 1.87e-02 10.20 1.17 5.24e-01 1.00e+00
2HES6, ENC1
 53
DESCARTES_FETAL_THYMUS_THYMIC_EPITHELIAL_CELLS 1.52e-02 4.51 1.17 5.11e-01 1.00e+00
4EYA2, THSD7B, NKAIN4, CLVS1
 245

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mSigDB Hallmark Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
HALLMARK_MYOGENESIS 4.35e-02 4.05 0.80 1.00e+00 1.00e+00
3LDB3, CHRNA1, NAV2
 200
HALLMARK_MTORC1_SIGNALING 4.35e-02 4.05 0.80 1.00e+00 1.00e+00
3PSMB5, LDHA, STARD4
 200
HALLMARK_ESTROGEN_RESPONSE_EARLY 1.85e-01 2.63 0.31 1.00e+00 1.00e+00
2GFRA1, NAV2
 200
HALLMARK_XENOBIOTIC_METABOLISM 1.85e-01 2.63 0.31 1.00e+00 1.00e+00
2CYP26A1, HES6
 200
HALLMARK_NOTCH_SIGNALING 1.20e-01 8.23 0.20 1.00e+00 1.00e+00
1FZD7
 32
HALLMARK_CHOLESTEROL_HOMEOSTASIS 2.55e-01 3.49 0.09 1.00e+00 1.00e+00
1STARD4
 74
HALLMARK_PI3K_AKT_MTOR_SIGNALING 3.41e-01 2.45 0.06 1.00e+00 1.00e+00
1GNA14
 105
HALLMARK_SPERMATOGENESIS 4.15e-01 1.90 0.05 1.00e+00 1.00e+00
1CLVS1
 135
HALLMARK_FATTY_ACID_METABOLISM 4.66e-01 1.62 0.04 1.00e+00 1.00e+00
1LDHA
 158
HALLMARK_UV_RESPONSE_UP 4.66e-01 1.62 0.04 1.00e+00 1.00e+00
1IGFBP2
 158
HALLMARK_HYPOXIA 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1LDHA
 200
HALLMARK_ESTROGEN_RESPONSE_LATE 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1ASS1
 200
HALLMARK_MYC_TARGETS_V1 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1LDHA
 200
HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1IGFBP2
 200
HALLMARK_OXIDATIVE_PHOSPHORYLATION 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1LDHA
 200
HALLMARK_GLYCOLYSIS 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1LDHA
 200
HALLMARK_KRAS_SIGNALING_DN 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1IGFBP2
 200
HALLMARK_TNFA_SIGNALING_VIA_NFKB 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 200
HALLMARK_MITOTIC_SPINDLE 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 199
HALLMARK_WNT_BETA_CATENIN_SIGNALING 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 42

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KEGG Pathways:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
KEGG_NEUROACTIVE_LIGAND_RECEPTOR_INTERACTION 2.13e-02 4.06 1.05 1.00e+00 1.00e+00
4SSTR2, CHRNA1, GRIN2D, GIPR
 272
KEGG_SULFUR_METABOLISM 5.05e-02 21.22 0.49 1.00e+00 1.00e+00
1PAPSS1
 13
KEGG_PURINE_METABOLISM 1.29e-01 3.32 0.39 1.00e+00 1.00e+00
2PAPSS1, FHIT
 159
KEGG_CALCIUM_SIGNALING_PATHWAY 1.55e-01 2.96 0.35 1.00e+00 1.00e+00
2GNA14, GRIN2D
 178
KEGG_SELENOAMINO_ACID_METABOLISM 9.85e-02 10.19 0.24 1.00e+00 1.00e+00
1PAPSS1
 26
KEGG_ALANINE_ASPARTATE_AND_GLUTAMATE_METABOLISM 1.20e-01 8.23 0.20 1.00e+00 1.00e+00
1ASS1
 32
KEGG_PROPANOATE_METABOLISM 1.23e-01 7.97 0.19 1.00e+00 1.00e+00
1LDHA
 33
KEGG_CYSTEINE_AND_METHIONINE_METABOLISM 1.27e-01 7.73 0.19 1.00e+00 1.00e+00
1LDHA
 34
KEGG_PYRUVATE_METABOLISM 1.47e-01 6.54 0.16 1.00e+00 1.00e+00
1LDHA
 40
KEGG_PROTEASOME 1.67e-01 5.67 0.14 1.00e+00 1.00e+00
1PSMB5
 46
KEGG_NOTCH_SIGNALING_PATHWAY 1.71e-01 5.54 0.13 1.00e+00 1.00e+00
1DLL3
 47
KEGG_AMYOTROPHIC_LATERAL_SCLEROSIS_ALS 1.90e-01 4.91 0.12 1.00e+00 1.00e+00
1GRIN2D
 53
KEGG_ARGININE_AND_PROLINE_METABOLISM 1.94e-01 4.81 0.12 1.00e+00 1.00e+00
1ASS1
 54
KEGG_NON_SMALL_CELL_LUNG_CANCER 1.94e-01 4.81 0.12 1.00e+00 1.00e+00
1FHIT
 54
KEGG_BASAL_CELL_CARCINOMA 1.97e-01 4.72 0.12 1.00e+00 1.00e+00
1FZD7
 55
KEGG_GLYCOLYSIS_GLUCONEOGENESIS 2.19e-01 4.18 0.10 1.00e+00 1.00e+00
1LDHA
 62
KEGG_RETINOL_METABOLISM 2.25e-01 4.05 0.10 1.00e+00 1.00e+00
1CYP26A1
 64
KEGG_LONG_TERM_POTENTIATION 2.43e-01 3.70 0.09 1.00e+00 1.00e+00
1GRIN2D
 70
KEGG_SMALL_CELL_LUNG_CANCER 2.84e-01 3.07 0.08 1.00e+00 1.00e+00
1FHIT
 84
KEGG_TGF_BETA_SIGNALING_PATHWAY 2.90e-01 3.00 0.07 1.00e+00 1.00e+00
1SMAD9
 86

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr11p14 2.07e-02 9.64 1.11 1.00e+00 1.00e+00
2ANO3, SVIP
 56
chr2q31 1.40e-01 3.16 0.37 1.00e+00 1.00e+00
2CHRNA1, CERKL
 167
chr9q21 1.68e-01 2.80 0.33 1.00e+00 1.00e+00
2GKAP1, GNA14
 188
chr10q23 1.71e-01 2.77 0.32 1.00e+00 1.00e+00
2CYP26A1, LDB3
 190
chr2q33 1.78e-01 2.70 0.32 1.00e+00 1.00e+00
2SATB2, FZD7
 195
chr19q13 1.00e+00 0.94 0.24 1.00e+00 1.00e+00
4PPP1R14A, GRIN2D, GIPR, DLL3
 1165
chr17q25 3.22e-01 1.77 0.21 1.00e+00 1.00e+00
2SSTR2, RBFOX3
 297
chr20q13 6.68e-01 1.31 0.15 1.00e+00 1.00e+00
2EYA2, NKAIN4
 400
chr5q22 1.97e-01 4.72 0.12 1.00e+00 1.00e+00
1STARD4
 55
chr3p12 2.31e-01 3.92 0.10 1.00e+00 1.00e+00
1ROBO1
 66
chr2q22 2.37e-01 3.81 0.09 1.00e+00 1.00e+00
1THSD7B
 68
chr8q11 2.43e-01 3.70 0.09 1.00e+00 1.00e+00
1ST18
 70
chr2p24 2.55e-01 3.49 0.09 1.00e+00 1.00e+00
1DDX1
 74
chr13q13 2.67e-01 3.31 0.08 1.00e+00 1.00e+00
1SMAD9
 78
chr4q25 2.93e-01 2.97 0.07 1.00e+00 1.00e+00
1PAPSS1
 87
chr8q12 2.95e-01 2.93 0.07 1.00e+00 1.00e+00
1CLVS1
 88
chr3p14 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1FHIT
 122
chr1q24 3.87e-01 2.09 0.05 1.00e+00 1.00e+00
1FAM78B
 123
chr14q23 3.89e-01 2.07 0.05 1.00e+00 1.00e+00
1SIX1
 124
chr10q25 3.94e-01 2.04 0.05 1.00e+00 1.00e+00
1GFRA1
 126

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
ZNF354A_TARGET_GENES 6.69e-03 17.94 2.02 6.39e-01 1.00e+00
2RAI14, DLL3
 31
TAL1ALPHAE47_01 3.23e-03 5.49 1.69 6.39e-01 1.00e+00
5ASB4, HES6, NEUROD2, GFRA1, CLVS1
 258
SIX1_TARGET_GENES 3.14e-03 4.61 1.59 6.39e-01 1.00e+00
6SIX1, HES6, ANO3, NKAIN4, AFAP1, NAV2
 376
AAANWWTGC_UNKNOWN 7.07e-03 5.69 1.47 6.39e-01 1.00e+00
4LSAMP, SATB2, NNAT, FZD7
 195
CDP_02 9.53e-03 7.39 1.45 6.39e-01 1.00e+00
3SIX1, DACH1, LSAMP
 111
HFH4_01 8.38e-03 5.41 1.40 6.39e-01 1.00e+00
4CYP26A1, NEUROD2, GFRA1, PCDH17
 205
TGACAGNY_MEIS1_01 3.80e-03 3.26 1.39 6.39e-01 1.00e+00
9CHRNA1, EYA2, HES6, NEUROD2, LSAMP, GIPR, PCDH17, NAV2, NNAT
 850
RYTGCNWTGGNR_UNKNOWN 1.12e-02 6.94 1.36 6.39e-01 1.00e+00
3SIX1, GRIN2D, NNAT
 118
CAGCTG_AP4_Q5 9.36e-03 2.60 1.24 6.39e-01 1.00e+00
12LDB3, CHRNA1, EYA2, RAPSN, HES6, CERKL, NEUROD2, ASS1, GRIN2D, CLVS1, DLL3, NNAT
 1530
ZF5_B 1.48e-02 4.55 1.18 6.39e-01 1.00e+00
4CYP26A1, GFRA1, DDX1, NAV2
 243
PTF1BETA_Q6 1.54e-02 4.49 1.17 6.39e-01 1.00e+00
4ST18, CLVS1, PCDH17, ROBO1
 246
MYOD_Q6 1.60e-02 4.44 1.15 6.39e-01 1.00e+00
4CYP26A1, HES6, NKAIN4, GFRA1
 249
TAL1BETAE47_01 1.73e-02 4.33 1.12 6.39e-01 1.00e+00
4ASB4, NEUROD2, GFRA1, CLVS1
 255
AP4_Q6_01 1.77e-02 4.30 1.11 6.39e-01 1.00e+00
4RAPSN, HES6, GRIN2D, CLVS1
 257
ZA_UNIPROT_Q9UM89_UNREVIEWED_TARGET_GENES 2.14e-02 9.46 1.09 6.39e-01 1.00e+00
2GKAP1, RAI14
 57
AP4_01 1.96e-02 4.16 1.08 6.39e-01 1.00e+00
4RAPSN, HES6, NEUROD2, GRIN2D
 265
DBP_Q6 1.96e-02 4.16 1.08 6.39e-01 1.00e+00
4NEUROD2, GFRA1, GIPR, PCDH17
 265
E12_Q6 1.96e-02 4.16 1.08 6.39e-01 1.00e+00
4CYP26A1, HES6, GFRA1, DLL3
 265
TAL1BETAITF2_01 1.98e-02 4.15 1.08 6.39e-01 1.00e+00
4ASB4, NEUROD2, GFRA1, CLVS1
 266
OCT1_Q6 2.13e-02 4.06 1.05 6.39e-01 1.00e+00
4SIX1, NEUROD2, GNA14, SATB2
 272

