Program: 13. Erythroblasts.

Program: 13. Erythroblasts.



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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 ALAS2 0.0642696 5’-aminolevulinate synthase 2 GTEx DepMap Descartes 10.13 555.57
2 SELENBP1 0.0274233 selenium binding protein 1 GTEx DepMap Descartes 1.11 34.19
3 SLC25A37 0.0265062 solute carrier family 25 member 37 GTEx DepMap Descartes 6.62 151.57
4 KLC3 0.0242573 kinesin light chain 3 GTEx DepMap Descartes 0.11 4.68
5 SLC4A1 0.0203923 solute carrier family 4 member 1 (Diego blood group) GTEx DepMap Descartes 0.57 10.08
6 GMPR 0.0193077 guanosine monophosphate reductase GTEx DepMap Descartes 1.64 117.43
7 NFE2 0.0161206 nuclear factor, erythroid 2 GTEx DepMap Descartes 0.17 7.77
8 MYL4 0.0119982 myosin light chain 4 GTEx DepMap Descartes 0.53 60.55
9 SNCA 0.0119594 synuclein alpha GTEx DepMap Descartes 4.38 137.78
10 STRADB 0.0108294 STE20 related adaptor beta GTEx DepMap Descartes 1.72 76.15
11 TRIM58 0.0089176 tripartite motif containing 58 GTEx DepMap Descartes 0.32 5.83
12 ARG1 0.0083776 arginase 1 GTEx DepMap Descartes 0.04 2.44
13 RHD 0.0081725 Rh blood group D antigen GTEx DepMap Descartes 0.09 3.24
14 SLC14A1 0.0076134 solute carrier family 14 member 1 (Kidd blood group) GTEx DepMap Descartes 0.21 4.48
15 BPGM 0.0075670 bisphosphoglycerate mutase GTEx DepMap Descartes 1.53 69.30
16 SLC25A39 0.0070849 solute carrier family 25 member 39 GTEx DepMap Descartes 4.38 215.33
17 GYPC 0.0066174 glycophorin C (Gerbich blood group) GTEx DepMap Descartes 4.53 296.75
18 SMOX 0.0061870 spermine oxidase GTEx DepMap Descartes 0.49 16.25
19 BLVRB 0.0060679 biliverdin reductase B GTEx DepMap Descartes 2.87 205.16
20 UBB 0.0058407 ubiquitin B GTEx DepMap Descartes 22.26 2314.27
21 ADIPOR1 0.0053585 adiponectin receptor 1 GTEx DepMap Descartes 2.30 127.50
22 MPP1 0.0051541 MAGUK p55 scaffold protein 1 GTEx DepMap Descartes 1.04 40.99
23 RAP1GAP 0.0047549 RAP1 GTPase activating protein GTEx DepMap Descartes 0.26 5.48
24 GFI1B 0.0044495 growth factor independent 1B transcriptional repressor GTEx DepMap Descartes 0.02 0.60
25 YBX3 0.0044226 Y-box binding protein 3 GTEx DepMap Descartes 2.04 NA
26 NCOA4 0.0043054 nuclear receptor coactivator 4 GTEx DepMap Descartes 1.85 51.45
27 NFIX 0.0040876 nuclear factor I X GTEx DepMap Descartes 0.17 2.59
28 BNIP3L 0.0038987 BCL2 interacting protein 3 like GTEx DepMap Descartes 2.77 83.36
29 FKBP8 0.0038749 FKBP prolyl isomerase 8 GTEx DepMap Descartes 4.53 257.63
30 DCAF12 0.0037220 DDB1 and CUL4 associated factor 12 GTEx DepMap Descartes 0.70 20.10
31 FAM178B 0.0037072 family with sequence similarity 178 member B GTEx DepMap Descartes 0.77 15.39
32 FAM210B 0.0032533 family with sequence similarity 210 member B GTEx DepMap Descartes 1.55 61.02
33 MAP2K3 0.0032470 mitogen-activated protein kinase kinase 3 GTEx DepMap Descartes 0.70 31.78
34 SMIM1 0.0031779 small integral membrane protein 1 (Vel blood group) GTEx DepMap Descartes 0.62 NA
35 FBXO7 0.0030217 F-box protein 7 GTEx DepMap Descartes 1.72 23.66
36 SMIM5 0.0026517 small integral membrane protein 5 GTEx DepMap Descartes 0.04 NA
37 DMTN 0.0026395 dematin actin binding protein GTEx DepMap Descartes 0.87 NA
38 PLEK2 0.0025554 pleckstrin 2 GTEx DepMap Descartes 0.09 6.39
39 TMPRSS9 0.0024638 transmembrane serine protease 9 GTEx DepMap Descartes 0.02 0.35
40 CCNDBP1 0.0024631 cyclin D1 binding protein 1 GTEx DepMap Descartes 1.26 38.83
41 R3HDM4 0.0023779 R3H domain containing 4 GTEx DepMap Descartes 0.96 66.45
42 RNF10 0.0022874 ring finger protein 10 GTEx DepMap Descartes 1.43 41.29
43 MKRN1 0.0022791 makorin ring finger protein 1 GTEx DepMap Descartes 1.66 49.13
44 TUBB1 0.0022514 tubulin beta 1 class VI GTEx DepMap Descartes 0.00 0.00
45 RSPO1 0.0021585 R-spondin 1 GTEx DepMap Descartes 0.02 0.63
46 PITHD1 0.0020609 PITH domain containing 1 GTEx DepMap Descartes 0.96 51.64
47 BCL2L1 0.0019883 BCL2 like 1 GTEx DepMap Descartes 0.64 25.40
48 PRODH 0.0018877 proline dehydrogenase 1 GTEx DepMap Descartes 0.02 0.40
49 HPS1 0.0018803 HPS1 biogenesis of lysosomal organelles complex 3 subunit 1 GTEx DepMap Descartes 0.43 11.69
50 GUK1 0.0018549 guanylate kinase 1 GTEx DepMap Descartes 4.64 204.67


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UMAP plots showing activity of gene expression program identified in GEP 13. Erythroblasts:

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
HU_FETAL_RETINA_BLOOD 1.58e-39 81.22 43.79 1.06e-36 1.06e-36
31ALAS2, SELENBP1, SLC25A37, SLC4A1, GMPR, NFE2, MYL4, SNCA, STRADB, BPGM, SLC25A39, GYPC, BLVRB, UBB, ADIPOR1, MPP1, RAP1GAP, GFI1B, YBX3, NCOA4, DCAF12, FAM210B, SMIM1, FBXO7, SMIM5, DMTN, CCNDBP1, TUBB1, BCL2L1, HPS1, GUK1
 282
DESCARTES_FETAL_INTESTINE_ERYTHROBLASTS 2.35e-29 71.01 37.77 7.90e-27 1.58e-26
22ALAS2, SELENBP1, SLC25A37, SLC4A1, GMPR, NFE2, MYL4, SNCA, STRADB, TRIM58, RHD, SLC14A1, BPGM, SLC25A39, BLVRB, GFI1B, DCAF12, FAM210B, SMIM1, DMTN, TUBB1, BCL2L1
 160
DESCARTES_FETAL_KIDNEY_ERYTHROBLASTS 3.59e-27 62.35 32.96 8.03e-25 2.41e-24
21ALAS2, SELENBP1, SLC25A37, KLC3, SLC4A1, NFE2, MYL4, SNCA, TRIM58, ARG1, RHD, SLC14A1, BPGM, SLC25A39, BLVRB, GFI1B, FKBP8, DCAF12, MAP2K3, SMIM1, SMIM5
 166
DESCARTES_FETAL_PANCREAS_ERYTHROBLASTS 1.29e-23 59.95 30.77 2.17e-21 8.68e-21
18ALAS2, SLC25A37, SLC4A1, GMPR, NFE2, MYL4, SNCA, TRIM58, RHD, SLC14A1, BPGM, SLC25A39, BLVRB, GFI1B, DCAF12, MAP2K3, SMIM1, PLEK2
 135
DESCARTES_FETAL_STOMACH_ERYTHROBLASTS 1.77e-20 62.89 30.75 2.38e-18 1.19e-17
15ALAS2, SLC25A37, SLC4A1, NFE2, MYL4, SNCA, STRADB, TRIM58, RHD, SLC14A1, SLC25A39, BLVRB, DCAF12, MAP2K3, TUBB1
 100
DESCARTES_MAIN_FETAL_ERYTHROBLASTS 5.39e-19 31.39 16.34 6.03e-17 3.62e-16
18ALAS2, SELENBP1, SLC25A37, SLC4A1, GMPR, SNCA, TRIM58, RHD, SLC14A1, SLC25A39, GYPC, BLVRB, BNIP3L, DCAF12, FAM178B, MAP2K3, FBXO7, DMTN
 242
DESCARTES_FETAL_ADRENAL_ERYTHROBLASTS 1.78e-11 30.02 13.03 1.49e-09 1.19e-08
10ALAS2, SELENBP1, SLC25A37, SLC4A1, ARG1, RHD, SLC14A1, SLC25A39, BLVRB, FAM178B
 114
DESCARTES_FETAL_MUSCLE_ERYTHROBLASTS 1.78e-09 22.48 9.40 1.19e-07 1.19e-06
9ALAS2, SELENBP1, SLC25A37, SLC4A1, RHD, SLC14A1, BLVRB, FAM210B, DMTN
 131
DESCARTES_FETAL_LIVER_ERYTHROBLASTS 1.19e-05 19.54 5.88 5.31e-04 7.96e-03
5ALAS2, SLC25A37, SLC4A1, RHD, SLC14A1
 76
TRAVAGLINI_LUNG_PLATELET_MEGAKARYOCYTE_CELL 3.44e-11 10.98 5.70 2.56e-09 2.31e-08
17GMPR, NFE2, SNCA, TRIM58, SMOX, ADIPOR1, MPP1, GFI1B, NCOA4, FKBP8, MAP2K3, SMIM5, DMTN, R3HDM4, MKRN1, TUBB1, BCL2L1
 604
DESCARTES_FETAL_LUNG_MEGAKARYOCYTES 3.90e-07 14.09 5.62 2.38e-05 2.62e-04
8GMPR, NFE2, TRIM58, RHD, SMOX, MPP1, GFI1B, TUBB1
 177
HAY_BONE_MARROW_ERYTHROBLAST 1.26e-13 10.06 5.53 1.20e-11 8.43e-11
25ALAS2, SELENBP1, SLC25A37, SLC4A1, MYL4, SNCA, STRADB, RHD, SLC25A39, GYPC, BLVRB, MPP1, GFI1B, YBX3, NFIX, FAM178B, FAM210B, MAP2K3, SMIM1, FBXO7, DMTN, PLEK2, TMPRSS9, PITHD1, HPS1
 1269
DESCARTES_FETAL_HEART_MEGAKARYOCYTES 4.85e-06 16.07 5.48 2.32e-04 3.25e-03
6NFE2, TRIM58, RHD, MPP1, GFI1B, TUBB1
 112
HAY_BONE_MARROW_PLATELET 8.93e-07 10.43 4.41 4.99e-05 5.99e-04
9GMPR, NFE2, TRIM58, SMOX, NCOA4, SMIM5, R3HDM4, TUBB1, BCL2L1
 272
DESCARTES_FETAL_CEREBRUM_MEGAKARYOCYTES 4.06e-06 7.53 3.34 2.10e-04 2.73e-03
10GMPR, MYL4, STRADB, TRIM58, RHD, GFI1B, DCAF12, SMIM5, DMTN, TUBB1
 425
DESCARTES_FETAL_SPLEEN_ERYTHROBLASTS 2.25e-03 12.65 2.46 9.43e-02 1.00e+00
3SLC4A1, SLC14A1, FAM178B
 66
ZHENG_CORD_BLOOD_C2_PUTATIVE_BASOPHIL_EOSINOPHIL_MAST_CELL_PROGENITOR 6.42e-03 8.57 1.68 2.39e-01 1.00e+00
3FAM178B, SMIM1, FBXO7
 96
ZHENG_CORD_BLOOD_C1_PUTATIVE_MEGAKARYOCYTE_PROGENITOR 6.79e-03 8.40 1.64 2.40e-01 1.00e+00
3GFI1B, DMTN, TUBB1
 98
ZHENG_CORD_BLOOD_C3_MEGAKARYOCYTE_ERYTHROID_PROGENITOR 7.18e-03 8.22 1.61 2.41e-01 1.00e+00
3BLVRB, FAM178B, FBXO7
 100
TRAVAGLINI_LUNG_CAPILLARY_AEROCYTE_CELL 1.20e-02 13.01 1.48 3.67e-01 1.00e+00
2SLC14A1, UBB
 42