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_ORGAN_INDUCTION 3.10e-03 27.37 3.01 1.00e+00 1.00e+00
2SIX1, ROBO1
 21
GOBP_PROTEASOMAL_UBIQUITIN_INDEPENDENT_PROTEIN_CATABOLIC_PROCESS 3.40e-03 26.01 2.87 1.00e+00 1.00e+00
2PSMB5, ENC1
 22
GOBP_RESPONSE_TO_NUTRIENT 4.58e-04 8.68 2.65 1.00e+00 1.00e+00
5CYP26A1, ASS1, IGFBP2, GIPR, LDHA
 165
GOBP_NEUROMUSCULAR_SYNAPTIC_TRANSMISSION 4.05e-03 23.65 2.62 1.00e+00 1.00e+00
2CHRNA1, RAPSN
 24
GOBP_REGULATION_OF_ANIMAL_ORGAN_FORMATION 4.74e-03 21.66 2.42 1.00e+00 1.00e+00
2SIX1, ROBO1
 26
GOBP_SYNAPTIC_TRANSMISSION_CHOLINERGIC 5.48e-03 20.00 2.24 1.00e+00 1.00e+00
2CHRNA1, RAPSN
 28
GOBP_CELL_FATE_COMMITMENT_INVOLVED_IN_FORMATION_OF_PRIMARY_GERM_LAYER 5.48e-03 20.00 2.24 1.00e+00 1.00e+00
2EYA2, FZD7
 28
GOBP_HEART_FORMATION 5.87e-03 19.27 2.16 1.00e+00 1.00e+00
2SIX1, ROBO1
 29
GOBP_POSITIVE_REGULATION_OF_ANIMAL_ORGAN_MORPHOGENESIS 6.27e-03 18.58 2.09 1.00e+00 1.00e+00
2SIX1, ROBO1
 30
GOBP_DEVELOPMENTAL_INDUCTION 7.12e-03 17.34 1.95 1.00e+00 1.00e+00
2SIX1, ROBO1
 32
GOBP_SPECIFICATION_OF_ANIMAL_ORGAN_IDENTITY 8.00e-03 16.26 1.84 1.00e+00 1.00e+00
2SIX1, ROBO1
 34
GOBP_CELL_FATE_SPECIFICATION 5.05e-03 9.38 1.83 1.00e+00 1.00e+00
3SIX1, EYA2, FZD7
 88
GOBP_NEGATIVE_REGULATION_OF_PROTEASOMAL_UBIQUITIN_DEPENDENT_PROTEIN_CATABOLIC_PROCESS 8.94e-03 15.30 1.73 1.00e+00 1.00e+00
2FHIT, SVIP
 36
GOBP_REGULATION_OF_CAMP_MEDIATED_SIGNALING 9.43e-03 14.87 1.69 1.00e+00 1.00e+00
2PEX5L, GIPR
 37
GOBP_REGULATION_OF_ANIMAL_ORGAN_MORPHOGENESIS 4.96e-03 6.32 1.63 1.00e+00 1.00e+00
4SIX1, ROBO1, FZD7, PSMB5
 176
GOBP_RESPONSE_TO_RETINOIC_ACID 7.78e-03 7.98 1.56 1.00e+00 1.00e+00
3CYP26A1, IGFBP2, FZD7
 103
GOBP_NEUROMUSCULAR_JUNCTION_DEVELOPMENT 1.49e-02 11.57 1.32 1.00e+00 1.00e+00
2SIX1, CHRNA1
 47
GOBP_RESPONSE_TO_ESTRADIOL 1.31e-02 6.54 1.28 1.00e+00 1.00e+00
3SSTR2, ASS1, IGFBP2
 125
GOBP_ARGININE_BIOSYNTHETIC_PROCESS 1.98e-02 63.54 1.27 1.00e+00 1.00e+00
1ASS1
 5
GOBP_NEGATIVE_REGULATION_OF_CELL_FATE_SPECIFICATION 1.98e-02 63.54 1.27 1.00e+00 1.00e+00
1FZD7
 5

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE17721_0.5H_VS_8H_GARDIQUIMOD_BMDC_DN 1.06e-03 7.16 2.19 1.00e+00 1.00e+00
5DACH1, PAPSS1, DLK1, SATB2, FZD7
 199
GSE15659_NONSUPPRESSIVE_TCELL_VS_ACTIVATED_TREG_UP 6.95e-03 5.72 1.48 1.00e+00 1.00e+00
4ASB4, AFAP1, GFRA1, DLL3
 194
GSE29618_PRE_VS_DAY7_POST_LAIV_FLU_VACCINE_PDC_UP 7.20e-03 5.66 1.47 1.00e+00 1.00e+00
4RAI14, AFAP1, GIPR, ROBO1
 196
GSE21546_UNSTIM_VS_ANTI_CD3_STIM_SAP1A_KO_DP_THYMOCYTES_UP 7.45e-03 5.60 1.45 1.00e+00 1.00e+00
4CYP26A1, PAPSS1, RAI14, GFRA1
 198
GSE21927_C26GM_VS_4T1_TUMOR_MONOCYTE_BALBC_UP 7.45e-03 5.60 1.45 1.00e+00 1.00e+00
4PPP1R14A, HES6, PAPSS1, GRIN2D
 198
GSE29949_MICROGLIA_BRAIN_VS_CD8_NEG_DC_SPLEEN_DN 7.45e-03 5.60 1.45 1.00e+00 1.00e+00
4NEUROD2, DLK1, SMAD9, KCNJ6
 198
GSE17721_CTRL_VS_LPS_1H_BMDC_DN 7.58e-03 5.57 1.44 1.00e+00 1.00e+00
4SIX1, CYP26A1, RAI14, CLVS1
 199
GSE17721_CTRL_VS_CPG_24H_BMDC_UP 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4EYA2, HES6, GNA14, DLL3
 200
GSE17721_CPG_VS_GARDIQUIMOD_12H_BMDC_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4SIX1, DACH1, RAPSN, SATB2
 200
GSE9878_CTRL_VS_EBF_TRANSDUCED_PAX5_KO_PRO_BCELL_UP 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4EYA2, GKAP1, SVIP, RBFOX3
 200
GSE21670_UNTREATED_VS_TGFB_TREATED_CD4_TCELL_UP 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4ASS1, DLK1, SMAD9, KCNJ6
 200
GSE29949_MICROGLIA_BRAIN_VS_CD8_POS_DC_SPLEEN_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4LDB3, NEUROD2, SATB2, FZD7
 200
GSE11961_GERMINAL_CENTER_BCELL_DAY7_VS_MEMORY_BCELL_DAY40_DN 7.71e-03 5.55 1.44 1.00e+00 1.00e+00
4SSTR2, PPP1R14A, THSD7B, GFRA1
 200
GSE13547_WT_VS_ZFX_KO_BCELL_ANTI_IGM_STIM_12H_UP 2.00e-02 5.54 1.09 1.00e+00 1.00e+00
3DACH1, PCDH17, KCNJ6
 147
GSE9946_IMMATURE_VS_PROSTAGLANDINE2_TREATED_MATURE_DC_UP 2.08e-02 5.46 1.08 1.00e+00 1.00e+00
3SSTR2, LSAMP, ANO3
 149
GSE13522_CTRL_VS_T_CRUZI_Y_STRAIN_INF_SKIN_IFNG_KO_UP 2.38e-02 5.18 1.02 1.00e+00 1.00e+00
3RAPSN, ANO3, FZD7
 157
GSE32255_WT_UNSTIM_VS_JMJD2D_KNOCKDOWN_4H_LPS_STIM_DC_DN 3.04e-02 4.69 0.93 1.00e+00 1.00e+00
3RAPSN, NAV2, STARD4
 173
GSE36095_WT_VS_HDAC9_KO_TREG_UP 3.40e-02 4.48 0.88 1.00e+00 1.00e+00
3EYA2, FAM78B, LDHA
 181
GSE16385_UNTREATED_VS_12H_ROSIGLITAZONE_TREATED_MACROPHAGE_UP 3.74e-02 4.31 0.85 1.00e+00 1.00e+00
3RAI14, NKAIN4, ENC1
 188
GSE45365_BCELL_VS_CD8_TCELL_DN 3.74e-02 4.31 0.85 1.00e+00 1.00e+00
3PPP1R14A, IGFBP2, GNA14
 188

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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
SIX1 2 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
DACH1 6 Yes Likely to be sequence specific TF Monomer or homomultimer No motif Has a putative AT-hook Binds with consensus AAWANAAAWAAWT and AATACAATTAAAT as strongest target sequences based on EMSA and SELEX (PMID: 20351289). Protein contains a winged helix structural domain (PMID: 12057194)
HES6 12 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NEUROD2 16 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ST18 17 Yes Inferred motif Monomer or homomultimer High-throughput in vitro None None
SMAD9 21 Yes Known motif Obligate heteromer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain None
SATB2 36 Yes Inferred motif Low specificity DNA-binding protein In vivo/Misc source None SATBs were analyzed by Gwenael Badis and Mike Berger a decade ago; by PBMs. It did not yield a motif; instead; the signal was very closely proportional to nucleotide content, as the name suggests (Special AT Binding).
ZBTB18 59 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
CYP1B1 63 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
TCF15 66 Yes Inferred motif Monomer or homomultimer High-throughput in vitro None None
NRIP1 67 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Transcriptional cofactor
HHEX 91 Yes Inferred motif Monomer or homomultimer High-throughput in vitro None None
RCOR2 95 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Contains 2 SANT domains, and no other putative DNA-binding domains
PAX6 103 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NPM1 109 No Unlikely to be sequence specific TF Low specificity DNA-binding protein No motif None No evidence for sequence-specific DNA-binding (PMID: 2223875)
TSN 111 No Unlikely to be sequence specific TF Low specificity DNA-binding protein No motif None Based on (PMID: 20450889) and (PMID: 12484770), this protein binds repetitive DNA sequences as multimeric complexes that may contain partner protein TSNAX
H1FX 117 No Unlikely to be sequence specific TF Low specificity DNA-binding protein No motif None Histone component
DACH2 119 Yes Likely to be sequence specific TF Monomer or homomultimer No motif Has a putative AT-hook Related to DACH1, which can bind DNA based on EMSA and SELEX (PMID: 20351289). Yet, the fly ortholog has been extensively studied and cannot bind DNA. (PMID: 8431945; PMID: 7821215)
CNBP 131 No ssDNA/RNA binding Not a DNA binding protein No motif None CNBP has a specificity for single-stranded DNA (PMID: 2562787)
SETBP1 133 Yes Likely to be sequence specific TF Monomer or homomultimer No motif None Orthologous protein from mouse (Setbp1) bind DNA sequence-specifically by PBM