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mSigDB Hallmark Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
HALLMARK_HEME_METABOLISM 3.75e-27 55.14 29.44 1.87e-25 1.87e-25
22ALAS2, SELENBP1, SLC25A37, SLC4A1, NFE2, MYL4, SNCA, TRIM58, RHD, BPGM, GYPC, SMOX, BLVRB, ADIPOR1, MPP1, RAP1GAP, NCOA4, BNIP3L, MAP2K3, FBXO7, DMTN, MKRN1
 200
HALLMARK_XENOBIOTIC_METABOLISM 7.71e-03 5.55 1.44 1.28e-01 3.85e-01
4ARG1, SMOX, BLVRB, RAP1GAP
 200
HALLMARK_KRAS_SIGNALING_UP 7.71e-03 5.55 1.44 1.28e-01 3.85e-01
4ARG1, BPGM, GYPC, PLEK2
 200
HALLMARK_APOPTOSIS 1.32e-01 3.28 0.38 1.00e+00 1.00e+00
2BNIP3L, BCL2L1
 161
HALLMARK_HYPOXIA 1.85e-01 2.63 0.31 1.00e+00 1.00e+00
2SELENBP1, BNIP3L
 200
HALLMARK_INTERFERON_ALPHA_RESPONSE 3.20e-01 2.66 0.07 1.00e+00 1.00e+00
1GMPR
 97
HALLMARK_ANDROGEN_RESPONSE 3.28e-01 2.58 0.06 1.00e+00 1.00e+00
1NCOA4
 100
HALLMARK_PI3K_AKT_MTOR_SIGNALING 3.41e-01 2.45 0.06 1.00e+00 1.00e+00
1MAP2K3
 105
HALLMARK_DNA_REPAIR 4.49e-01 1.71 0.04 1.00e+00 1.00e+00
1GUK1
 150
HALLMARK_IL2_STAT5_SIGNALING 5.45e-01 1.29 0.03 1.00e+00 1.00e+00
1BCL2L1
 199
HALLMARK_TNFA_SIGNALING_VIA_NFKB 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1MAP2K3
 200
HALLMARK_ESTROGEN_RESPONSE_EARLY 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1BLVRB
 200
HALLMARK_ESTROGEN_RESPONSE_LATE 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1BLVRB
 200
HALLMARK_MYOGENESIS 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1MYL4
 200
HALLMARK_INTERFERON_GAMMA_RESPONSE 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1BPGM
 200
HALLMARK_MTORC1_SIGNALING 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1MAP2K3
 200
HALLMARK_KRAS_SIGNALING_DN 5.47e-01 1.28 0.03 1.00e+00 1.00e+00
1PRODH
 200
HALLMARK_CHOLESTEROL_HOMEOSTASIS 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 74
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_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM 1.15e-02 13.35 1.52 1.00e+00 1.00e+00
2ALAS2, BLVRB
 41
KEGG_AMYOTROPHIC_LATERAL_SCLEROSIS_ALS 1.87e-02 10.20 1.17 1.00e+00 1.00e+00
2MAP2K3, BCL2L1
 53
KEGG_ARGININE_AND_PROLINE_METABOLISM 1.94e-02 10.01 1.15 1.00e+00 1.00e+00
2ARG1, PRODH
 54
KEGG_PARKINSONS_DISEASE 9.30e-02 4.07 0.47 1.00e+00 1.00e+00
2SNCA, UBB
 130
KEGG_PURINE_METABOLISM 1.29e-01 3.32 0.39 1.00e+00 1.00e+00
2GMPR, GUK1
 159
KEGG_THYROID_CANCER 1.09e-01 9.11 0.22 1.00e+00 1.00e+00
1NCOA4
 29
KEGG_GLYCINE_SERINE_AND_THREONINE_METABOLISM 1.16e-01 8.50 0.20 1.00e+00 1.00e+00
1ALAS2
 31
KEGG_PATHWAYS_IN_CANCER 3.61e-01 1.61 0.19 1.00e+00 1.00e+00
2NCOA4, BCL2L1
 325
KEGG_PATHOGENIC_ESCHERICHIA_COLI_INFECTION 2.00e-01 4.64 0.11 1.00e+00 1.00e+00
1TUBB1
 56
KEGG_GLYCOLYSIS_GLUCONEOGENESIS 2.19e-01 4.18 0.10 1.00e+00 1.00e+00
1BPGM
 62
KEGG_ADIPOCYTOKINE_SIGNALING_PATHWAY 2.34e-01 3.86 0.09 1.00e+00 1.00e+00
1ADIPOR1
 67
KEGG_PANCREATIC_CANCER 2.43e-01 3.70 0.09 1.00e+00 1.00e+00
1BCL2L1
 70
KEGG_CHRONIC_MYELOID_LEUKEMIA 2.52e-01 3.54 0.09 1.00e+00 1.00e+00
1BCL2L1
 73
KEGG_FC_EPSILON_RI_SIGNALING_PATHWAY 2.70e-01 3.27 0.08 1.00e+00 1.00e+00
1MAP2K3
 79
KEGG_SMALL_CELL_LUNG_CANCER 2.84e-01 3.07 0.08 1.00e+00 1.00e+00
1BCL2L1
 84
KEGG_APOPTOSIS 2.93e-01 2.97 0.07 1.00e+00 1.00e+00
1BCL2L1
 87
KEGG_GAP_JUNCTION 3.01e-01 2.87 0.07 1.00e+00 1.00e+00
1TUBB1
 90
KEGG_GNRH_SIGNALING_PATHWAY 3.31e-01 2.55 0.06 1.00e+00 1.00e+00
1MAP2K3
 101
KEGG_TOLL_LIKE_RECEPTOR_SIGNALING_PATHWAY 3.33e-01 2.53 0.06 1.00e+00 1.00e+00
1MAP2K3
 102
KEGG_TIGHT_JUNCTION 4.08e-01 1.95 0.05 1.00e+00 1.00e+00
1YBX3
 132

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr8p21 1.40e-02 6.38 1.25 1.00e+00 1.00e+00
3SLC25A37, BNIP3L, DMTN
 128
chr1p36 3.14e-01 1.67 0.43 1.00e+00 1.00e+00
4RHD, RAP1GAP, SMIM1, PITHD1
 656
chr19p13 5.35e-01 1.41 0.37 1.00e+00 1.00e+00
4NFIX, FKBP8, TMPRSS9, R3HDM4
 773
chr17q21 2.57e-01 1.76 0.35 1.00e+00 1.00e+00
3SLC4A1, MYL4, SLC25A39
 457
chr17p11 1.83e-01 2.64 0.31 1.00e+00 1.00e+00
2UBB, MAP2K3
 199
chr20q13 6.68e-01 1.31 0.15 1.00e+00 1.00e+00
2FAM210B, TUBB1
 400
chr7q33 1.87e-01 5.00 0.12 1.00e+00 1.00e+00
1BPGM
 52
chr4q22 2.43e-01 3.70 0.09 1.00e+00 1.00e+00
1SNCA
 70
chr18q12 3.17e-01 2.68 0.07 1.00e+00 1.00e+00
1SLC14A1
 96
chr6q23 3.44e-01 2.43 0.06 1.00e+00 1.00e+00
1ARG1
 106
chr20p13 3.72e-01 2.20 0.05 1.00e+00 1.00e+00
1SMOX
 117
chr19q13 4.39e-01 0.45 0.05 1.00e+00 1.00e+00
2KLC3, BLVRB
 1165
chr15q15 4.33e-01 1.80 0.04 1.00e+00 1.00e+00
1CCNDBP1
 143
chr2q11 4.40e-01 1.76 0.04 1.00e+00 1.00e+00
1FAM178B
 146
chr2q14 4.57e-01 1.67 0.04 1.00e+00 1.00e+00
1GYPC
 154
chr9p13 4.90e-01 1.51 0.04 1.00e+00 1.00e+00
1DCAF12
 170
chr7q34 5.10e-01 1.43 0.04 1.00e+00 1.00e+00
1MKRN1
 180
chr10q24 5.12e-01 1.42 0.03 1.00e+00 1.00e+00
1HPS1
 181
chr10q11 5.18e-01 1.39 0.03 1.00e+00 1.00e+00
1NCOA4
 184
chr14q24 5.31e-01 1.34 0.03 1.00e+00 1.00e+00
1PLEK2
 191

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GATA_C 5.80e-04 6.51 2.25 5.01e-01 6.58e-01
6SLC4A1, RHD, BPGM, BLVRB, GFI1B, DMTN
 268
PHB2_TARGET_GENES 1.03e-03 7.19 2.20 5.01e-01 1.00e+00
5NFE2, GFI1B, NFIX, FKBP8, GUK1
 198
GATA3_01 2.60e-03 5.79 1.78 5.88e-01 1.00e+00
5SLC4A1, SNCA, RHD, DMTN, BCL2L1
 245
GATAAGR_GATA_C 5.94e-03 4.72 1.45 9.10e-01 1.00e+00
5SLC4A1, NFE2, RHD, BPGM, DMTN
 299
GATA_Q6 7.84e-03 5.52 1.43 9.87e-01 1.00e+00
4SLC4A1, RHD, BPGM, DMTN
 201
CBFA2T2_TARGET_GENES 6.43e-03 2.61 1.27 9.10e-01 1.00e+00
13SELENBP1, NFE2, RHD, ADIPOR1, NCOA4, NFIX, BNIP3L, FKBP8, FAM178B, RNF10, PITHD1, HPS1, GUK1
 1694
GATA1_03 1.54e-02 4.49 1.17 1.00e+00 1.00e+00
4SLC4A1, NFE2, SNCA, BPGM
 246
GATA1_02 1.60e-02 4.44 1.15 1.00e+00 1.00e+00
4SLC4A1, SNCA, SMOX, BCL2L1
 249
HMGB1_TARGET_GENES 1.94e-02 2.33 1.08 1.00e+00 1.00e+00
11KLC3, GMPR, SMOX, BLVRB, RAP1GAP, NFIX, FAM210B, MAP2K3, PLEK2, RNF10, MKRN1
 1523
ZNF410_TARGET_GENES 2.97e-02 2.76 0.96 1.00e+00 1.00e+00
6MYL4, NFIX, MAP2K3, DMTN, HPS1, GUK1
 623
GCTNWTTGK_UNKNOWN 3.20e-02 3.55 0.92 1.00e+00 1.00e+00
4SNCA, STRADB, UBB, RNF10
 310
MIF1_01 3.64e-02 4.36 0.86 1.00e+00 1.00e+00
3SLC25A37, UBB, BCL2L1
 186
CC2D1A_TARGET_GENES 1.30e-01 1.93 0.78 1.00e+00 1.00e+00
8GMPR, NFE2, NFIX, FKBP8, FAM178B, MAP2K3, BCL2L1, GUK1
 1245
CTGCAGY_UNKNOWN 6.99e-02 2.21 0.77 1.00e+00 1.00e+00
6GMPR, RAP1GAP, NFIX, DMTN, CCNDBP1, PITHD1
 779
RYTGCNNRGNAAC_MIF1_01 4.93e-02 5.92 0.69 1.00e+00 1.00e+00
2UBB, BCL2L1
 90
ZFP91_TARGET_GENES 2.37e-01 1.66 0.67 1.00e+00 1.00e+00
8SLC25A37, KLC3, GYPC, MPP1, GFI1B, YBX3, NFIX, FKBP8
 1442
MZF1_01 6.72e-02 3.37 0.67 1.00e+00 1.00e+00
3BLVRB, YBX3, NFIX
 240
ZNF197_TARGET_GENES 1.01e-01 2.14 0.66 1.00e+00 1.00e+00
5NFE2, MYL4, SLC14A1, NFIX, FAM178B
 655
GATA1_04 7.18e-02 3.27 0.65 1.00e+00 1.00e+00
3SLC4A1, NFE2, SLC14A1
 247
SREBP1_Q6 7.18e-02 3.27 0.65 1.00e+00 1.00e+00
3SLC25A37, SLC4A1, NFIX
 247

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_ERYTHROCYTE_DEVELOPMENT 1.50e-07 51.27 14.77 1.12e-03 1.12e-03
5ALAS2, SLC4A1, BPGM, FAM210B, DMTN
 32
GOBP_MYELOID_CELL_DEVELOPMENT 5.94e-06 22.73 6.81 2.22e-02 4.44e-02
5ALAS2, SLC4A1, BPGM, FAM210B, DMTN
 66
GOBP_GDP_METABOLIC_PROCESS 8.35e-04 57.69 5.91 8.92e-01 1.00e+00
2MPP1, GUK1
 11
GOBP_HEME_METABOLIC_PROCESS 2.96e-04 26.56 5.01 4.43e-01 1.00e+00
3ALAS2, SLC25A39, BLVRB
 33
GOBP_GMP_METABOLIC_PROCESS 1.58e-03 39.95 4.27 1.00e+00 1.00e+00
2MPP1, GUK1
 15
GOBP_PORPHYRIN_CONTAINING_COMPOUND_METABOLIC_PROCESS 5.25e-04 21.53 4.11 6.55e-01 1.00e+00
3ALAS2, SLC25A39, BLVRB
 40
GOBP_REGULATION_OF_KILLING_OF_CELLS_OF_OTHER_ORGANISM 1.80e-03 37.11 3.99 1.00e+00 1.00e+00
2ARG1, BCL2L1
 16
GOBP_ERYTHROCYTE_HOMEOSTASIS 1.10e-04 11.97 3.64 2.74e-01 8.22e-01
5ALAS2, SLC4A1, BPGM, FAM210B, DMTN
 121
GOBP_MYELOID_CELL_HOMEOSTASIS 2.54e-04 9.92 3.03 4.43e-01 1.00e+00
5ALAS2, SLC4A1, BPGM, FAM210B, DMTN
 145
GOBP_TETRAPYRROLE_METABOLIC_PROCESS 1.88e-03 13.52 2.62 1.00e+00 1.00e+00
3ALAS2, SLC25A39, BLVRB
 62
GOBP_GLUTAMINE_FAMILY_AMINO_ACID_CATABOLIC_PROCESS 5.10e-03 20.80 2.32 1.00e+00 1.00e+00
2ARG1, PRODH
 27
GOBP_REGULATION_OF_MITOCHONDRIAL_MEMBRANE_POTENTIAL 2.77e-03 11.73 2.28 1.00e+00 1.00e+00
3UBB, BNIP3L, BCL2L1
 71
GOBP_PIGMENT_METABOLIC_PROCESS 2.88e-03 11.56 2.25 1.00e+00 1.00e+00
3ALAS2, SLC25A39, BLVRB
 72
GOBP_TETRAPYRROLE_BIOSYNTHETIC_PROCESS 5.48e-03 20.00 2.24 1.00e+00 1.00e+00
2ALAS2, SLC25A39
 28
GOBP_GLYCOLYTIC_PROCESS_THROUGH_FRUCTOSE_6_PHOSPHATE 5.87e-03 19.27 2.16 1.00e+00 1.00e+00
2SLC4A1, BPGM
 29
GOBP_NEGATIVE_REGULATION_OF_ATP_METABOLIC_PROCESS 5.87e-03 19.27 2.16 1.00e+00 1.00e+00
2SLC4A1, SNCA
 29
GOBP_NEGATIVE_REGULATION_OF_PROTEIN_LOCALIZATION_TO_MEMBRANE 6.27e-03 18.58 2.09 1.00e+00 1.00e+00
2DMTN, BCL2L1
 30
GOBP_REGULATION_OF_AUTOPHAGY_OF_MITOCHONDRION 6.69e-03 17.94 2.02 1.00e+00 1.00e+00
2BNIP3L, FBXO7
 31
GOBP_NEGATIVE_REGULATION_OF_SIGNAL_TRANSDUCTION_IN_ABSENCE_OF_LIGAND 7.12e-03 17.34 1.95 1.00e+00 1.00e+00
2STRADB, BCL2L1
 32
GOBP_IRON_ION_HOMEOSTASIS 4.74e-03 9.61 1.88 1.00e+00 1.00e+00
3ALAS2, SLC25A37, NCOA4
 86

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE34205_RSV_VS_FLU_INF_INFANT_PBMC_UP 1.89e-27 57.06 30.44 9.20e-24 9.20e-24
22ALAS2, SELENBP1, SLC25A37, SLC4A1, MYL4, SNCA, STRADB, SLC14A1, BPGM, SLC25A39, ADIPOR1, RAP1GAP, BNIP3L, DCAF12, FAM210B, FBXO7, PLEK2, CCNDBP1, RNF10, MKRN1, PITHD1, BCL2L1
 194
GSE34205_HEALTHY_VS_RSV_INF_INFANT_PBMC_DN 1.78e-20 38.62 20.01 4.33e-17 8.66e-17
18ALAS2, SELENBP1, SLC4A1, GMPR, MYL4, SNCA, STRADB, ARG1, BPGM, BLVRB, ADIPOR1, MPP1, RAP1GAP, BNIP3L, DCAF12, FBXO7, RNF10, MKRN1
 200
GSE6269_FLU_VS_STREP_PNEUMO_INF_PBMC_DN 5.43e-05 10.27 3.53 7.75e-02 2.65e-01
6SNCA, SLC14A1, ADIPOR1, YBX3, NCOA4, BNIP3L
 172
GSE6269_HEALTHY_VS_STAPH_AUREUS_INF_PBMC_DN 6.36e-05 9.97 3.42 7.75e-02 3.10e-01
6SNCA, MPP1, YBX3, BNIP3L, MAP2K3, RNF10
 177
GSE27786_NKCELL_VS_NEUTROPHIL_DN 1.24e-04 8.78 3.02 1.21e-01 6.03e-01
6STRADB, ADIPOR1, DCAF12, DMTN, CCNDBP1, PITHD1
 200
GSE6269_HEALTHY_VS_STAPH_PNEUMO_INF_PBMC_DN 5.24e-04 8.42 2.57 4.25e-01 1.00e+00
5SLC25A37, SNCA, BLVRB, ADIPOR1, BNIP3L
 170
GSE25088_ROSIGLITAZONE_VS_IL4_AND_ROSIGLITAZONE_STIM_STAT6_KO_MACROPHAGE_DAY10_UP 1.01e-03 7.23 2.22 4.38e-01 1.00e+00
5SLC25A37, NCOA4, BNIP3L, FKBP8, MKRN1
 197
GSE27786_LIN_NEG_VS_NKCELL_UP 1.08e-03 7.12 2.18 4.38e-01 1.00e+00
5RHD, BLVRB, TUBB1, PITHD1, PRODH
 200
GSE27786_CD4_TCELL_VS_NKCELL_DN 1.08e-03 7.12 2.18 4.38e-01 1.00e+00
5SLC25A39, BLVRB, ADIPOR1, MPP1, NFIX
 200
GSE39820_TGFBETA3_IL6_VS_TGFBETA3_IL6_IL23A_TREATED_CD4_TCELL_DN 1.08e-03 7.12 2.18 4.38e-01 1.00e+00
5SELENBP1, MYL4, SMOX, YBX3, FBXO7
 200
GSE369_SOCS3_KO_VS_WT_LIVER_POST_IL6_INJECTION_DN 1.08e-03 7.12 2.18 4.38e-01 1.00e+00
5MYL4, STRADB, RHD, SLC14A1, BLVRB
 200
GSE21774_CD56_BRIGHT_VS_DIM_CD62L_POSITIVE_NK_CELL_UP 1.08e-03 7.12 2.18 4.38e-01 1.00e+00
5RHD, BPGM, GYPC, BLVRB, GFI1B
 200
GSE6269_FLU_VS_STAPH_AUREUS_INF_PBMC_DN 4.13e-03 6.67 1.72 9.63e-01 1.00e+00
4BLVRB, ADIPOR1, MPP1, BNIP3L
 167
GSE2706_2H_VS_8H_R848_STIM_DC_UP 6.95e-03 5.72 1.48 9.63e-01 1.00e+00
4BLVRB, MPP1, FAM210B, MAP2K3
 194
GSE9509_LPS_VS_LPS_AND_IL10_STIM_IL10_KO_MACROPHAGE_20MIN_UP 6.95e-03 5.72 1.48 9.63e-01 1.00e+00
4GMPR, GFI1B, FAM210B, SMIM1
 194
GSE34156_NOD2_LIGAND_VS_TLR1_TLR2_LIGAND_6H_TREATED_MONOCYTE_DN 7.32e-03 5.63 1.46 9.63e-01 1.00e+00
4SLC25A37, BLVRB, MPP1, NCOA4
 197
GSE19198_6H_VS_24H_IL21_TREATED_TCELL_DN 7.45e-03 5.60 1.45 9.63e-01 1.00e+00
4SNCA, BLVRB, MPP1, PITHD1
 198
GSE3039_B2_VS_B1_BCELL_UP 7.58e-03 5.57 1.44 9.63e-01 1.00e+00
4ALAS2, SLC25A37, SLC4A1, SNCA
 199
GSE22229_UNTREATED_VS_IMMUNOSUPP_THERAPY_RENAL_TRANSPLANT_PATIENT_PBMC_DN 7.58e-03 5.57 1.44 9.63e-01 1.00e+00
4SELENBP1, SLC14A1, SMOX, MKRN1
 199
GSE21546_WT_VS_ELK1_KO_DP_THYMOCYTES_UP 7.58e-03 5.57 1.44 9.63e-01 1.00e+00
4NFE2, SMOX, YBX3, R3HDM4
 199

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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
NFE2 7 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
UBB 20 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
GFI1B 24 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
YBX3 25 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None Identical DBD to YBX1. Might also bind RNA.
NCOA4 26 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
NFIX 27 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
PLEK2 38 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
MKRN1 43 No ssDNA/RNA binding Not a DNA binding protein No motif None None
CAT 52 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Protein that breaks down hydrogen peroxide
TAL1 55 Yes Known motif Obligate heteromer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain No motif yielded from PBMs or HT-SELEX. Binds DNA as heterodimer with TCF3 (PDB:2YPB and PDB:2YPA).
CTCFL 66 Yes Known motif Monomer or homomultimer In vivo/Misc source None None
LYL1 69 Yes Inferred motif Obligate heteromer In vivo/Misc source None TAL1, TAL2 and LYL are very similar and have a basic region with a bulky tryptophan inserting into the cluster of the basic residues. Binds DNA as a heterodimer with TCF3 (PDB:2YPB and PDB:2YPA).
FOXO4 90 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
HSF5 94 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
FANK1 101 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Binds JUN to control its activity (PMID: 20978819), but there is no evidence that it binds DNA itself
PKHD1L1 108 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Membrane receptor (PMID: 12620974)
KLF8 115 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None
CREG1 127 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Regulates transcription in tethering assays (PMID: 9710587). Unlikely to be a TF, based on the lack of a canonical DBD
ELF4 131 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
PIM1 149 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Affects transcription by phosphorylating TFs (PMID: 18593906)