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
T162_AAGATAGCAACTTGCA-1 Neurons:adrenal_medulla_cell_line 0.17 663.40
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_1lox-17Puro-5: 0.33, iPS_cells:PDB_2lox-17: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.32
T162_CTGTGAACACGCTTAA-1 Neurons:adrenal_medulla_cell_line 0.15 513.94
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.34, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_2lox-5: 0.32, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32
T162_CTGTACCAGCCATTCA-1 Neurons:adrenal_medulla_cell_line 0.19 401.60
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.32, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_2lox-5: 0.31, Neurons:ES_cell-derived_neural_precursor: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, iPS_cells:PDB_2lox-17: 0.31
T162_ATGGAGGCACAACATC-1 Neurons:adrenal_medulla_cell_line 0.17 395.53
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.39, iPS_cells:PDB_1lox-21Puro-20: 0.36, iPS_cells:PDB_2lox-22: 0.36, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.36, Astrocyte:Embryonic_stem_cell-derived: 0.36, iPS_cells:PDB_1lox-17Puro-10: 0.36, iPS_cells:PDB_1lox-21Puro-26: 0.36, iPS_cells:PDB_2lox-21: 0.35, iPS_cells:PDB_2lox-17: 0.35
T162_AGCATCATCGAAACAA-1 Neurons:adrenal_medulla_cell_line 0.20 394.42
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.36, Astrocyte:Embryonic_stem_cell-derived: 0.34, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_2lox-22: 0.33, Embryonic_stem_cells: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_2lox-5: 0.32
T162_GATCCCTAGCACCTGC-1 Neurons:adrenal_medulla_cell_line 0.15 343.91
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.32, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-17Puro-5: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32
T162_AGTCAACAGTCTACCA-1 Neurons:adrenal_medulla_cell_line 0.16 334.04
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.36, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_1lox-17Puro-5: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, iPS_cells:PDB_2lox-17: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.33
T162_CGAATTGGTGGAACCA-1 Neurons:adrenal_medulla_cell_line 0.21 323.54
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.41, Neuroepithelial_cell:ESC-derived: 0.36, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_2lox-17: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:PDB_1lox-17Puro-5: 0.33
T162_TTCCTAATCTCTGCTG-1 Neurons:adrenal_medulla_cell_line 0.17 322.06
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.38, iPS_cells:PDB_1lox-21Puro-20: 0.37, iPS_cells:PDB_1lox-21Puro-26: 0.36, iPS_cells:PDB_1lox-17Puro-10: 0.36, iPS_cells:PDB_2lox-22: 0.36, iPS_cells:PDB_1lox-17Puro-5: 0.36, iPS_cells:PDB_2lox-21: 0.36, iPS_cells:PDB_2lox-17: 0.36, Embryonic_stem_cells: 0.36
T162_CCAATGACAGCTTCCT-1 Neurons:adrenal_medulla_cell_line 0.19 320.07
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.32, iPS_cells:PDB_2lox-22: 0.3, iPS_cells:PDB_1lox-21Puro-20: 0.3, iPS_cells:PDB_2lox-21: 0.3, iPS_cells:PDB_1lox-21Puro-26: 0.3, iPS_cells:PDB_2lox-17: 0.3, iPS_cells:PDB_1lox-17Puro-10: 0.3, iPS_cells:PDB_2lox-5: 0.3, iPS_cells:PDB_1lox-17Puro-5: 0.3
T162_GATTCGAAGTCGGCAA-1 Neurons:adrenal_medulla_cell_line 0.19 316.51
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.41, Neuroepithelial_cell:ESC-derived: 0.38, iPS_cells:PDB_1lox-21Puro-20: 0.36, iPS_cells:PDB_1lox-17Puro-5: 0.36, iPS_cells:PDB_1lox-17Puro-10: 0.36, iPS_cells:PDB_2lox-22: 0.36, iPS_cells:PDB_1lox-21Puro-26: 0.35, iPS_cells:PDB_2lox-21: 0.35, iPS_cells:PDB_2lox-17: 0.35, Astrocyte:Embryonic_stem_cell-derived: 0.35
T162_ACGTACAAGTGCCCGT-1 Neurons:adrenal_medulla_cell_line 0.18 313.69
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.33, iPS_cells:PDB_2lox-22: 0.31, Astrocyte:Embryonic_stem_cell-derived: 0.31, iPS_cells:PDB_2lox-21: 0.3, iPS_cells:PDB_2lox-17: 0.3, iPS_cells:PDB_1lox-21Puro-20: 0.3, iPS_cells:PDB_1lox-17Puro-10: 0.3, iPS_cells:PDB_1lox-21Puro-26: 0.3, iPS_cells:PDB_1lox-17Puro-5: 0.3
T162_TGTCAGAAGGTTACAA-1 Neurons:adrenal_medulla_cell_line 0.15 299.30
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.32, Neuroepithelial_cell:ESC-derived: 0.28, Astrocyte:Embryonic_stem_cell-derived: 0.26, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-21Puro-26: 0.26, iPS_cells:PDB_1lox-17Puro-5: 0.26, iPS_cells:PDB_2lox-22: 0.25, iPS_cells:PDB_2lox-17: 0.25
T162_AACCAACTCAATCAGC-1 Neurons:adrenal_medulla_cell_line 0.20 293.54
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.34, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32, iPS_cells:PDB_1lox-17Puro-5: 0.31, iPS_cells:PDB_2lox-17: 0.31, iPS_cells:PDB_2lox-21: 0.31, Embryonic_stem_cells: 0.31
T162_GATTTCTTCTGGCCGA-1 Neurons:adrenal_medulla_cell_line 0.16 292.77
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.34, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.31, iPS_cells:PDB_2lox-21: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, Astrocyte:Embryonic_stem_cell-derived: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31
T162_AACAAAGTCGTGCGAC-1 Neurons:adrenal_medulla_cell_line 0.19 283.57
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.39, Neuroepithelial_cell:ESC-derived: 0.34, iPS_cells:PDB_2lox-22: 0.32, Astrocyte:Embryonic_stem_cell-derived: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_2lox-21: 0.31, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31, iPS_cells:PDB_2lox-5: 0.31
T162_AGCATCATCCATTTAC-1 Neurons:adrenal_medulla_cell_line 0.16 276.84
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.32, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:iPS:minicircle-derived: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32
T162_AGTACCAAGAAACCCG-1 Neurons:adrenal_medulla_cell_line 0.17 275.08
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.33, iPS_cells:PDB_1lox-17Puro-5: 0.33, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_2lox-17: 0.33
T162_GGCACGTTCATGCCCT-1 Neurons:adrenal_medulla_cell_line 0.11 273.21
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.28, Neuroepithelial_cell:ESC-derived: 0.26, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-17Puro-5: 0.26, iPS_cells:PDB_2lox-22: 0.26, iPS_cells:PDB_2lox-17: 0.26, iPS_cells:PDB_1lox-21Puro-26: 0.26, iPS_cells:PDB_2lox-21: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26, iPS_cells:PDB_2lox-5: 0.26
T162_CGGTCAGTCTGATTCT-1 Neurons:adrenal_medulla_cell_line 0.18 267.37
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.31, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:PDB_1lox-21Puro-20: 0.28, iPS_cells:PDB_2lox-22: 0.28, iPS_cells:PDB_1lox-17Puro-10: 0.28, iPS_cells:PDB_1lox-17Puro-5: 0.28, iPS_cells:PDB_1lox-21Puro-26: 0.28, Neurons:ES_cell-derived_neural_precursor: 0.27, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.27
T162_TTCATTGTCTCCACTG-1 Neurons:adrenal_medulla_cell_line 0.17 260.29
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_1lox-17Puro-5: 0.32, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.32
T162_AGTCACAAGACATAAC-1 Neurons:adrenal_medulla_cell_line 0.19 245.18
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.36, Astrocyte:Embryonic_stem_cell-derived: 0.34, iPS_cells:PDB_1lox-21Puro-20: 0.34, iPS_cells:PDB_1lox-17Puro-10: 0.34, iPS_cells:PDB_2lox-22: 0.34, iPS_cells:PDB_1lox-21Puro-26: 0.34, iPS_cells:PDB_1lox-17Puro-5: 0.34, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_2lox-17: 0.33
T162_CCTCCTCAGCGAAACC-1 Neurons:adrenal_medulla_cell_line 0.15 234.60
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.29, Neuroepithelial_cell:ESC-derived: 0.26, Astrocyte:Embryonic_stem_cell-derived: 0.24, Embryonic_stem_cells: 0.23, Neurons:ES_cell-derived_neural_precursor: 0.23, iPS_cells:PDB_1lox-17Puro-10: 0.22, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.22, iPS_cells:PDB_2lox-22: 0.22, iPS_cells:PDB_1lox-17Puro-5: 0.22, iPS_cells:PDB_1lox-21Puro-20: 0.22
T162_GGGTGAACAACTCCCT-1 Neurons:adrenal_medulla_cell_line 0.19 234.52
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.37, iPS_cells:PDB_1lox-21Puro-20: 0.35, iPS_cells:PDB_1lox-21Puro-26: 0.34, iPS_cells:PDB_2lox-22: 0.34, iPS_cells:PDB_1lox-17Puro-10: 0.34, iPS_cells:PDB_1lox-17Puro-5: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.34, iPS_cells:PDB_2lox-17: 0.34, iPS_cells:PDB_2lox-21: 0.34
T162_GATGGAGGTTAATGAG-1 Neurons:adrenal_medulla_cell_line 0.16 234.15
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-22: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, Embryonic_stem_cells: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33, iPS_cells:PDB_2lox-21: 0.33
T162_GCAGGCTTCCTAAACG-1 Neurons:adrenal_medulla_cell_line 0.20 233.14
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:PDB_1lox-17Puro-5: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31, iPS_cells:PDB_2lox-21: 0.31, iPS_cells:PDB_2lox-17: 0.31
T162_GGTCTGGTCACCATCC-1 Neurons:adrenal_medulla_cell_line 0.15 230.91
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:PDB_2lox-22: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.31, iPS_cells:PDB_1lox-17Puro-5: 0.31
T162_TGGTTAGCAATCGTCA-1 Monocyte:MCSF 0.03 229.49
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.34, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.31, Embryonic_stem_cells: 0.3, iPS_cells:PDB_2lox-22: 0.3, Neurons:Schwann_cell: 0.3, iPS_cells:PDB_2lox-5: 0.3, iPS_cells:fibroblast-derived:Retroviral_transf: 0.3, iPS_cells:PDB_2lox-17: 0.3
T162_TCGGGACCAGCCTTCT-1 Neurons:adrenal_medulla_cell_line 0.15 228.84
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.31, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.31, iPS_cells:PDB_2lox-21: 0.31, iPS_cells:PDB_2lox-17: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31
T162_TTGTTTGTCGCAACAT-1 Neurons:adrenal_medulla_cell_line 0.20 226.43
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.29, Embryonic_stem_cells: 0.29, Neurons:ES_cell-derived_neural_precursor: 0.29, iPS_cells:PDB_1lox-17Puro-10: 0.29, iPS_cells:PDB_2lox-22: 0.29, iPS_cells:PDB_1lox-21Puro-26: 0.29, iPS_cells:PDB_1lox-17Puro-5: 0.29
T162_ACTTCCGTCCGTAGTA-1 Neurons:adrenal_medulla_cell_line 0.15 216.55
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32, Embryonic_stem_cells: 0.32, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32
T162_TGTTCATGTCTTACAG-1 Neurons:adrenal_medulla_cell_line 0.17 214.86
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.35, iPS_cells:PDB_2lox-22: 0.34, iPS_cells:PDB_2lox-17: 0.33, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.33, Embryonic_stem_cells: 0.33, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.33
T162_ACCTGAAGTGACACGA-1 Neurons:adrenal_medulla_cell_line 0.15 212.22
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.31, Neuroepithelial_cell:ESC-derived: 0.29, iPS_cells:PDB_2lox-22: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:PDB_2lox-21: 0.27, iPS_cells:PDB_1lox-21Puro-20: 0.27, iPS_cells:PDB_2lox-17: 0.27, iPS_cells:PDB_2lox-5: 0.27, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-21Puro-26: 0.26
T162_CCGTAGGTCGCAACAT-1 Neurons:adrenal_medulla_cell_line 0.18 210.15
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.31, iPS_cells:PDB_2lox-22: 0.29, Neurons:ES_cell-derived_neural_precursor: 0.29, iPS_cells:PDB_1lox-21Puro-20: 0.29, iPS_cells:PDB_1lox-17Puro-10: 0.29, iPS_cells:PDB_1lox-21Puro-26: 0.29, iPS_cells:PDB_2lox-21: 0.29, iPS_cells:PDB_2lox-17: 0.29
T162_TGCAGTAAGCTTCTAG-1 Neurons:adrenal_medulla_cell_line 0.15 209.12
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.26, iPS_cells:PDB_2lox-22: 0.24, iPS_cells:PDB_2lox-17: 0.24, iPS_cells:PDB_1lox-17Puro-5: 0.24, iPS_cells:PDB_2lox-21: 0.24, iPS_cells:PDB_1lox-17Puro-10: 0.24, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.24, iPS_cells:PDB_2lox-5: 0.24
T162_AGCTACAAGGTGGCTA-1 Neurons:adrenal_medulla_cell_line 0.18 203.33
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.31, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:PDB_2lox-22: 0.28, Neurons:ES_cell-derived_neural_precursor: 0.28, iPS_cells:PDB_1lox-21Puro-20: 0.28, iPS_cells:PDB_2lox-21: 0.27, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.27, iPS_cells:PDB_1lox-21Puro-26: 0.27, iPS_cells:PDB_2lox-17: 0.27
T162_TTCCAATCAAGTATAG-1 Neurons:adrenal_medulla_cell_line 0.11 198.83
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.26, Neuroepithelial_cell:ESC-derived: 0.24, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.23, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.23, Astrocyte:Embryonic_stem_cell-derived: 0.23, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.23, iPS_cells:PDB_2lox-22: 0.22, iPS_cells:PDB_2lox-21: 0.22, Embryonic_stem_cells: 0.22, iPS_cells:PDB_2lox-5: 0.22
T162_GGGTAGAGTCTGGTTA-1 Neurons:adrenal_medulla_cell_line 0.18 194.36
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.35, Astrocyte:Embryonic_stem_cell-derived: 0.33, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_2lox-21: 0.32, iPS_cells:PDB_2lox-17: 0.32, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32
T162_AGTGACTAGGTGCTAG-1 Neurons:adrenal_medulla_cell_line 0.16 193.13
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.34, Neuroepithelial_cell:ESC-derived: 0.3, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:PDB_2lox-22: 0.27, iPS_cells:PDB_2lox-5: 0.27, Embryonic_stem_cells: 0.27, iPS_cells:PDB_1lox-17Puro-10: 0.27, iPS_cells:PDB_2lox-17: 0.27, iPS_cells:PDB_1lox-21Puro-20: 0.27, iPS_cells:PDB_2lox-21: 0.27
T162_AAGTTCGGTATCCCTC-1 Neurons:adrenal_medulla_cell_line 0.09 191.94
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.27, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.26, Astrocyte:Embryonic_stem_cell-derived: 0.26, iPS_cells:PDB_1lox-17Puro-5: 0.26, iPS_cells:PDB_2lox-22: 0.26, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-21Puro-26: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26, iPS_cells:PDB_2lox-17: 0.26
T162_AATCACGAGGCTTTCA-1 Neurons:adrenal_medulla_cell_line 0.12 184.31
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.28, Neuroepithelial_cell:ESC-derived: 0.25, Astrocyte:Embryonic_stem_cell-derived: 0.25, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.24, Embryonic_stem_cells: 0.24, iPS_cells:PDB_2lox-22: 0.23, iPS_cells:PDB_1lox-21Puro-20: 0.23, iPS_cells:PDB_2lox-5: 0.23, iPS_cells:PDB_1lox-17Puro-10: 0.23, iPS_cells:PDB_2lox-17: 0.23
T162_GACTTCCTCTGTGCGG-1 Neurons:adrenal_medulla_cell_line 0.18 184.26
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.39, Neuroepithelial_cell:ESC-derived: 0.36, Astrocyte:Embryonic_stem_cell-derived: 0.34, iPS_cells:PDB_1lox-21Puro-20: 0.33, iPS_cells:PDB_2lox-22: 0.33, iPS_cells:PDB_1lox-21Puro-26: 0.33, iPS_cells:PDB_2lox-17: 0.33, iPS_cells:PDB_2lox-5: 0.33, iPS_cells:PDB_2lox-21: 0.33, iPS_cells:PDB_1lox-17Puro-10: 0.33
T162_CAACGATAGATGCGAC-1 Neurons:adrenal_medulla_cell_line 0.19 182.45
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.33, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:PDB_1lox-21Puro-20: 0.31, iPS_cells:PDB_1lox-17Puro-10: 0.31, Astrocyte:Embryonic_stem_cell-derived: 0.31, iPS_cells:PDB_1lox-21Puro-26: 0.31, iPS_cells:PDB_1lox-17Puro-5: 0.31, iPS_cells:PDB_2lox-17: 0.31, iPS_cells:PDB_2lox-21: 0.31
T162_TCCTCTTGTTCGGTCG-1 Neurons:adrenal_medulla_cell_line 0.15 182.19
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.34, Neuroepithelial_cell:ESC-derived: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.29, iPS_cells:PDB_2lox-22: 0.29, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:PDB_1lox-17Puro-10: 0.29, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.29, iPS_cells:PDB_1lox-21Puro-26: 0.29, iPS_cells:PDB_1lox-17Puro-5: 0.29, Embryonic_stem_cells: 0.29
T162_CATACAGCATCGAAGG-1 Neurons:adrenal_medulla_cell_line 0.21 174.89
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.43, Neuroepithelial_cell:ESC-derived: 0.38, iPS_cells:PDB_2lox-22: 0.36, iPS_cells:PDB_1lox-21Puro-20: 0.36, iPS_cells:PDB_2lox-21: 0.36, iPS_cells:PDB_2lox-17: 0.36, iPS_cells:PDB_1lox-21Puro-26: 0.36, Neurons:ES_cell-derived_neural_precursor: 0.35, Astrocyte:Embryonic_stem_cell-derived: 0.35, iPS_cells:PDB_1lox-17Puro-10: 0.35
T162_GGGTGAACAGCAGTAG-1 Neurons:adrenal_medulla_cell_line 0.20 174.14
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.4, Neuroepithelial_cell:ESC-derived: 0.36, iPS_cells:PDB_1lox-21Puro-20: 0.35, iPS_cells:PDB_1lox-21Puro-26: 0.35, iPS_cells:PDB_2lox-22: 0.35, iPS_cells:PDB_1lox-17Puro-10: 0.35, iPS_cells:PDB_2lox-17: 0.35, iPS_cells:PDB_2lox-21: 0.35, Embryonic_stem_cells: 0.34, iPS_cells:PDB_1lox-17Puro-5: 0.34
T162_GGATCTAAGCAACAGC-1 Neurons:adrenal_medulla_cell_line 0.19 172.20
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.38, Neuroepithelial_cell:ESC-derived: 0.34, Astrocyte:Embryonic_stem_cell-derived: 0.32, iPS_cells:PDB_1lox-21Puro-20: 0.32, iPS_cells:PDB_1lox-17Puro-10: 0.32, iPS_cells:PDB_1lox-21Puro-26: 0.32, iPS_cells:PDB_1lox-17Puro-5: 0.32, iPS_cells:PDB_2lox-22: 0.31, iPS_cells:PDB_2lox-17: 0.31, iPS_cells:PDB_2lox-21: 0.31
T162_ATGAGTCAGCAGCCTC-1 Neurons:adrenal_medulla_cell_line 0.11 172.05
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.29, Neuroepithelial_cell:ESC-derived: 0.25, Astrocyte:Embryonic_stem_cell-derived: 0.25, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.25, Embryonic_stem_cells: 0.24, iPS_cells:PDB_1lox-17Puro-5: 0.24, iPS_cells:PDB_2lox-22: 0.24, iPS_cells:PDB_1lox-21Puro-20: 0.24, iPS_cells:PDB_1lox-21Puro-26: 0.24, iPS_cells:PDB_2lox-17: 0.24
T162_ACGTACATCGAACCTA-1 Neurons:adrenal_medulla_cell_line 0.17 171.55
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.36, Neuroepithelial_cell:ESC-derived: 0.33, Astrocyte:Embryonic_stem_cell-derived: 0.31, Neurons:ES_cell-derived_neural_precursor: 0.29, iPS_cells:PDB_2lox-22: 0.29, iPS_cells:PDB_1lox-21Puro-20: 0.29, iPS_cells:PDB_1lox-17Puro-10: 0.29, Embryonic_stem_cells: 0.28, iPS_cells:PDB_1lox-21Puro-26: 0.28, iPS_cells:PDB_2lox-21: 0.28
T162_TCGGGACTCGCACGGT-1 Macrophage:monocyte-derived:M-CSF 0.07 171.39
Raw ScoresDC:monocyte-derived:AEC-conditioned: 0.34, Macrophage:monocyte-derived: 0.34, Macrophage:monocyte-derived:IL-4/Dex/TGFb: 0.33, Macrophage:monocyte-derived:IL-4/Dex/cntrl: 0.33, Macrophage:monocyte-derived:M-CSF: 0.33, Monocyte:MCSF: 0.33, Macrophage:monocyte-derived:IL-4/cntrl: 0.33, Macrophage:monocyte-derived:IL-4/TGFb: 0.33, DC:monocyte-derived: 0.33, Macrophage:Alveolar: 0.33