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
T92_GATGAAACAAGCGATG.1 Erythroblast 0.08 747.79
Raw ScoresBM: 0.14, Erythroblast: 0.14, Pro-Myelocyte: 0.11, MEP: 0.1, CMP: 0.08, Pro-B_cell_CD34+: 0.08, Monocyte: 0.08, Pre-B_cell_CD34-: 0.07, B_cell:immature: 0.07, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.07
T92_GACGTGCGTAAACGCG.1 Erythroblast 0.05 562.69
Raw ScoresErythroblast: 0.14, BM: 0.13, Neurons:adrenal_medulla_cell_line: 0.13, MEP: 0.12, Neuroepithelial_cell:ESC-derived: 0.12, Pro-Myelocyte: 0.12, CMP: 0.11, Tissue_stem_cells:CD326-CD56+: 0.11, Pro-B_cell_CD34+: 0.11, Astrocyte:Embryonic_stem_cell-derived: 0.11
T92_GCAATCACAGGCAGTA.1 BM 0.07 540.10
Raw ScoresBM: 0.22, B_cell:immature: 0.19, Pro-B_cell_CD34+: 0.19, Pro-Myelocyte: 0.19, Erythroblast: 0.19, Pre-B_cell_CD34-: 0.18, MEP: 0.18, T_cell:CD8+: 0.18, CMP: 0.18, B_cell:Naive: 0.18
T92_GTTTCTAAGCCCGAAA.1 Erythroblast 0.07 503.40
Raw ScoresErythroblast: 0.15, BM: 0.14, MEP: 0.12, Pro-Myelocyte: 0.12, CMP: 0.1, T_cell:CD8+_naive: 0.1, T_cell:CD8+_effector_memory: 0.1, T_cell:CD8+: 0.09, Pre-B_cell_CD34-: 0.09, T_cell:CD8+_Central_memory: 0.09
T92_AGCTCTCTCTCTGCTG.1 Erythroblast 0.06 475.58
Raw ScoresErythroblast: 0.17, BM: 0.17, MEP: 0.16, Pro-Myelocyte: 0.15, Pro-B_cell_CD34+: 0.14, CMP: 0.14, B_cell:immature: 0.13, Pre-B_cell_CD34-: 0.13, GMP: 0.13, HSC_CD34+: 0.13
T92_AGTGTCACAAGTAATG.1 Erythroblast 0.06 442.05
Raw ScoresErythroblast: 0.17, BM: 0.16, MEP: 0.15, Pro-Myelocyte: 0.14, Pro-B_cell_CD34+: 0.13, T_cell:CD8+_naive: 0.13, CMP: 0.13, T_cell:CD8+_effector_memory: 0.13, T_cell:CD8+_Central_memory: 0.13, T_cell:CD4+_central_memory: 0.13
T92_GCCAAATAGGCGTACA.1 BM 0.07 437.32
Raw ScoresBM: 0.15, Erythroblast: 0.15, MEP: 0.13, Pro-Myelocyte: 0.13, CMP: 0.12, Pro-B_cell_CD34+: 0.12, HSC_CD34+: 0.12, GMP: 0.11, Pre-B_cell_CD34-: 0.1, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.1
T92_CGTCCATGTGAAAGAG.1 BM 0.07 409.14
Raw ScoresErythroblast: 0.16, BM: 0.16, MEP: 0.15, Pro-Myelocyte: 0.14, CMP: 0.13, Pro-B_cell_CD34+: 0.13, Endothelial_cells:HUVEC:FPV-infected: 0.12, HSC_CD34+: 0.12, GMP: 0.12, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.12
T92_GTGAAGGGTAAGGATT.1 Erythroblast 0.06 373.33
Raw ScoresErythroblast: 0.17, BM: 0.17, Pro-Myelocyte: 0.16, MEP: 0.15, CMP: 0.14, Pro-B_cell_CD34+: 0.14, Neurons:adrenal_medulla_cell_line: 0.13, Pre-B_cell_CD34-: 0.13, T_cell:CD8+_naive: 0.13, Myelocyte: 0.13
T92_ACGAGCCAGTGACATA.1 Erythroblast 0.05 356.50
Raw ScoresErythroblast: 0.19, Neurons:adrenal_medulla_cell_line: 0.18, BM: 0.18, MEP: 0.18, Pro-Myelocyte: 0.17, CMP: 0.17, Pro-B_cell_CD34+: 0.17, Neuroepithelial_cell:ESC-derived: 0.17, iPS_cells:fibroblast-derived:Direct_del._reprog: 0.17, Neurons:Schwann_cell: 0.17
T92_AGATCTGGTTCACCTC.1 Erythroblast 0.05 346.91
Raw ScoresErythroblast: 0.19, Neurons:adrenal_medulla_cell_line: 0.17, BM: 0.17, MEP: 0.17, Astrocyte:Embryonic_stem_cell-derived: 0.16, Neuroepithelial_cell:ESC-derived: 0.16, Pro-Myelocyte: 0.16, Neurons:Schwann_cell: 0.16, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.16, iPS_cells:fibroblast-derived:Retroviral_transf: 0.16
T92_ACGAGGACACTGTTAG.1 Neurons:adrenal_medulla_cell_line 0.06 324.47
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.19, MEP: 0.17, CMP: 0.17, Erythroblast: 0.17, BM: 0.17, Pro-B_cell_CD34+: 0.16, Neuroepithelial_cell:ESC-derived: 0.16, Pro-Myelocyte: 0.16, Endothelial_cells:HUVEC:FPV-infected: 0.16, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.16
T92_TGCGTGGCATCTACGA.1 Erythroblast 0.06 306.02
Raw ScoresBM: 0.17, Erythroblast: 0.17, Pro-Myelocyte: 0.15, MEP: 0.15, T_cell:CD8+_naive: 0.13, Pro-B_cell_CD34+: 0.13, CMP: 0.13, T_cell:CD8+_Central_memory: 0.13, T_cell:CD8+_effector_memory: 0.13, HSC_CD34+: 0.13
T92_CGTCACTTCGAACGGA.1 Erythroblast 0.06 297.93
Raw ScoresErythroblast: 0.2, Neurons:adrenal_medulla_cell_line: 0.19, BM: 0.19, Pro-Myelocyte: 0.19, MEP: 0.19, Pro-B_cell_CD34+: 0.18, Neuroepithelial_cell:ESC-derived: 0.18, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.18, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.18, iPS_cells:fibroblast-derived:Retroviral_transf: 0.17
T40_CAGGTGCTCGACAGCC.1 Erythroblast 0.12 288.34
Raw ScoresMEP: 0.4, Erythroblast: 0.39, CMP: 0.36, Pro-Myelocyte: 0.35, GMP: 0.35, Pro-B_cell_CD34+: 0.35, BM: 0.34, HSC_CD34+: 0.33, T_cell:gamma-delta: 0.32, NK_cell:IL2: 0.31
T92_TGGTTCCCAATCACAC.1 Neurons:adrenal_medulla_cell_line 0.11 286.14
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.25, Neuroepithelial_cell:ESC-derived: 0.23, iPS_cells:fibroblast-derived:Retroviral_transf: 0.23, iPS_cells:fibroblast-derived:Direct_del._reprog: 0.22, Erythroblast: 0.22, iPS_cells:PDB_1lox-21Puro-20: 0.22, iPS_cells:PDB_1lox-21Puro-26: 0.22, iPS_cells:PDB_1lox-17Puro-10: 0.22, iPS_cells:PDB_1lox-17Puro-5: 0.22, Embryonic_stem_cells: 0.22
T92_TAAGCGTAGTTCCACA.1 BM 0.05 282.92
Raw ScoresBM: 0.17, Erythroblast: 0.15, Pro-Myelocyte: 0.15, Pre-B_cell_CD34-: 0.15, Pro-B_cell_CD34+: 0.15, Monocyte:CD16-: 0.15, NK_cell:CD56hiCD62L+: 0.14, Monocyte: 0.14, B_cell:immature: 0.14, T_cell:CD4+: 0.14
T92_GTACTCCCAATAGCGG.1 BM 0.04 272.46
Raw ScoresErythroblast: 0.18, BM: 0.17, MEP: 0.17, Pro-Myelocyte: 0.16, CMP: 0.16, Pro-B_cell_CD34+: 0.16, HSC_CD34+: 0.15, Endothelial_cells:HUVEC:FPV-infected: 0.14, GMP: 0.14, Monocyte:CD16+: 0.14
T92_GCTGGGTCAGCGTCCA.1 Erythroblast 0.05 247.40
Raw ScoresErythroblast: 0.15, BM: 0.15, Pro-Myelocyte: 0.14, MEP: 0.12, Pro-B_cell_CD34+: 0.12, CMP: 0.12, Neutrophil:GM-CSF_IFNg: 0.11, Monocyte: 0.11, Neurons:adrenal_medulla_cell_line: 0.11, Pre-B_cell_CD34-: 0.11
T92_CTGAAACAGTGGGTTG.1 BM 0.04 211.85
Raw ScoresBM: 0.17, Pro-Myelocyte: 0.17, Endothelial_cells:HUVEC:Borrelia_burgdorferi: 0.16, Erythroblast: 0.16, Pro-B_cell_CD34+: 0.16, Endothelial_cells:HUVEC:IFNg: 0.16, CMP: 0.16, MEP: 0.16, Endothelial_cells:HUVEC:FPV-infected: 0.15, Neurons:Schwann_cell: 0.15
T92_TGTATTCCAGCTGTAT.1 Neurons:adrenal_medulla_cell_line 0.12 190.64
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.26, Astrocyte:Embryonic_stem_cell-derived: 0.24, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.23, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.23, Tissue_stem_cells:CD326-CD56+: 0.23, Embryonic_stem_cells: 0.23, iPS_cells:PDB_1lox-17Puro-10: 0.23, iPS_cells:PDB_2lox-22: 0.23, iPS_cells:PDB_1lox-21Puro-20: 0.23
T92_TACTTGTGTCAGAAGC.1 BM 0.04 180.67
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.19, MEP: 0.18, BM: 0.18, Erythroblast: 0.18, Pro-Myelocyte: 0.17, Pro-B_cell_CD34+: 0.17, Neuroepithelial_cell:ESC-derived: 0.17, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.17, iPS_cells:fibroblast-derived:Retroviral_transf: 0.17, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.17
T69_ACGATGTTCTTCTGGC.1 Neurons:adrenal_medulla_cell_line 0.12 171.97
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.25, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.25, iPS_cells:PDB_2lox-22: 0.25, Embryonic_stem_cells: 0.25, Neurons:ES_cell-derived_neural_precursor: 0.25, iPS_cells:PDB_1lox-21Puro-20: 0.24, iPS_cells:PDB_1lox-17Puro-5: 0.24, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.24
T92_CTAGTGACAGTCAGAG.1 Neurons:adrenal_medulla_cell_line 0.04 136.93
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.18, MEP: 0.16, Erythroblast: 0.16, Astrocyte:Embryonic_stem_cell-derived: 0.16, BM: 0.16, iPS_cells:fibroblast-derived:Retroviral_transf: 0.16, Neuroepithelial_cell:ESC-derived: 0.16, Pro-B_cell_CD34+: 0.15, Tissue_stem_cells:CD326-CD56+: 0.15, CMP: 0.15
T92_GTCACGGGTTGGTAAA.1 Erythroblast 0.06 123.05
Raw ScoresErythroblast: 0.2, BM: 0.19, MEP: 0.19, Neurons:adrenal_medulla_cell_line: 0.18, Pro-Myelocyte: 0.18, CMP: 0.18, Pro-B_cell_CD34+: 0.17, Neuroepithelial_cell:ESC-derived: 0.17, Astrocyte:Embryonic_stem_cell-derived: 0.17, Smooth_muscle_cells:umbilical_vein: 0.17
T92_ACGGAGATCTGAGGGA.1 T_cell:CD8+_naive 0.05 97.36
Raw ScoresT_cell:CD4+_central_memory: 0.21, T_cell:CD4+_effector_memory: 0.21, T_cell:CD8+_naive: 0.21, T_cell:CD4+_Naive: 0.21, T_cell:CD8+_effector_memory: 0.21, T_cell:CD8+_Central_memory: 0.21, NK_cell: 0.2, T_cell:CD4+: 0.2, T_cell:gamma-delta: 0.2, T_cell:CD8+_effector_memory_RA: 0.2
T92_TTTGGTTGTATTACCG.1 T_cell:CD4+_central_memory 0.10 81.58
Raw ScoresT_cell:CD4+_central_memory: 0.28, T_cell:CD4+_Naive: 0.27, T_cell:CD4+_effector_memory: 0.27, T_cell:CD4+: 0.27, T_cell:CD8+: 0.26, T_cell:CD8+_effector_memory: 0.25, NK_cell: 0.25, Pre-B_cell_CD34-: 0.25, T_cell:CD8+_naive: 0.25, T_cell:gamma-delta: 0.25
T69_CAGATCAGTCATCCCT.1 Neurons:adrenal_medulla_cell_line 0.14 75.86
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.33, Neuroepithelial_cell:ESC-derived: 0.29, iPS_cells:PDB_1lox-17Puro-5: 0.27, iPS_cells:PDB_1lox-17Puro-10: 0.27, iPS_cells:PDB_1lox-21Puro-20: 0.27, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:PDB_1lox-21Puro-26: 0.27, iPS_cells:PDB_2lox-22: 0.26, Neurons:ES_cell-derived_neural_precursor: 0.26
T92_CAGCATAAGACATAAC.1 Neurons:adrenal_medulla_cell_line 0.12 75.40
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.27, Neuroepithelial_cell:ESC-derived: 0.22, Astrocyte:Embryonic_stem_cell-derived: 0.22, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.2, iPS_cells:PDB_2lox-22: 0.2, iPS_cells:fibroblast-derived:Retroviral_transf: 0.2, Embryonic_stem_cells: 0.2, iPS_cells:PDB_2lox-21: 0.2, iPS_cells:PDB_1lox-17Puro-5: 0.2, iPS_cells:PDB_2lox-5: 0.2
T92_TACTTACAGGTAGCCA.1 Neurons:adrenal_medulla_cell_line 0.14 73.73
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.33, Neuroepithelial_cell:ESC-derived: 0.28, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.26, Astrocyte:Embryonic_stem_cell-derived: 0.26, iPS_cells:PDB_2lox-22: 0.26, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.26, iPS_cells:iPS:minicircle-derived: 0.26, iPS_cells:PDB_2lox-17: 0.26, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26
T69_CTCGTACAGGTGCTTT.1 Neurons:adrenal_medulla_cell_line 0.08 73.11
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.22, Neuroepithelial_cell:ESC-derived: 0.19, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.18, Astrocyte:Embryonic_stem_cell-derived: 0.18, iPS_cells:PDB_1lox-17Puro-5: 0.18, iPS_cells:PDB_2lox-17: 0.18, iPS_cells:PDB_1lox-17Puro-10: 0.18, iPS_cells:fibroblast-derived:Retroviral_transf: 0.18, iPS_cells:PDB_2lox-22: 0.18, iPS_cells:PDB_1lox-21Puro-20: 0.18
T92_GCATGTAAGACTAGGC.1 Neurons:adrenal_medulla_cell_line 0.19 69.21
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.37, Neuroepithelial_cell:ESC-derived: 0.3, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.26, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26, iPS_cells:PDB_2lox-22: 0.26, iPS_cells:PDB_2lox-21: 0.26, Embryonic_stem_cells: 0.26, iPS_cells:PDB_1lox-17Puro-5: 0.26
T69_CACCTTGAGCTCAACT.1 Neurons:adrenal_medulla_cell_line 0.14 68.14
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.33, Neuroepithelial_cell:ESC-derived: 0.3, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.27, iPS_cells:PDB_1lox-17Puro-5: 0.27, iPS_cells:PDB_1lox-21Puro-20: 0.27, iPS_cells:PDB_1lox-21Puro-26: 0.27, iPS_cells:PDB_2lox-22: 0.27, iPS_cells:PDB_1lox-17Puro-10: 0.26, iPS_cells:PDB_2lox-17: 0.26
T92_AACTCAGAGAGCTGCA.1 Neurons:adrenal_medulla_cell_line 0.11 66.65
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.28, Neuroepithelial_cell:ESC-derived: 0.23, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.23, Astrocyte:Embryonic_stem_cell-derived: 0.23, iPS_cells:PDB_2lox-22: 0.22, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.22, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.22, iPS_cells:PDB_2lox-17: 0.22, iPS_cells:PDB_2lox-5: 0.22, iPS_cells:PDB_1lox-21Puro-20: 0.22
T92_GCTTCCAAGATGCGAC.1 Neurons:adrenal_medulla_cell_line 0.13 66.37
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.32, Neuroepithelial_cell:ESC-derived: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.25, iPS_cells:PDB_2lox-22: 0.25, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.25, iPS_cells:PDB_2lox-17: 0.25, iPS_cells:PDB_1lox-17Puro-10: 0.25, Tissue_stem_cells:CD326-CD56+: 0.25, iPS_cells:iPS:minicircle-derived: 0.25
T92_GCCTCTATCGCGTTTC.1 Neurons:adrenal_medulla_cell_line 0.15 64.99
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.29, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.26, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.26, Embryonic_stem_cells: 0.26, iPS_cells:PDB_2lox-22: 0.26, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.26, iPS_cells:PDB_2lox-21: 0.26, Tissue_stem_cells:CD326-CD56+: 0.26
T92_ACTGCTCAGTAATCCC.1 Neurons:adrenal_medulla_cell_line 0.17 64.47
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.35, Neuroepithelial_cell:ESC-derived: 0.29, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.27, iPS_cells:PDB_2lox-22: 0.27, iPS_cells:PDB_2lox-21: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:PDB_2lox-17: 0.26, Tissue_stem_cells:CD326-CD56+: 0.26, iPS_cells:PDB_2lox-5: 0.26, iPS_cells:PDB_1lox-21Puro-20: 0.26
T92_GACTAACGTTCCCGAG.1 Neurons:adrenal_medulla_cell_line 0.11 63.06
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.25, Neuroepithelial_cell:ESC-derived: 0.22, Astrocyte:Embryonic_stem_cell-derived: 0.21, iPS_cells:fibroblast-derived:Retroviral_transf: 0.2, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.2, iPS_cells:fibroblast-derived:Direct_del._reprog: 0.19, iPS_cells:PDB_2lox-22: 0.19, iPS_cells:PDB_1lox-17Puro-5: 0.19, iPS_cells:PDB_1lox-21Puro-20: 0.19, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.19
T69_GACGGCTGTGGTCCGT.1 Neurons:adrenal_medulla_cell_line 0.12 59.63
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.26, Neurons:ES_cell-derived_neural_precursor: 0.24, Embryonic_stem_cells: 0.24, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.24, iPS_cells:PDB_2lox-22: 0.24, iPS_cells:PDB_1lox-21Puro-20: 0.24, iPS_cells:PDB_1lox-17Puro-5: 0.24, iPS_cells:PDB_2lox-5: 0.24
T92_GACAGAGGTAAGTTCC.1 B_cell:immature 0.07 56.55
Raw ScoresB_cell:immature: 0.21, B_cell:Naive: 0.21, B_cell:Memory: 0.21, B_cell: 0.2, Monocyte:CD16+: 0.2, Pro-B_cell_CD34+: 0.2, B_cell:Plasma_cell: 0.2, Monocyte:CD16-: 0.2, Monocyte:CD14+: 0.2, Pre-B_cell_CD34-: 0.2
T69_TCTCTAAGTGGTGTAG.1 Neurons:adrenal_medulla_cell_line 0.13 56.13
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.3, Neuroepithelial_cell:ESC-derived: 0.27, Astrocyte:Embryonic_stem_cell-derived: 0.26, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.25, iPS_cells:PDB_1lox-17Puro-5: 0.25, Embryonic_stem_cells: 0.25, iPS_cells:PDB_1lox-21Puro-20: 0.25, iPS_cells:PDB_1lox-17Puro-10: 0.25, Neurons:ES_cell-derived_neural_precursor: 0.24, iPS_cells:PDB_2lox-22: 0.24
T162_AGTGACTCACCAAAGG-1 Neurons:adrenal_medulla_cell_line 0.08 56.10
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.23, Neuroepithelial_cell:ESC-derived: 0.2, Astrocyte:Embryonic_stem_cell-derived: 0.2, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.19, iPS_cells:PDB_1lox-21Puro-26: 0.19, iPS_cells:PDB_1lox-21Puro-20: 0.19, iPS_cells:PDB_1lox-17Puro-5: 0.19, iPS_cells:PDB_2lox-22: 0.19, Embryonic_stem_cells: 0.19, iPS_cells:iPS:minicircle-derived: 0.19
T92_CTAGAGTTCAGTGCAT.1 Neurons:adrenal_medulla_cell_line 0.09 55.23
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.27, Neuroepithelial_cell:ESC-derived: 0.24, iPS_cells:PDB_2lox-17: 0.23, iPS_cells:PDB_2lox-22: 0.23, iPS_cells:skin_fibroblast-derived: 0.23, iPS_cells:iPS:minicircle-derived: 0.23, iPS_cells:PDB_2lox-21: 0.23, iPS_cells:adipose_stem_cell-derived:minicircle-derived: 0.23, iPS_cells:adipose_stem_cell-derived:lentiviral: 0.23, iPS_cells:PDB_1lox-21Puro-20: 0.23
T92_CCGTGGAAGCGTAATA.1 T_cell:CD8+_effector_memory 0.08 54.92
Raw ScoresT_cell:CD8+_effector_memory: 0.23, T_cell:CD8+_naive: 0.22, T_cell:CD4+_central_memory: 0.22, T_cell:CD4+_Naive: 0.22, T_cell:CD8+: 0.22, T_cell:CD8+_Central_memory: 0.22, T_cell:CD4+_effector_memory: 0.21, T_cell:CD4+: 0.21, T_cell:CD8+_effector_memory_RA: 0.21, T_cell:gamma-delta: 0.21
T69_ATTATCCCAAGAGGCT.1 Neurons:adrenal_medulla_cell_line 0.14 53.38
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.33, Neuroepithelial_cell:ESC-derived: 0.3, Astrocyte:Embryonic_stem_cell-derived: 0.29, iPS_cells:PDB_2lox-22: 0.28, iPS_cells:PDB_1lox-17Puro-5: 0.28, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.28, iPS_cells:PDB_1lox-21Puro-20: 0.28, iPS_cells:PDB_2lox-17: 0.28, iPS_cells:PDB_2lox-21: 0.28, iPS_cells:PDB_1lox-21Puro-26: 0.28
T69_CACACAATCTAACCGA.1 Neurons:adrenal_medulla_cell_line 0.13 51.99
Raw ScoresNeurons:adrenal_medulla_cell_line: 0.32, Neuroepithelial_cell:ESC-derived: 0.28, Astrocyte:Embryonic_stem_cell-derived: 0.27, iPS_cells:PDB_2lox-5: 0.25, iPS_cells:CRL2097_foreskin-derived:undiff.: 0.25, Neurons:ES_cell-derived_neural_precursor: 0.25, iPS_cells:PDB_2lox-22: 0.25, iPS_cells:PDB_2lox-17: 0.25, iPS_cells:PDB_2lox-21: 0.25, iPS_cells:PDB_1lox-17Puro-5: 0.25
T69_AGAGCTTCACCGATAT.1 Smooth_muscle_cells:vascular:IL-17 0.14 50.55
Raw ScoresFibroblasts:breast: 0.28, Smooth_muscle_cells:vascular:IL-17: 0.28, Chondrocytes:MSC-derived: 0.28, Smooth_muscle_cells:vascular: 0.28, iPS_cells:adipose_stem_cells: 0.27, Tissue_stem_cells:BM_MSC:TGFb3: 0.27, Tissue_stem_cells:BM_MSC: 0.27, Tissue_stem_cells:BM_MSC:BMP2: 0.26, Fibroblasts:foreskin: 0.26, Smooth_muscle_cells:bronchial: 0.26


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: 1.40e-05
Mean rank of genes in gene set: 3242.96
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
C7 0.0000074 448 GTEx DepMap Descartes 0.00 0.00
CFB -0.0000697 1243 GTEx DepMap Descartes 0.02 0.81
CXCL14 -0.0000707 1262 GTEx DepMap Descartes 0.02 1.93
IL33 -0.0000788 1359 GTEx DepMap Descartes 0.00 0.00
LIF -0.0000840 1435 GTEx DepMap Descartes 0.06 1.62
SCARA5 -0.0000938 1570 GTEx DepMap Descartes 0.00 0.00
PDGFD -0.0001114 1841 GTEx DepMap Descartes 0.00 0.00
CFD -0.0001120 1845 GTEx DepMap Descartes 0.06 5.95
IL10 -0.0001223 2004 GTEx DepMap Descartes 0.02 1.19
CXCL12 -0.0001308 2123 GTEx DepMap Descartes 0.02 0.59
IL1R1 -0.0001541 2458 GTEx DepMap Descartes 0.04 0.81
IGFBP6 -0.0001696 2697 GTEx DepMap Descartes 0.02 0.93
PDPN -0.0001719 2729 GTEx DepMap Descartes 0.04 1.35
IGF1 -0.0001753 2782 GTEx DepMap Descartes 0.00 0.00
CXCL2 -0.0002246 3435 GTEx DepMap Descartes 1.96 172.68
CCL2 -0.0002319 3540 GTEx DepMap Descartes 0.04 3.37
PDGFRB -0.0002331 3565 GTEx DepMap Descartes 0.09 1.51
C3 -0.0002368 3617 GTEx DepMap Descartes 0.26 4.80
SCARA3 -0.0002723 4147 GTEx DepMap Descartes 0.02 0.41
GPX3 -0.0003169 4825 GTEx DepMap Descartes 0.11 7.66
SOD2 -0.0003645 5511 GTEx DepMap Descartes 0.74 5.19
SERPING1 -0.0004112 6227 GTEx DepMap Descartes 0.09 3.42
PDGFRA -0.0004159 6299 GTEx DepMap Descartes 0.04 0.57
RGMA -0.0004446 6720 GTEx DepMap Descartes 0.02 0.14
HGF -0.0004922 7392 GTEx DepMap Descartes 0.02 0.66