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.


Adrenal Premordium (Hanemaaijer)
Marker genes obtained from Supplementary Table SD of Hanemaaijer et al (PMID 33500353). The authors generated single-cell RNA-seq data (sort-seq, 2,229 cells total) from mouse adrenal glads at E13.5, E14.5, E17.5, E18.5, P1 and P5. These were marker genes that matched with a similar dataset generated by Furlan et al (PMID 28684471). This particular set of markers are for the Adrenal Premordium subcluster, which is part of the Cortex cluster.:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.05e-02
Mean rank of genes in gene set: 2091.75
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
NPM1 0.0039338 109 GTEx DepMap Descartes 14.22 2490.43
MIF 0.0036348 124 GTEx DepMap Descartes 5.47 1671.47
TPI1 0.0031444 162 GTEx DepMap Descartes 6.12 1000.67
TK1 -0.0001805 7972 GTEx DepMap Descartes 0.44 66.32


SCPs mouse unique (Olsen)
Selected list of SCP marker genes shown in Fig. 2B of Olsen et al. https://www.biorxiv.org/content/10.1101/2020.05.04.077057v1 - these genes were unique to mouse SCPs as determined by the linearge tracing study Furlan et al. (Science 2017, PMID 28684471).:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.63e-02
Mean rank of genes in gene set: 2403
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
H1FX 0.0037761 117 GTEx DepMap Descartes 7.71 NA
CRABP1 0.0018089 404 GTEx DepMap Descartes 0.26 111.13
SCRG1 0.0002395 3326 GTEx DepMap Descartes 0.06 2.47
POSTN -0.0000385 5765 GTEx DepMap Descartes 0.02 2.12


Bridge region SCP-adrenergic transition (Olsen)
As above but for cells in the mesenchymal transitioning to SCP-adrenergic region:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.21e-02
Mean rank of genes in gene set: 2631.75
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
SRP14 0.0029926 177 GTEx DepMap Descartes 8.68 2295.33
HMGB1 0.0015976 488 GTEx DepMap Descartes 16.57 836.45
PCBP2 0.0000831 4450 GTEx DepMap Descartes 3.66 294.33
MDK -0.0000134 5412 GTEx DepMap Descartes 7.51 1585.19




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: 9.54e-01
Mean rank of genes in gene set: 6619.45
Median rank of genes in gene set: 7005
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
DACH1 0.0173399 6 GTEx DepMap Descartes 1.00 78.52
HES6 0.0130626 12 GTEx DepMap Descartes 1.78 502.20
DLK1 0.0105537 20 GTEx DepMap Descartes 3.96 286.85
NNAT 0.0069634 43 GTEx DepMap Descartes 3.03 975.43
PRSS12 0.0051667 72 GTEx DepMap Descartes 0.43 31.56
TAGLN3 0.0049061 77 GTEx DepMap Descartes 2.53 558.62
CKB 0.0043565 85 GTEx DepMap Descartes 8.25 1823.05
SYT1 0.0040933 102 GTEx DepMap Descartes 3.27 217.65
POPDC3 0.0038657 112 GTEx DepMap Descartes 0.32 49.83
H1FX 0.0037761 117 GTEx DepMap Descartes 7.71 NA
VRK1 0.0036917 122 GTEx DepMap Descartes 0.55 116.03
RANBP1 0.0032701 148 GTEx DepMap Descartes 5.52 743.99
RFC4 0.0032075 154 GTEx DepMap Descartes 0.81 195.36
MAP1B 0.0029991 176 GTEx DepMap Descartes 10.40 270.92
ANP32A 0.0029773 178 GTEx DepMap Descartes 1.75 140.19
OLFM1 0.0027086 210 GTEx DepMap Descartes 0.61 63.99
CEP44 0.0026543 214 GTEx DepMap Descartes 0.60 44.52
DCX 0.0024295 252 GTEx DepMap Descartes 2.48 70.26
AGTPBP1 0.0024071 258 GTEx DepMap Descartes 0.41 35.98
HMGA1 0.0021470 308 GTEx DepMap Descartes 2.08 285.97
MAP6 0.0021304 311 GTEx DepMap Descartes 0.70 49.43
NEFM 0.0020750 324 GTEx DepMap Descartes 2.26 200.05
NET1 0.0019675 349 GTEx DepMap Descartes 0.31 24.95
NCS1 0.0019537 355 GTEx DepMap Descartes 0.78 43.83
TBPL1 0.0017703 415 GTEx DepMap Descartes 0.65 56.42
UBE2T 0.0017661 417 GTEx DepMap Descartes 2.03 383.23
GAP43 0.0017559 419 GTEx DepMap Descartes 2.36 355.52
MCM2 0.0016435 468 GTEx DepMap Descartes 0.39 33.10
TTC8 0.0016365 471 GTEx DepMap Descartes 0.26 16.44
SYT4 0.0014982 529 GTEx DepMap Descartes 0.40 29.13


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: 1.00e+00
Mean rank of genes in gene set: 7135.85
Median rank of genes in gene set: 7821
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SIX1 0.0250132 2 GTEx DepMap Descartes 0.65 66.49
CYP26A1 0.0216206 3 GTEx DepMap Descartes 0.56 105.51
ROBO1 0.0071305 41 GTEx DepMap Descartes 0.51 24.25
FZD7 0.0068924 45 GTEx DepMap Descartes 0.22 19.51
ADAMTS5 0.0058066 58 GTEx DepMap Descartes 0.11 5.02
APP 0.0043473 87 GTEx DepMap Descartes 1.47 137.35
PDLIM1 0.0040132 106 GTEx DepMap Descartes 0.29 75.87
CTNNA1 0.0039596 107 GTEx DepMap Descartes 0.60 59.84
SSR3 0.0036014 126 GTEx DepMap Descartes 1.10 102.55
GAS2 0.0031737 160 GTEx DepMap Descartes 0.04 7.49
SIX4 0.0026758 213 GTEx DepMap Descartes 0.04 3.52
DUSP14 0.0025251 239 GTEx DepMap Descartes 0.15 35.06
NR3C1 0.0024265 253 GTEx DepMap Descartes 0.27 15.98
PHLDB2 0.0023303 274 GTEx DepMap Descartes 0.06 3.08
PRDX4 0.0020386 331 GTEx DepMap Descartes 1.90 511.79
ATP1B1 0.0018857 373 GTEx DepMap Descartes 1.24 141.67
F2R 0.0018796 376 GTEx DepMap Descartes 0.28 22.72
MANF 0.0018657 383 GTEx DepMap Descartes 1.00 211.75
PTPRG 0.0018434 396 GTEx DepMap Descartes 0.15 6.71
WIPI1 0.0017718 414 GTEx DepMap Descartes 0.05 8.76
PLOD2 0.0016960 445 GTEx DepMap Descartes 0.09 9.74
TSC22D2 0.0016707 454 GTEx DepMap Descartes 0.23 6.47
GPC6 0.0015750 497 GTEx DepMap Descartes 0.09 4.40
RAP1B 0.0015735 498 GTEx DepMap Descartes 0.73 17.07
CKAP4 0.0013593 637 GTEx DepMap Descartes 0.56 55.71
TUBB6 0.0013293 654 GTEx DepMap Descartes 0.11 17.52
POLR2L 0.0013233 657 GTEx DepMap Descartes 1.55 553.28
OSTC 0.0012847 688 GTEx DepMap Descartes 1.26 345.51
SERPINE2 0.0012695 698 GTEx DepMap Descartes 0.47 32.45
ID1 0.0012278 731 GTEx DepMap Descartes 0.28 83.35