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: 3.34e-05
Mean rank of genes in gene set: 4215.27
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
POSTN 0.0000366 384 GTEx DepMap Descartes 0.00 0.00
TNC -0.0000163 557 GTEx DepMap Descartes 0.04 1.27
COL10A1 -0.0000285 716 GTEx DepMap Descartes 0.00 0.00
IGFBP3 -0.0000319 773 GTEx DepMap Descartes 0.00 0.00
PGF -0.0000652 1173 GTEx DepMap Descartes 0.23 6.86
ITGA7 -0.0000888 1498 GTEx DepMap Descartes 0.04 0.64
COL13A1 -0.0001192 1949 GTEx DepMap Descartes 0.00 0.00
THBS2 -0.0001405 2264 GTEx DepMap Descartes 0.00 0.00
COL5A1 -0.0001473 2362 GTEx DepMap Descartes 0.00 0.00
ACTG2 -0.0001480 2378 GTEx DepMap Descartes 0.00 0.00
BGN -0.0001520 2426 GTEx DepMap Descartes 0.02 0.89
VEGFA -0.0001546 2466 GTEx DepMap Descartes 0.21 2.06
LUM -0.0001580 2511 GTEx DepMap Descartes 0.02 1.43
COL11A1 -0.0001646 2620 GTEx DepMap Descartes 0.00 0.00
COL1A1 -0.0001661 2633 GTEx DepMap Descartes 0.15 2.48
DCN -0.0001710 2719 GTEx DepMap Descartes 0.11 1.53
FN1 -0.0001780 2821 GTEx DepMap Descartes 0.02 0.23
COL8A1 -0.0001926 3012 GTEx DepMap Descartes 0.09 1.47
COL3A1 -0.0002008 3125 GTEx DepMap Descartes 0.17 3.05
COL1A2 -0.0002031 3151 GTEx DepMap Descartes 0.17 2.79
TGFB2 -0.0002167 3329 GTEx DepMap Descartes 0.00 0.00
WNT5A -0.0002203 3384 GTEx DepMap Descartes 0.00 0.00
COL15A1 -0.0002266 3465 GTEx DepMap Descartes 0.00 0.00
MMP11 -0.0002279 3486 GTEx DepMap Descartes 0.00 0.00
COL12A1 -0.0002472 3784 GTEx DepMap Descartes 0.00 0.00
COL5A2 -0.0002547 3892 GTEx DepMap Descartes 0.00 0.00
COL4A1 -0.0002596 3967 GTEx DepMap Descartes 0.00 0.00
ACTA2 -0.0002708 4133 GTEx DepMap Descartes 0.06 7.06
MYH11 -0.0002781 4230 GTEx DepMap Descartes 0.00 0.00
MYLK -0.0002805 4268 GTEx DepMap Descartes 0.06 0.63
THBS1 -0.0002878 4398 GTEx DepMap Descartes 0.06 0.81
TAGLN -0.0002907 4439 GTEx DepMap Descartes 0.00 0.00
MYL9 -0.0002945 4501 GTEx DepMap Descartes 0.04 1.50
COL14A1 -0.0003009 4605 GTEx DepMap Descartes 0.00 0.00
MMP2 -0.0003083 4715 GTEx DepMap Descartes 0.09 1.79
HOPX -0.0003179 4844 GTEx DepMap Descartes 0.00 0.00
MEF2C -0.0003308 5028 GTEx DepMap Descartes 0.06 0.83
TGFBR2 -0.0003339 5072 GTEx DepMap Descartes 0.02 0.19
IGFBP7 -0.0003609 5455 GTEx DepMap Descartes 0.11 8.03
TMEM119 -0.0004039 6123 GTEx DepMap Descartes 0.02 0.41
THY1 -0.0004267 6463 GTEx DepMap Descartes 0.13 3.66
TGFBR1 -0.0004705 7083 GTEx DepMap Descartes 0.13 2.25
TPM2 -0.0004871 7322 GTEx DepMap Descartes 0.00 0.00
CNN2 -0.0005118 7677 GTEx DepMap Descartes 0.00 0.00
TGFB1 -0.0006228 8975 GTEx DepMap Descartes 0.02 0.41
TPM1 -0.0006597 9349 GTEx DepMap Descartes 0.89 21.09
VCAN -0.0007088 9766 GTEx DepMap Descartes 0.26 3.95
CNN3 -0.0008428 10626 GTEx DepMap Descartes 0.38 17.20
RGS5 -0.0008433 10631 GTEx DepMap Descartes 6.68 109.55


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: 2.72e-03
Mean rank of genes in gene set: 3483.85
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
MGP 0.0000192 415 GTEx DepMap Descartes 0.26 15.22
PRRX1 -0.0001100 1807 GTEx DepMap Descartes 0.00 0.00
BGN -0.0001520 2426 GTEx DepMap Descartes 0.02 0.89
LUM -0.0001580 2511 GTEx DepMap Descartes 0.02 1.43
COL6A2 -0.0001582 2516 GTEx DepMap Descartes 0.21 7.01
COL1A1 -0.0001661 2633 GTEx DepMap Descartes 0.15 2.48
DCN -0.0001710 2719 GTEx DepMap Descartes 0.11 1.53
COL3A1 -0.0002008 3125 GTEx DepMap Descartes 0.17 3.05
COL1A2 -0.0002031 3151 GTEx DepMap Descartes 0.17 2.79
LEPR -0.0002035 3153 GTEx DepMap Descartes 0.02 0.14
SPARC -0.0003219 4903 GTEx DepMap Descartes 0.11 3.90
PDGFRA -0.0004159 6299 GTEx DepMap Descartes 0.04 0.57
CALD1 -0.0006919 9632 GTEx DepMap Descartes 0.28 8.67




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: 9289.65
Median rank of genes in gene set: 10166
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
UCP2 0.0003521 134 GTEx DepMap Descartes 0.64 30.17
HK2 0.0003041 148 GTEx DepMap Descartes 0.06 1.69
MYRIP 0.0000283 400 GTEx DepMap Descartes 0.02 0.75
SHC3 -0.0000532 1014 GTEx DepMap Descartes 0.00 0.00
BEND4 -0.0000764 1327 GTEx DepMap Descartes 0.04 0.53
STRA6 -0.0000956 1603 GTEx DepMap Descartes 0.02 0.58
GLDC -0.0001345 2177 GTEx DepMap Descartes 0.00 0.00
DIABLO -0.0001535 2447 GTEx DepMap Descartes 0.17 8.72
CACNA2D2 -0.0001710 2720 GTEx DepMap Descartes 0.06 0.75
MXI1 -0.0001743 2767 GTEx DepMap Descartes 0.45 19.64
RRM2 -0.0001897 2961 GTEx DepMap Descartes 0.13 2.12
NGRN -0.0001923 3005 GTEx DepMap Descartes 0.26 7.89
RNF144A -0.0001931 3022 GTEx DepMap Descartes 0.17 2.94
KIF15 -0.0002115 3253 GTEx DepMap Descartes 0.06 0.95
HS6ST2 -0.0002145 3300 GTEx DepMap Descartes 0.04 0.62
RNFT2 -0.0002164 3318 GTEx DepMap Descartes 0.32 7.83
PDK1 -0.0002225 3404 GTEx DepMap Descartes 0.06 0.31
TIAM1 -0.0002274 3481 GTEx DepMap Descartes 0.04 1.66
FOXM1 -0.0002328 3557 GTEx DepMap Descartes 0.23 6.17
CDCA5 -0.0002447 3742 GTEx DepMap Descartes 0.19 6.60
POPDC3 -0.0002572 3926 GTEx DepMap Descartes 0.00 0.00
TBPL1 -0.0002574 3929 GTEx DepMap Descartes 0.57 18.33
GRB10 -0.0002603 3980 GTEx DepMap Descartes 0.06 1.31
RET -0.0002669 4067 GTEx DepMap Descartes 0.00 0.00
ESRRG -0.0002745 4183 GTEx DepMap Descartes 0.00 0.00
CDKN3 -0.0002839 4335 GTEx DepMap Descartes 0.38 32.79
NANOS1 -0.0002888 4408 GTEx DepMap Descartes 0.09 1.96
FAM167A -0.0002916 4454 GTEx DepMap Descartes 0.02 0.27
MCM2 -0.0002960 4533 GTEx DepMap Descartes 0.19 4.21
EML6 -0.0002984 4565 GTEx DepMap Descartes 0.02 0.11


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: 1.45e-01
Mean rank of genes in gene set: 6094.4
Median rank of genes in gene set: 5971
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
MICAL2 0.0007364 84 GTEx DepMap Descartes 0.06 1.38
CREG1 0.0003906 127 GTEx DepMap Descartes 0.43 21.16
CYBRD1 0.0003504 135 GTEx DepMap Descartes 0.15 4.61
ARL4A 0.0003373 139 GTEx DepMap Descartes 0.38 10.61
HIST1H2BK 0.0001774 206 GTEx DepMap Descartes 0.02 NA
GDF15 0.0001061 277 GTEx DepMap Descartes 0.02 1.42
PXDC1 0.0001045 280 GTEx DepMap Descartes 0.02 0.58
GAS1 0.0000456 364 GTEx DepMap Descartes 0.38 11.98
POSTN 0.0000366 384 GTEx DepMap Descartes 0.00 0.00
TRAM2 0.0000282 401 GTEx DepMap Descartes 0.02 0.32
MGP 0.0000192 415 GTEx DepMap Descartes 0.26 15.22
F2RL2 0.0000125 435 GTEx DepMap Descartes 0.00 0.00
PROM1 -0.0000116 510 GTEx DepMap Descartes 0.00 0.00
TNC -0.0000163 557 GTEx DepMap Descartes 0.04 1.27
SOSTDC1 -0.0000241 653 GTEx DepMap Descartes 0.00 0.00
GJA1 -0.0000380 833 GTEx DepMap Descartes 0.09 2.72
DLX2 -0.0000386 843 GTEx DepMap Descartes 0.00 0.00
CPS1 -0.0000482 954 GTEx DepMap Descartes 0.00 0.00
CAPN6 -0.0000483 955 GTEx DepMap Descartes 0.00 0.00
EPHA3 -0.0000511 981 GTEx DepMap Descartes 0.00 0.00
CILP -0.0000514 986 GTEx DepMap Descartes 0.02 0.37
PRDM6 -0.0000621 1129 GTEx DepMap Descartes 0.00 0.00
BMP5 -0.0000664 1192 GTEx DepMap Descartes 0.00 0.00
DLX1 -0.0000698 1247 GTEx DepMap Descartes 0.00 0.00
TNS1 -0.0000746 1307 GTEx DepMap Descartes 0.04 0.29
TFE3 -0.0000788 1360 GTEx DepMap Descartes 0.11 3.96
MEOX2 -0.0000800 1378 GTEx DepMap Descartes 0.00 0.00
ELK3 -0.0000922 1546 GTEx DepMap Descartes 0.04 0.68
SYDE1 -0.0000969 1622 GTEx DepMap Descartes 0.00 0.00
AJUBA -0.0000982 1632 GTEx DepMap Descartes 0.00 0.00