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: 9.47e-01
Mean rank of genes in gene set: 7250.39
Median rank of genes in gene set: 7595
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
FDX1 0.0012605 705 GTEx DepMap Descartes 0.51 46.72
FDPS 0.0008957 1129 GTEx DepMap Descartes 1.19 179.30
CYB5B 0.0008726 1163 GTEx DepMap Descartes 0.33 27.47
MSMO1 0.0005092 2020 GTEx DepMap Descartes 0.22 28.28
DHCR7 0.0004308 2320 GTEx DepMap Descartes 0.09 12.76
ERN1 0.0001260 4080 GTEx DepMap Descartes 0.04 1.81
SLC16A9 0.0000968 4332 GTEx DepMap Descartes 0.08 4.01
JAKMIP2 0.0000340 4873 GTEx DepMap Descartes 0.34 11.68
FDXR 0.0000194 5039 GTEx DepMap Descartes 0.18 21.44
TM7SF2 -0.0000098 5365 GTEx DepMap Descartes 0.33 43.69
SCARB1 -0.0000169 5465 GTEx DepMap Descartes 0.07 3.64
SCAP -0.0000558 6014 GTEx DepMap Descartes 0.19 12.89
NPC1 -0.0000833 6443 GTEx DepMap Descartes 0.03 1.58
FREM2 -0.0000945 6615 GTEx DepMap Descartes 0.00 0.00
PEG3 -0.0001056 6795 GTEx DepMap Descartes 0.18 NA
HMGCS1 -0.0001349 7264 GTEx DepMap Descartes 0.15 8.60
PAPSS2 -0.0001391 7323 GTEx DepMap Descartes 0.01 1.40
LDLR -0.0001496 7479 GTEx DepMap Descartes 0.04 2.46
STAR -0.0001637 7711 GTEx DepMap Descartes 0.00 0.18
DHCR24 -0.0001763 7880 GTEx DepMap Descartes 0.05 1.91
PDE10A -0.0001879 8067 GTEx DepMap Descartes 0.07 2.09
HMGCR -0.0001949 8171 GTEx DepMap Descartes 0.20 12.82
SGCZ -0.0001961 8189 GTEx DepMap Descartes 0.01 0.16
FRMD5 -0.0002297 8642 GTEx DepMap Descartes 0.02 1.16
GSTA4 -0.0002597 9007 GTEx DepMap Descartes 0.78 120.17
BAIAP2L1 -0.0002665 9103 GTEx DepMap Descartes 0.00 0.00
INHA -0.0002699 9131 GTEx DepMap Descartes 0.00 0.00
GRAMD1B -0.0002841 9297 GTEx DepMap Descartes 0.04 1.15
SH3PXD2B -0.0003360 9847 GTEx DepMap Descartes 0.03 1.10
APOC1 -0.0003513 9965 GTEx DepMap Descartes 2.13 607.45


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: 9.13e-01
Mean rank of genes in gene set: 7042.46
Median rank of genes in gene set: 8749
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
RYR2 0.0037008 121 GTEx DepMap Descartes 0.21 4.94
BASP1 0.0036703 123 GTEx DepMap Descartes 11.86 2029.65
MAB21L2 0.0035598 134 GTEx DepMap Descartes 0.68 84.53
KCNB2 0.0033630 144 GTEx DepMap Descartes 0.20 22.37
MAP1B 0.0029991 176 GTEx DepMap Descartes 10.40 270.92
TUBA1A 0.0029652 179 GTEx DepMap Descartes 31.25 5294.46
GAP43 0.0017559 419 GTEx DepMap Descartes 2.36 355.52
ANKFN1 0.0012915 681 GTEx DepMap Descartes 0.05 3.72
MLLT11 0.0010498 914 GTEx DepMap Descartes 5.11 582.81
HS3ST5 0.0009732 1008 GTEx DepMap Descartes 0.05 5.01
ELAVL2 0.0009413 1048 GTEx DepMap Descartes 0.58 45.43
EYA1 0.0009218 1079 GTEx DepMap Descartes 0.12 10.92
TUBB2B 0.0003923 2495 GTEx DepMap Descartes 13.15 2164.28
SYNPO2 0.0003847 2527 GTEx DepMap Descartes 0.26 4.26
EPHA6 0.0002771 3080 GTEx DepMap Descartes 0.02 2.55
GAL 0.0001968 3572 GTEx DepMap Descartes 1.92 666.41
RBFOX1 0.0001255 4088 GTEx DepMap Descartes 0.18 10.79
TUBB2A 0.0000542 4701 GTEx DepMap Descartes 2.06 352.77
SLC44A5 -0.0001242 7092 GTEx DepMap Descartes 0.06 3.53
CNKSR2 -0.0001662 7744 GTEx DepMap Descartes 0.09 2.74
CCND1 -0.0002376 8749 GTEx DepMap Descartes 7.20 474.38
GREM1 -0.0004312 10575 GTEx DepMap Descartes 0.02 0.70
STMN2 -0.0004712 10867 GTEx DepMap Descartes 16.16 2219.68
RPH3A -0.0005560 11297 GTEx DepMap Descartes 0.09 3.83
REEP1 -0.0006160 11516 GTEx DepMap Descartes 0.23 12.07
IL7 -0.0006556 11639 GTEx DepMap Descartes 0.01 1.02
PTCHD1 -0.0006632 11664 GTEx DepMap Descartes 0.03 0.76
RGMB -0.0006679 11681 GTEx DepMap Descartes 0.22 11.11
NTRK1 -0.0006689 11687 GTEx DepMap Descartes 0.08 9.66
PLXNA4 -0.0008055 11982 GTEx DepMap Descartes 0.06 0.95


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: 9.14e-01
Mean rank of genes in gene set: 7074.63
Median rank of genes in gene set: 6906.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
CDH13 0.0041373 99 GTEx DepMap Descartes 0.12 6.51
CLDN5 0.0018592 387 GTEx DepMap Descartes 0.22 37.28
ID1 0.0012278 731 GTEx DepMap Descartes 0.28 83.35
CALCRL 0.0005317 1943 GTEx DepMap Descartes 0.01 1.36
RASIP1 0.0003634 2641 GTEx DepMap Descartes 0.02 2.05
NPR1 0.0003041 2935 GTEx DepMap Descartes 0.01 0.55
CRHBP -0.0000237 5558 GTEx DepMap Descartes 0.00 0.37
NOTCH4 -0.0000438 5850 GTEx DepMap Descartes 0.10 3.32
CDH5 -0.0000440 5854 GTEx DepMap Descartes 0.00 0.00
F8 -0.0000601 6083 GTEx DepMap Descartes 0.00 0.00
KANK3 -0.0000623 6117 GTEx DepMap Descartes 0.00 0.35
SHANK3 -0.0000780 6355 GTEx DepMap Descartes 0.01 0.43
FLT4 -0.0000790 6369 GTEx DepMap Descartes 0.00 0.00
ESM1 -0.0000828 6429 GTEx DepMap Descartes 0.00 0.00
SLCO2A1 -0.0000994 6692 GTEx DepMap Descartes 0.00 0.00
GALNT15 -0.0001002 6711 GTEx DepMap Descartes 0.00 NA
TIE1 -0.0001054 6789 GTEx DepMap Descartes 0.00 0.00
ROBO4 -0.0001058 6801 GTEx DepMap Descartes 0.00 0.13
KDR -0.0001061 6808 GTEx DepMap Descartes 0.00 0.10
MYRIP -0.0001181 7005 GTEx DepMap Descartes 0.02 1.35
SHE -0.0001306 7207 GTEx DepMap Descartes 0.00 0.00
MMRN2 -0.0001351 7267 GTEx DepMap Descartes 0.00 0.00
CEACAM1 -0.0001522 7513 GTEx DepMap Descartes 0.00 0.00
BTNL9 -0.0001585 7623 GTEx DepMap Descartes 0.00 0.00
PLVAP -0.0001685 7775 GTEx DepMap Descartes 0.00 0.00
NR5A2 -0.0001777 7915 GTEx DepMap Descartes 0.00 0.00
PODXL -0.0001941 8158 GTEx DepMap Descartes 0.03 0.74
HYAL2 -0.0002194 8518 GTEx DepMap Descartes 0.43 32.95
TEK -0.0002321 8673 GTEx DepMap Descartes 0.00 0.00
EHD3 -0.0002637 9075 GTEx DepMap Descartes 0.01 0.60