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: 6.29e-01
Mean rank of genes in gene set: 6472.83
Median rank of genes in gene set: 6635
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
FREM2 -0.0000601 1101 GTEx DepMap Descartes 0.00 0.00
SGCZ -0.0000815 1397 GTEx DepMap Descartes 0.04 1.29
STAR -0.0000949 1594 GTEx DepMap Descartes 0.00 0.00
DHCR24 -0.0001136 1872 GTEx DepMap Descartes 0.11 1.43
PAPSS2 -0.0001424 2290 GTEx DepMap Descartes 0.02 0.27
INHA -0.0001717 2728 GTEx DepMap Descartes 0.00 0.00
BAIAP2L1 -0.0001750 2776 GTEx DepMap Descartes 0.00 0.00
APOC1 -0.0002817 4294 GTEx DepMap Descartes 1.32 151.21
FDXR -0.0003042 4648 GTEx DepMap Descartes 0.09 3.53
NPC1 -0.0003154 4806 GTEx DepMap Descartes 0.00 0.00
GRAMD1B -0.0003330 5062 GTEx DepMap Descartes 0.00 0.00
SCARB1 -0.0003350 5086 GTEx DepMap Descartes 0.06 0.69
SH3PXD2B -0.0003558 5385 GTEx DepMap Descartes 0.02 0.51
FRMD5 -0.0003574 5397 GTEx DepMap Descartes 0.02 0.27
ERN1 -0.0003764 5703 GTEx DepMap Descartes 0.04 0.49
SCAP -0.0003941 5978 GTEx DepMap Descartes 0.06 2.66
CYB5B -0.0004153 6287 GTEx DepMap Descartes 0.49 14.36
CLU -0.0004280 6483 GTEx DepMap Descartes 0.91 31.70
PDE10A -0.0004485 6787 GTEx DepMap Descartes 0.00 0.00
DHCR7 -0.0004537 6864 GTEx DepMap Descartes 0.11 3.28
LDLR -0.0004703 7078 GTEx DepMap Descartes 0.04 0.43
SLC16A9 -0.0004734 7140 GTEx DepMap Descartes 0.02 0.28
HMGCR -0.0004964 7448 GTEx DepMap Descartes 0.21 3.89
SLC1A2 -0.0005362 8007 GTEx DepMap Descartes 0.11 1.31
DNER -0.0005372 8020 GTEx DepMap Descartes 0.13 4.65
POR -0.0005908 8607 GTEx DepMap Descartes 0.04 2.40
PEG3 -0.0006352 9108 GTEx DepMap Descartes 0.23 NA
TM7SF2 -0.0006495 9241 GTEx DepMap Descartes 0.30 18.05
HMGCS1 -0.0006530 9283 GTEx DepMap Descartes 0.30 3.21
MSMO1 -0.0006600 9353 GTEx DepMap Descartes 0.15 10.01


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: 9314.76
Median rank of genes in gene set: 9992
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SLC44A5 -0.0001998 3110 GTEx DepMap Descartes 0.02 0.35
EPHA6 -0.0002557 3906 GTEx DepMap Descartes 0.00 0.00
TMEM132C -0.0002744 4182 GTEx DepMap Descartes 0.09 1.17
RPH3A -0.0003187 4856 GTEx DepMap Descartes 0.00 0.00
ALK -0.0003194 4864 GTEx DepMap Descartes 0.06 0.75
ANKFN1 -0.0003197 4870 GTEx DepMap Descartes 0.02 0.25
CNKSR2 -0.0003263 4968 GTEx DepMap Descartes 0.09 1.42
GREM1 -0.0003265 4971 GTEx DepMap Descartes 0.00 0.00
KCNB2 -0.0004688 7060 GTEx DepMap Descartes 0.06 4.39
FAT3 -0.0004901 7366 GTEx DepMap Descartes 0.00 0.00
RYR2 -0.0004969 7457 GTEx DepMap Descartes 0.00 0.00
SLC6A2 -0.0004981 7477 GTEx DepMap Descartes 0.17 6.15
EYA1 -0.0005136 7704 GTEx DepMap Descartes 0.04 0.73
EYA4 -0.0005559 8218 GTEx DepMap Descartes 0.02 0.68
SYNPO2 -0.0005942 8646 GTEx DepMap Descartes 0.13 1.75
HS3ST5 -0.0006052 8767 GTEx DepMap Descartes 0.00 0.00
PTCHD1 -0.0006361 9116 GTEx DepMap Descartes 0.00 0.00
PLXNA4 -0.0006390 9145 GTEx DepMap Descartes 0.02 0.08
GAL -0.0006783 9513 GTEx DepMap Descartes 1.28 182.63
RGMB -0.0007071 9749 GTEx DepMap Descartes 0.30 5.19
MAB21L2 -0.0007405 9992 GTEx DepMap Descartes 0.57 28.39
TMEFF2 -0.0007956 10387 GTEx DepMap Descartes 0.11 3.95
MAB21L1 -0.0008823 10844 GTEx DepMap Descartes 0.57 24.16
RBFOX1 -0.0009401 11095 GTEx DepMap Descartes 0.11 3.67
NTRK1 -0.0009482 11131 GTEx DepMap Descartes 0.09 3.60
IL7 -0.0009740 11215 GTEx DepMap Descartes 0.53 36.08
MARCH11 -0.0010403 11448 GTEx DepMap Descartes 1.09 NA
REEP1 -0.0010432 11461 GTEx DepMap Descartes 0.09 2.46
CNTFR -0.0011386 11687 GTEx DepMap Descartes 0.21 15.19
ISL1 -0.0011483 11712 GTEx DepMap Descartes 1.26 83.76


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: 3.11e-08
Mean rank of genes in gene set: 3098.92
Median rank of genes in gene set: 2536
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
CDH13 0.0002088 188 GTEx DepMap Descartes 0.09 1.75
ESM1 0.0001580 225 GTEx DepMap Descartes 0.00 0.00
CRHBP 0.0000332 391 GTEx DepMap Descartes 0.00 0.00
MYRIP 0.0000283 400 GTEx DepMap Descartes 0.02 0.75
PLVAP 0.0000119 437 GTEx DepMap Descartes 0.00 0.00
TIE1 -0.0000347 799 GTEx DepMap Descartes 0.00 0.00
KDR -0.0000668 1198 GTEx DepMap Descartes 0.00 0.00
SLCO2A1 -0.0000806 1384 GTEx DepMap Descartes 0.00 0.00
NR5A2 -0.0000836 1428 GTEx DepMap Descartes 0.00 0.00
FLT4 -0.0000843 1441 GTEx DepMap Descartes 0.00 0.00
NPR1 -0.0000852 1457 GTEx DepMap Descartes 0.00 0.00
GALNT15 -0.0001090 1787 GTEx DepMap Descartes 0.00 NA
PTPRB -0.0001112 1835 GTEx DepMap Descartes 0.00 0.00
CALCRL -0.0001194 1951 GTEx DepMap Descartes 0.00 0.00
BTNL9 -0.0001280 2088 GTEx DepMap Descartes 0.00 0.00
SHE -0.0001299 2113 GTEx DepMap Descartes 0.00 0.00
TEK -0.0001315 2137 GTEx DepMap Descartes 0.00 0.00
KANK3 -0.0001383 2225 GTEx DepMap Descartes 0.00 0.00
MMRN2 -0.0001561 2488 GTEx DepMap Descartes 0.00 0.00
ROBO4 -0.0001624 2584 GTEx DepMap Descartes 0.00 0.00
CLDN5 -0.0001662 2638 GTEx DepMap Descartes 0.00 0.00
CDH5 -0.0001712 2721 GTEx DepMap Descartes 0.00 0.00
RASIP1 -0.0001885 2943 GTEx DepMap Descartes 0.00 0.00
EHD3 -0.0002094 3228 GTEx DepMap Descartes 0.04 0.55
CEACAM1 -0.0002188 3364 GTEx DepMap Descartes 0.02 1.63
F8 -0.0002225 3402 GTEx DepMap Descartes 0.00 0.00
PODXL -0.0002320 3543 GTEx DepMap Descartes 0.06 1.05
TMEM88 -0.0002466 3775 GTEx DepMap Descartes 0.00 0.00
IRX3 -0.0002737 4173 GTEx DepMap Descartes 0.00 0.00
ID1 -0.0002822 4299 GTEx DepMap Descartes 0.06 9.70


Descartes stromal markers
Top 50 marker genes of stromal cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/stromal/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 5.70e-11
Mean rank of genes in gene set: 2760.14
Median rank of genes in gene set: 2156.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
RSPO3 0.0001221 258 GTEx DepMap Descartes 0.04 NA
POSTN 0.0000366 384 GTEx DepMap Descartes 0.00 0.00
MGP 0.0000192 415 GTEx DepMap Descartes 0.26 15.22
C7 0.0000074 448 GTEx DepMap Descartes 0.00 0.00
ABCC9 -0.0000258 678 GTEx DepMap Descartes 0.00 0.00
IGFBP3 -0.0000319 773 GTEx DepMap Descartes 0.00 0.00
LAMC3 -0.0000387 844 GTEx DepMap Descartes 0.00 0.00
ITGA11 -0.0000449 910 GTEx DepMap Descartes 0.00 0.00
SFRP2 -0.0000797 1372 GTEx DepMap Descartes 0.00 0.00
SCARA5 -0.0000938 1570 GTEx DepMap Descartes 0.00 0.00
LOX -0.0000939 1575 GTEx DepMap Descartes 0.02 1.12
DKK2 -0.0000990 1643 GTEx DepMap Descartes 0.00 0.00
EDNRA -0.0001077 1766 GTEx DepMap Descartes 0.00 0.00
ADAMTSL3 -0.0001088 1786 GTEx DepMap Descartes 0.00 0.00
COL6A3 -0.0001091 1790 GTEx DepMap Descartes 0.00 0.00
PRRX1 -0.0001100 1807 GTEx DepMap Descartes 0.00 0.00
COL27A1 -0.0001101 1813 GTEx DepMap Descartes 0.00 0.00
GLI2 -0.0001106 1822 GTEx DepMap Descartes 0.00 0.00
CCDC80 -0.0001199 1958 GTEx DepMap Descartes 0.32 2.53
GAS2 -0.0001213 1990 GTEx DepMap Descartes 0.00 0.00
PAMR1 -0.0001263 2069 GTEx DepMap Descartes 0.00 0.00
LRRC17 -0.0001314 2134 GTEx DepMap Descartes 0.02 0.74
ISLR -0.0001347 2179 GTEx DepMap Descartes 0.00 0.00
ABCA6 -0.0001454 2336 GTEx DepMap Descartes 0.00 0.00
BICC1 -0.0001518 2425 GTEx DepMap Descartes 0.04 0.73
OGN -0.0001564 2493 GTEx DepMap Descartes 0.02 0.61
LUM -0.0001580 2511 GTEx DepMap Descartes 0.02 1.43
PCDH18 -0.0001632 2591 GTEx DepMap Descartes 0.00 0.00
COL1A1 -0.0001661 2633 GTEx DepMap Descartes 0.15 2.48
DCN -0.0001710 2719 GTEx DepMap Descartes 0.11 1.53


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: 1.25e-01
Mean rank of genes in gene set: 5599.39
Median rank of genes in gene set: 4701
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
DGKK -0.0000526 1001 GTEx DepMap Descartes 0.02 0.51
KSR2 -0.0000635 1153 GTEx DepMap Descartes 0.06 0.51
PENK -0.0000813 1392 GTEx DepMap Descartes 0.00 0.00
ST18 -0.0000956 1602 GTEx DepMap Descartes 0.00 0.00
PCSK2 -0.0001637 2603 GTEx DepMap Descartes 0.02 0.29
SORCS3 -0.0001775 2815 GTEx DepMap Descartes 0.00 0.00
CNTN3 -0.0001778 2820 GTEx DepMap Descartes 0.02 0.22
LAMA3 -0.0001865 2916 GTEx DepMap Descartes 0.00 0.00
SLC35F3 -0.0001895 2955 GTEx DepMap Descartes 0.00 0.00
TENM1 -0.0001922 3000 GTEx DepMap Descartes 0.06 NA
TBX20 -0.0001996 3108 GTEx DepMap Descartes 0.00 0.00
GRM7 -0.0002104 3242 GTEx DepMap Descartes 0.00 0.00
TIAM1 -0.0002274 3481 GTEx DepMap Descartes 0.04 1.66
SLC24A2 -0.0002305 3525 GTEx DepMap Descartes 0.00 0.00
CDH12 -0.0002442 3734 GTEx DepMap Descartes 0.00 0.00
CDH18 -0.0002493 3811 GTEx DepMap Descartes 0.00 0.00
SLC18A1 -0.0002941 4493 GTEx DepMap Descartes 0.11 4.91
EML6 -0.0002984 4565 GTEx DepMap Descartes 0.02 0.11
GALNTL6 -0.0002999 4589 GTEx DepMap Descartes 0.00 0.00
CCSER1 -0.0003161 4813 GTEx DepMap Descartes 0.00 NA
AGBL4 -0.0003199 4874 GTEx DepMap Descartes 0.04 0.57
MGAT4C -0.0003810 5769 GTEx DepMap Descartes 0.11 0.32
FGF14 -0.0003959 6015 GTEx DepMap Descartes 0.13 1.73
NTNG1 -0.0004387 6641 GTEx DepMap Descartes 0.00 0.00
SPOCK3 -0.0004395 6653 GTEx DepMap Descartes 0.00 0.00
GRID2 -0.0004492 6804 GTEx DepMap Descartes 0.00 0.00
PACRG -0.0004666 7029 GTEx DepMap Descartes 0.00 0.00
FAM155A -0.0005196 7801 GTEx DepMap Descartes 0.11 1.80
UNC80 -0.0005518 8184 GTEx DepMap Descartes 0.04 0.19
CHGA -0.0005692 8363 GTEx DepMap Descartes 2.17 113.77