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: 9.74e-01
Mean rank of genes in gene set: 7334.09
Median rank of genes in gene set: 7935.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GAS2 0.0031737 160 GTEx DepMap Descartes 0.04 7.49
LOX 0.0016144 479 GTEx DepMap Descartes 0.05 4.91
HHIP 0.0012991 670 GTEx DepMap Descartes 0.41 13.30
ABCC9 0.0008453 1220 GTEx DepMap Descartes 0.01 0.82
SFRP2 0.0000977 4327 GTEx DepMap Descartes 0.00 0.00
PCDH18 0.0000926 4365 GTEx DepMap Descartes 0.01 0.40
FREM1 0.0000786 4490 GTEx DepMap Descartes 0.00 0.04
ITGA11 0.0000286 4940 GTEx DepMap Descartes 0.00 0.13
POSTN -0.0000385 5765 GTEx DepMap Descartes 0.02 2.12
RSPO3 -0.0000486 5923 GTEx DepMap Descartes 0.00 NA
COL6A3 -0.0000578 6049 GTEx DepMap Descartes 0.02 0.42
GLI2 -0.0000633 6139 GTEx DepMap Descartes 0.00 0.20
BICC1 -0.0000710 6246 GTEx DepMap Descartes 0.01 0.87
CCDC80 -0.0000856 6479 GTEx DepMap Descartes 0.02 0.60
SCARA5 -0.0001094 6862 GTEx DepMap Descartes 0.00 0.00
ADAMTSL3 -0.0001099 6870 GTEx DepMap Descartes 0.00 0.02
CLDN11 -0.0001159 6973 GTEx DepMap Descartes 0.02 0.43
CD248 -0.0001471 7443 GTEx DepMap Descartes 0.02 1.27
PAMR1 -0.0001518 7509 GTEx DepMap Descartes 0.00 0.00
ACTA2 -0.0001632 7700 GTEx DepMap Descartes 0.07 11.61
OGN -0.0001693 7785 GTEx DepMap Descartes 0.00 0.00
DCN -0.0001782 7925 GTEx DepMap Descartes 0.00 0.09
EDNRA -0.0001791 7946 GTEx DepMap Descartes 0.00 0.04
IGFBP3 -0.0001794 7951 GTEx DepMap Descartes 0.00 0.00
ABCA6 -0.0001803 7968 GTEx DepMap Descartes 0.00 0.11
LUM -0.0001829 8007 GTEx DepMap Descartes 0.02 1.39
COL27A1 -0.0001848 8032 GTEx DepMap Descartes 0.00 0.06
LAMC3 -0.0001891 8080 GTEx DepMap Descartes 0.00 0.00
MGP -0.0001922 8139 GTEx DepMap Descartes 0.04 1.43
DKK2 -0.0001947 8166 GTEx DepMap Descartes 0.00 0.25


Descartes sympathoblasts markers
Top 50 marker genes of sympathoblasts cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/sympathoblasts/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 9.95e-01
Mean rank of genes in gene set: 7779.55
Median rank of genes in gene set: 8155
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ST18 0.0114264 17 GTEx DepMap Descartes 0.14 9.51
ROBO1 0.0071305 41 GTEx DepMap Descartes 0.51 24.25
CCSER1 0.0018774 379 GTEx DepMap Descartes 0.09 NA
GCH1 0.0006865 1518 GTEx DepMap Descartes 0.12 12.15
HTATSF1 0.0005071 2031 GTEx DepMap Descartes 0.78 73.56
ARC 0.0004578 2215 GTEx DepMap Descartes 0.86 97.46
SLC24A2 0.0003256 2813 GTEx DepMap Descartes 0.01 0.25
CNTN3 0.0000722 4544 GTEx DepMap Descartes 0.00 0.07
PENK 0.0000392 4832 GTEx DepMap Descartes 0.00 0.79
SLC35F3 0.0000267 4957 GTEx DepMap Descartes 0.01 0.23
CDH12 -0.0000517 5962 GTEx DepMap Descartes 0.05 3.02
TENM1 -0.0000566 6027 GTEx DepMap Descartes 0.01 NA
CHGA -0.0000619 6109 GTEx DepMap Descartes 1.29 197.45
AGBL4 -0.0000864 6493 GTEx DepMap Descartes 0.02 0.48
GALNTL6 -0.0001140 6944 GTEx DepMap Descartes 0.03 3.86
GRM7 -0.0001285 7166 GTEx DepMap Descartes 0.00 0.08
TIAM1 -0.0001532 7534 GTEx DepMap Descartes 0.16 6.13
PCSK2 -0.0001764 7881 GTEx DepMap Descartes 0.00 0.13
KSR2 -0.0001885 8074 GTEx DepMap Descartes 0.05 0.66
SPOCK3 -0.0001996 8236 GTEx DepMap Descartes 0.02 1.16
EML6 -0.0002009 8260 GTEx DepMap Descartes 0.01 0.26
LAMA3 -0.0002301 8650 GTEx DepMap Descartes 0.00 0.00
CDH18 -0.0002335 8695 GTEx DepMap Descartes 0.00 0.12
TBX20 -0.0003121 9599 GTEx DepMap Descartes 0.00 0.00
SORCS3 -0.0004540 10760 GTEx DepMap Descartes 0.08 3.96
DGKK -0.0005585 11309 GTEx DepMap Descartes 0.04 1.21
SLC18A1 -0.0005834 11400 GTEx DepMap Descartes 0.00 0.24
MGAT4C -0.0005902 11428 GTEx DepMap Descartes 0.04 0.26
FAM155A -0.0006968 11744 GTEx DepMap Descartes 0.24 6.29
CHGB -0.0007866 11948 GTEx DepMap Descartes 0.85 99.03


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: 9.77e-01
Mean rank of genes in gene set: 7615.1
Median rank of genes in gene set: 6954
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SLC25A37 0.0002633 3163 GTEx DepMap Descartes 0.29 17.73
ANK1 0.0001999 3555 GTEx DepMap Descartes 0.04 1.58
BLVRB 0.0001646 3774 GTEx DepMap Descartes 0.27 53.27
SLC25A21 0.0001639 3780 GTEx DepMap Descartes 0.00 0.00
CPOX 0.0000396 4829 GTEx DepMap Descartes 0.05 6.15
XPO7 0.0000113 5134 GTEx DepMap Descartes 0.15 9.13
RGS6 0.0000049 5195 GTEx DepMap Descartes 0.00 0.00
FECH -0.0000018 5274 GTEx DepMap Descartes 0.07 2.67
SNCA -0.0000060 5326 GTEx DepMap Descartes 0.20 12.08
RHD -0.0000660 6181 GTEx DepMap Descartes 0.00 0.00
TMCC2 -0.0000764 6324 GTEx DepMap Descartes 0.02 1.15
SLC4A1 -0.0000771 6342 GTEx DepMap Descartes 0.00 0.00
ALAS2 -0.0000923 6582 GTEx DepMap Descartes 0.00 0.00
TRAK2 -0.0000993 6689 GTEx DepMap Descartes 0.09 3.74
SELENBP1 -0.0001145 6954 GTEx DepMap Descartes 0.00 0.00
ABCB10 -0.0001198 7029 GTEx DepMap Descartes 0.02 1.21
MARCH3 -0.0001776 7913 GTEx DepMap Descartes 0.05 NA
GCLC -0.0001849 8035 GTEx DepMap Descartes 0.07 5.22
DENND4A -0.0001970 8208 GTEx DepMap Descartes 0.14 5.15
MICAL2 -0.0002459 8858 GTEx DepMap Descartes 0.01 0.69
TFR2 -0.0002832 9289 GTEx DepMap Descartes 0.06 5.32
SPTB -0.0004673 10836 GTEx DepMap Descartes 0.04 0.55
SPECC1 -0.0005231 11163 GTEx DepMap Descartes 0.06 2.36
SOX6 -0.0005395 11230 GTEx DepMap Descartes 0.01 0.12
EPB41 -0.0005697 11358 GTEx DepMap Descartes 0.24 11.36
GYPC -0.0006103 11495 GTEx DepMap Descartes 0.05 3.57
CAT -0.0007624 11909 GTEx DepMap Descartes 0.13 13.46
RAPGEF2 -0.0008578 12068 GTEx DepMap Descartes 0.17 5.31
TSPAN5 -0.0011589 12345 GTEx DepMap Descartes 0.28 15.85
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: 9.96e-01
Mean rank of genes in gene set: 7844.34
Median rank of genes in gene set: 8927
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
RBPJ 0.0010417 925 GTEx DepMap Descartes 0.97 45.98
MARCH1 0.0010334 937 GTEx DepMap Descartes 0.09 NA
CTSC 0.0009453 1044 GTEx DepMap Descartes 0.41 28.41
CD163L1 0.0008638 1183 GTEx DepMap Descartes 0.15 13.48
SFMBT2 0.0004747 2146 GTEx DepMap Descartes 0.06 2.14
HCK 0.0000545 4700 GTEx DepMap Descartes 0.01 1.21
FMN1 0.0000287 4939 GTEx DepMap Descartes 0.07 0.66
ATP8B4 -0.0000345 5704 GTEx DepMap Descartes 0.00 0.00
FGD2 -0.0000841 6454 GTEx DepMap Descartes 0.01 0.27
MERTK -0.0001027 6746 GTEx DepMap Descartes 0.02 1.11
AXL -0.0001033 6761 GTEx DepMap Descartes 0.03 1.18
ITPR2 -0.0001313 7216 GTEx DepMap Descartes 0.20 4.69
IFNGR1 -0.0001361 7284 GTEx DepMap Descartes 0.18 21.26
CST3 -0.0001494 7474 GTEx DepMap Descartes 1.77 145.96
LGMN -0.0001618 7678 GTEx DepMap Descartes 0.34 32.93
SLC1A3 -0.0001809 7974 GTEx DepMap Descartes 0.00 0.15
CPVL -0.0001986 8226 GTEx DepMap Descartes 0.04 4.59
HRH1 -0.0002244 8579 GTEx DepMap Descartes 0.00 0.08
SPP1 -0.0002345 8718 GTEx DepMap Descartes 13.63 1642.60
FGL2 -0.0002704 9136 GTEx DepMap Descartes 0.02 1.21
MSR1 -0.0002718 9149 GTEx DepMap Descartes 0.05 2.27
PTPRE -0.0002799 9253 GTEx DepMap Descartes 0.03 0.91
CD163 -0.0002980 9453 GTEx DepMap Descartes 0.07 2.15
MS4A4A -0.0003223 9708 GTEx DepMap Descartes 0.07 6.81
CYBB -0.0003537 9985 GTEx DepMap Descartes 0.01 0.23
SLC9A9 -0.0003585 10024 GTEx DepMap Descartes 0.00 0.00
SLCO2B1 -0.0003603 10045 GTEx DepMap Descartes 0.02 0.52
RGL1 -0.0003686 10132 GTEx DepMap Descartes 0.03 1.33
CD14 -0.0003790 10210 GTEx DepMap Descartes 0.36 41.61
CSF1R -0.0004032 10382 GTEx DepMap Descartes 0.02 0.81


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: 9.94e-01
Mean rank of genes in gene set: 7655.93
Median rank of genes in gene set: 8205
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ADAMTS5 0.0058066 58 GTEx DepMap Descartes 0.11 5.02
EGFLAM 0.0055140 64 GTEx DepMap Descartes 0.21 19.54
FIGN 0.0031978 155 GTEx DepMap Descartes 0.34 10.83
MARCKS 0.0012066 759 GTEx DepMap Descartes 7.18 468.80
XKR4 0.0006367 1647 GTEx DepMap Descartes 0.02 0.19
HMGA2 0.0004806 2129 GTEx DepMap Descartes 0.00 0.13
NRXN3 0.0004466 2258 GTEx DepMap Descartes 0.02 0.58
LRRTM4 0.0003673 2624 GTEx DepMap Descartes 0.02 3.26
SLC35F1 0.0002665 3140 GTEx DepMap Descartes 0.08 3.37
PTPRZ1 0.0001093 4228 GTEx DepMap Descartes 0.00 0.00
KCTD12 0.0000655 4607 GTEx DepMap Descartes 0.07 3.26
SFRP1 0.0000306 4918 GTEx DepMap Descartes 0.22 18.00
IL1RAPL2 -0.0000093 5361 GTEx DepMap Descartes 0.00 0.00
ERBB3 -0.0000215 5518 GTEx DepMap Descartes 0.00 0.00
OLFML2A -0.0000425 5824 GTEx DepMap Descartes 0.00 0.03
PLP1 -0.0000665 6187 GTEx DepMap Descartes 0.01 0.75
MDGA2 -0.0000801 6384 GTEx DepMap Descartes 0.00 0.00
GRIK3 -0.0001090 6850 GTEx DepMap Descartes 0.00 0.25
MPZ -0.0001368 7295 GTEx DepMap Descartes 0.00 0.23
EDNRB -0.0001538 7543 GTEx DepMap Descartes 0.01 0.19
TRPM3 -0.0001594 7637 GTEx DepMap Descartes 0.00 0.00
COL18A1 -0.0001846 8031 GTEx DepMap Descartes 0.03 0.62
SORCS1 -0.0002093 8379 GTEx DepMap Descartes 0.03 0.79
COL5A2 -0.0002209 8536 GTEx DepMap Descartes 0.04 0.86
STARD13 -0.0002485 8886 GTEx DepMap Descartes 0.01 0.20
COL25A1 -0.0003144 9625 GTEx DepMap Descartes 0.02 0.50
LAMC1 -0.0003438 9903 GTEx DepMap Descartes 0.03 1.06
NRXN1 -0.0003470 9929 GTEx DepMap Descartes 0.85 22.75
GAS7 -0.0003778 10200 GTEx DepMap Descartes 0.00 0.03
IL1RAPL1 -0.0004573 10777 GTEx DepMap Descartes 0.00 0.07


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: 9.85e-01
Mean rank of genes in gene set: 7445.11
Median rank of genes in gene set: 8359
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TMSB4X 0.0024224 254 GTEx DepMap Descartes 31.22 6610.58
RAP1B 0.0015735 498 GTEx DepMap Descartes 0.73 17.07
MED12L 0.0007457 1407 GTEx DepMap Descartes 0.04 1.12
TPM4 0.0006499 1618 GTEx DepMap Descartes 1.27 78.14
LIMS1 0.0004342 2302 GTEx DepMap Descartes 0.50 33.26
PSTPIP2 0.0003492 2711 GTEx DepMap Descartes 0.02 2.49
ANGPT1 0.0003077 2916 GTEx DepMap Descartes 0.03 1.20
SLC24A3 0.0001543 3850 GTEx DepMap Descartes 0.01 0.68
CD9 0.0000931 4362 GTEx DepMap Descartes 0.44 89.41
VCL 0.0000731 4534 GTEx DepMap Descartes 0.12 5.08
ITGB3 0.0000570 4682 GTEx DepMap Descartes 0.00 0.00
ITGA2B 0.0000293 4934 GTEx DepMap Descartes 0.03 2.63
FLNA 0.0000243 4978 GTEx DepMap Descartes 0.23 8.29
STON2 -0.0000082 5348 GTEx DepMap Descartes 0.04 2.61
ARHGAP6 -0.0000250 5582 GTEx DepMap Descartes 0.00 0.00
P2RX1 -0.0000806 6392 GTEx DepMap Descartes 0.00 0.00
MMRN1 -0.0000905 6553 GTEx DepMap Descartes 0.00 0.00
TUBB1 -0.0000998 6701 GTEx DepMap Descartes 0.00 0.00
RAB27B -0.0000999 6706 GTEx DepMap Descartes 0.02 0.40
GP1BA -0.0001043 6773 GTEx DepMap Descartes 0.00 0.07
LTBP1 -0.0001071 6822 GTEx DepMap Descartes 0.02 0.62
STOM -0.0001254 7112 GTEx DepMap Descartes 0.08 6.56
UBASH3B -0.0002075 8359 GTEx DepMap Descartes 0.03 0.77
THBS1 -0.0002269 8614 GTEx DepMap Descartes 0.00 0.17
PLEK -0.0002299 8646 GTEx DepMap Descartes 0.09 6.34
TRPC6 -0.0002312 8666 GTEx DepMap Descartes 0.00 0.04
GSN -0.0002446 8845 GTEx DepMap Descartes 0.04 1.58
FLI1 -0.0002455 8853 GTEx DepMap Descartes 0.01 0.42
MCTP1 -0.0002812 9267 GTEx DepMap Descartes 0.00 0.07
MYLK -0.0002927 9402 GTEx DepMap Descartes 0.02 0.15


Descartes Lyphoid markers
Top 50 marker genes of Lyphoid cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/lymphoid/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.00e+00
Mean rank of genes in gene set: 9878.05
Median rank of genes in gene set: 10749.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TMSB10 0.0017544 421 GTEx DepMap Descartes 46.91 28707.38
FYN 0.0006656 1571 GTEx DepMap Descartes 0.91 74.29
NCALD 0.0005440 1909 GTEx DepMap Descartes 0.06 2.74
MBNL1 0.0000954 4345 GTEx DepMap Descartes 0.18 7.16
CCND3 0.0000850 4429 GTEx DepMap Descartes 0.15 17.10
PDE3B -0.0002096 8384 GTEx DepMap Descartes 0.10 4.04
SAMD3 -0.0002271 8616 GTEx DepMap Descartes 0.00 0.00
ITPKB -0.0002360 8737 GTEx DepMap Descartes 0.00 0.25
CCL5 -0.0002460 8862 GTEx DepMap Descartes 0.04 11.46
ANKRD44 -0.0002554 8966 GTEx DepMap Descartes 0.08 2.61
SKAP1 -0.0002788 9237 GTEx DepMap Descartes 0.01 3.23
RCSD1 -0.0003234 9720 GTEx DepMap Descartes 0.00 0.10
ARHGAP15 -0.0003254 9743 GTEx DepMap Descartes 0.00 0.20
PRKCH -0.0003269 9758 GTEx DepMap Descartes 0.01 0.37
MCTP2 -0.0003358 9842 GTEx DepMap Descartes 0.01 0.18
PLEKHA2 -0.0003553 9999 GTEx DepMap Descartes 0.02 0.59
IKZF1 -0.0003844 10246 GTEx DepMap Descartes 0.01 0.64
LEF1 -0.0004214 10501 GTEx DepMap Descartes 0.00 0.00
EVL -0.0004388 10636 GTEx DepMap Descartes 1.65 123.86
SP100 -0.0004453 10688 GTEx DepMap Descartes 0.01 0.31
WIPF1 -0.0004518 10740 GTEx DepMap Descartes 0.03 1.63
DOCK10 -0.0004540 10759 GTEx DepMap Descartes 0.03 0.92
SCML4 -0.0005010 11037 GTEx DepMap Descartes 0.01 0.22
ETS1 -0.0005087 11084 GTEx DepMap Descartes 0.01 0.23
PTPRC -0.0005515 11279 GTEx DepMap Descartes 0.02 0.75
STK39 -0.0005666 11341 GTEx DepMap Descartes 0.14 8.40
GNG2 -0.0005818 11395 GTEx DepMap Descartes 0.44 24.06
LCP1 -0.0006389 11596 GTEx DepMap Descartes 0.04 1.92
ARHGDIB -0.0006695 11690 GTEx DepMap Descartes 0.13 26.38
FOXP1 -0.0006924 11733 GTEx DepMap Descartes 0.55 15.45


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.


ILC precursor: ILC precursor (model markers)
innate lymphoid cell precursors which give rise to innate lymphoid cells and lack the characteristics of their mature progenies:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.01e-02
Mean rank of genes in gene set: 1985
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
HPN 0.0007075 1474 GTEx DepMap Descartes 0.00 0.00
HUNK 0.0005164 1992 GTEx DepMap Descartes 0.11 5.82
PDZK1 0.0003937 2489 GTEx DepMap Descartes 0.00 0.00


HSC/MPP: Early lymphoid/T lymphoid (model markers)
early lymphoid/T lymphocytes with lymphocyte potential in the fetal liver before T cells emerged from the thymus:
Wilcoxon ranksum test P-value for gene set overrepresentation: 4.21e-02
Mean rank of genes in gene set: 17
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
ST18 0.0114264 17 GTEx DepMap Descartes 0.14 9.51


HSC/MPP: Megakaryocyte-erythroid-mast cell progenitor (model markers)
shared progenitors in the fetal liver which originate from common myeloid progenitors and differentiate into megakaryocytes:
Wilcoxon ranksum test P-value for gene set overrepresentation: 4.38e-02
Mean rank of genes in gene set: 85
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
CKB 0.0043565 85 GTEx DepMap Descartes 8.25 1823.05