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: 2.66e-12
Mean rank of genes in gene set: 1640.83
Median rank of genes in gene set: 274
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ALAS2 0.0642696 1 GTEx DepMap Descartes 10.13 555.57
SELENBP1 0.0274233 2 GTEx DepMap Descartes 1.11 34.19
SLC25A37 0.0265062 3 GTEx DepMap Descartes 6.62 151.57
SLC4A1 0.0203923 5 GTEx DepMap Descartes 0.57 10.08
SNCA 0.0119594 9 GTEx DepMap Descartes 4.38 137.78
RHD 0.0081725 13 GTEx DepMap Descartes 0.09 3.24
GYPC 0.0066174 17 GTEx DepMap Descartes 4.53 296.75
BLVRB 0.0060679 19 GTEx DepMap Descartes 2.87 205.16
FECH 0.0018103 51 GTEx DepMap Descartes 0.21 3.63
CAT 0.0017772 52 GTEx DepMap Descartes 0.36 12.36
ANK1 0.0011899 61 GTEx DepMap Descartes 0.32 3.66
MICAL2 0.0007364 84 GTEx DepMap Descartes 0.06 1.38
TMCC2 0.0005207 107 GTEx DepMap Descartes 0.15 3.41
MARCH3 0.0001937 195 GTEx DepMap Descartes 0.04 NA
GCLC 0.0001078 274 GTEx DepMap Descartes 0.13 1.97
CPOX 0.0000945 292 GTEx DepMap Descartes 0.09 2.18
EPB41 0.0000510 356 GTEx DepMap Descartes 0.32 4.78
SLC25A21 -0.0000239 649 GTEx DepMap Descartes 0.00 0.00
SPECC1 -0.0000311 761 GTEx DepMap Descartes 0.09 1.54
TFR2 -0.0000604 1106 GTEx DepMap Descartes 0.26 5.27
RGS6 -0.0000890 1501 GTEx DepMap Descartes 0.00 0.00
XPO7 -0.0001605 2554 GTEx DepMap Descartes 0.06 1.52
TSPAN5 -0.0001807 2852 GTEx DepMap Descartes 0.45 11.52
SOX6 -0.0002589 3958 GTEx DepMap Descartes 0.00 0.00
ABCB10 -0.0002954 4519 GTEx DepMap Descartes 0.02 0.30
TRAK2 -0.0003423 5202 GTEx DepMap Descartes 0.13 1.79
SPTB -0.0003710 5614 GTEx DepMap Descartes 0.00 0.00
RAPGEF2 -0.0005746 8429 GTEx DepMap Descartes 0.04 1.32
DENND4A -0.0006155 8898 GTEx DepMap Descartes 0.09 0.68
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: 5.98e-02
Mean rank of genes in gene set: 5361.5
Median rank of genes in gene set: 5076
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SFMBT2 0.0000502 357 GTEx DepMap Descartes 0.04 0.40
FGD2 -0.0001656 2629 GTEx DepMap Descartes 0.02 0.20
MERTK -0.0001752 2781 GTEx DepMap Descartes 0.00 0.00
CPVL -0.0001869 2923 GTEx DepMap Descartes 0.02 0.52
ATP8B4 -0.0002098 3233 GTEx DepMap Descartes 0.00 0.00
FGL2 -0.0002245 3434 GTEx DepMap Descartes 0.02 0.42
MS4A4A -0.0002285 3491 GTEx DepMap Descartes 0.00 0.00
SLC1A3 -0.0002288 3498 GTEx DepMap Descartes 0.00 0.00
HRH1 -0.0002301 3516 GTEx DepMap Descartes 0.00 0.00
PTPRE -0.0002454 3751 GTEx DepMap Descartes 0.04 0.72
SLC9A9 -0.0002488 3801 GTEx DepMap Descartes 0.00 0.00
CD163 -0.0002693 4109 GTEx DepMap Descartes 0.00 0.00
MARCH1 -0.0002824 4303 GTEx DepMap Descartes 0.02 NA
CYBB -0.0002825 4308 GTEx DepMap Descartes 0.02 0.44
SLCO2B1 -0.0002848 4347 GTEx DepMap Descartes 0.00 0.00
CSF1R -0.0002864 4370 GTEx DepMap Descartes 0.00 0.00
RGL1 -0.0002936 4484 GTEx DepMap Descartes 0.00 0.00
ADAP2 -0.0003225 4910 GTEx DepMap Descartes 0.02 1.33
AXL -0.0003328 5061 GTEx DepMap Descartes 0.00 0.00
ITPR2 -0.0003353 5091 GTEx DepMap Descartes 0.06 0.69
SPP1 -0.0003415 5189 GTEx DepMap Descartes 0.91 59.39
ABCA1 -0.0003493 5306 GTEx DepMap Descartes 0.06 0.85
HCK -0.0003516 5325 GTEx DepMap Descartes 0.00 0.00
MSR1 -0.0003538 5354 GTEx DepMap Descartes 0.00 0.00
CD14 -0.0003577 5404 GTEx DepMap Descartes 0.02 1.70
LGMN -0.0003899 5912 GTEx DepMap Descartes 0.06 2.84
TGFBI -0.0004148 6275 GTEx DepMap Descartes 0.02 0.83
CTSC -0.0004391 6646 GTEx DepMap Descartes 0.09 1.01
CTSS -0.0004495 6808 GTEx DepMap Descartes 0.04 0.89
CTSB -0.0004502 6821 GTEx DepMap Descartes 0.49 14.28


Descartes Schwann markers
Top 50 marker genes of Schwann cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/schwann/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.19e-01
Mean rank of genes in gene set: 5852.3
Median rank of genes in gene set: 4920.5
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
IL1RAPL2 -0.0000116 509 GTEx DepMap Descartes 0.00 0.00
HMGA2 -0.0000637 1155 GTEx DepMap Descartes 0.00 0.00
PTPRZ1 -0.0000965 1615 GTEx DepMap Descartes 0.00 0.00
ADAMTS5 -0.0001241 2034 GTEx DepMap Descartes 0.00 0.00
MDGA2 -0.0001293 2104 GTEx DepMap Descartes 0.00 0.00
IL1RAPL1 -0.0001414 2277 GTEx DepMap Descartes 0.00 0.00
MPZ -0.0001606 2556 GTEx DepMap Descartes 0.04 4.03
OLFML2A -0.0001679 2667 GTEx DepMap Descartes 0.00 0.00
TRPM3 -0.0001773 2813 GTEx DepMap Descartes 0.00 0.00
STARD13 -0.0001787 2830 GTEx DepMap Descartes 0.00 0.00
GRIK3 -0.0001842 2893 GTEx DepMap Descartes 0.00 0.00
ERBB4 -0.0001921 2997 GTEx DepMap Descartes 0.02 0.17
EDNRB -0.0002048 3166 GTEx DepMap Descartes 0.00 0.00
NRXN3 -0.0002219 3399 GTEx DepMap Descartes 0.00 0.00
ERBB3 -0.0002270 3474 GTEx DepMap Descartes 0.00 0.00
COL25A1 -0.0002365 3609 GTEx DepMap Descartes 0.00 0.00
PLP1 -0.0002413 3688 GTEx DepMap Descartes 0.00 0.00
COL5A2 -0.0002547 3892 GTEx DepMap Descartes 0.00 0.00
COL18A1 -0.0002548 3893 GTEx DepMap Descartes 0.11 1.55
XKR4 -0.0002855 4354 GTEx DepMap Descartes 0.06 0.39
PLCE1 -0.0003000 4593 GTEx DepMap Descartes 0.00 0.00
EGFLAM -0.0003152 4802 GTEx DepMap Descartes 0.00 0.00
SLC35F1 -0.0003315 5039 GTEx DepMap Descartes 0.02 0.76
LRRTM4 -0.0003387 5146 GTEx DepMap Descartes 0.02 0.43
GAS7 -0.0003645 5512 GTEx DepMap Descartes 0.00 0.00
LAMC1 -0.0004014 6090 GTEx DepMap Descartes 0.00 0.00
SORCS1 -0.0004276 6479 GTEx DepMap Descartes 0.13 2.64
SCN7A -0.0004289 6493 GTEx DepMap Descartes 0.06 1.07
KCTD12 -0.0004784 7201 GTEx DepMap Descartes 0.02 0.34
LAMA4 -0.0004829 7264 GTEx DepMap Descartes 0.09 1.16


Descartes Megakaryocytes markers
Top 50 marker genes of Megakaryocytes cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/megakaryocytes/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.60e-01
Mean rank of genes in gene set: 5739.91
Median rank of genes in gene set: 4670
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
TUBB1 0.0022514 44 GTEx DepMap Descartes 0.00 0.00
STOM 0.0011883 62 GTEx DepMap Descartes 0.21 5.82
GP1BA -0.0000198 592 GTEx DepMap Descartes 0.00 0.00
ITGB3 -0.0000617 1125 GTEx DepMap Descartes 0.00 0.00
MMRN1 -0.0000771 1338 GTEx DepMap Descartes 0.00 0.00
SPN -0.0001062 1749 GTEx DepMap Descartes 0.13 0.95
SLC24A3 -0.0001103 1816 GTEx DepMap Descartes 0.00 0.00
P2RX1 -0.0001146 1882 GTEx DepMap Descartes 0.00 0.00
TRPC6 -0.0001216 1992 GTEx DepMap Descartes 0.00 0.00
ARHGAP6 -0.0001425 2292 GTEx DepMap Descartes 0.00 0.00
ANGPT1 -0.0001703 2708 GTEx DepMap Descartes 0.00 0.00
CD84 -0.0001926 3010 GTEx DepMap Descartes 0.04 0.68
FLI1 -0.0002119 3261 GTEx DepMap Descartes 0.00 0.00
ITGA2B -0.0002158 3315 GTEx DepMap Descartes 0.00 0.00
UBASH3B -0.0002250 3443 GTEx DepMap Descartes 0.04 0.36
PLEK -0.0002572 3925 GTEx DepMap Descartes 0.02 0.69
MED12L -0.0002652 4050 GTEx DepMap Descartes 0.00 0.00
LTBP1 -0.0002655 4051 GTEx DepMap Descartes 0.00 0.00
INPP4B -0.0002680 4084 GTEx DepMap Descartes 0.11 1.46
GSN -0.0002767 4212 GTEx DepMap Descartes 0.04 0.98
MYLK -0.0002805 4268 GTEx DepMap Descartes 0.06 0.63
THBS1 -0.0002878 4398 GTEx DepMap Descartes 0.06 0.81
RAB27B -0.0003050 4670 GTEx DepMap Descartes 0.04 1.05
MCTP1 -0.0003052 4674 GTEx DepMap Descartes 0.00 0.00
PSTPIP2 -0.0003118 4753 GTEx DepMap Descartes 0.02 0.38
PDE3A -0.0003145 4791 GTEx DepMap Descartes 0.00 0.00
MYH9 -0.0004176 6327 GTEx DepMap Descartes 0.19 2.72
STON2 -0.0004386 6638 GTEx DepMap Descartes 0.02 0.25
DOK6 -0.0005052 7575 GTEx DepMap Descartes 0.00 0.00
TLN1 -0.0005160 7740 GTEx DepMap Descartes 0.15 1.09


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: 8120.62
Median rank of genes in gene set: 7928
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SP100 -0.0000915 1532 GTEx DepMap Descartes 0.19 3.27
PLEKHA2 -0.0001098 1804 GTEx DepMap Descartes 0.09 1.65
ITPKB -0.0002059 3179 GTEx DepMap Descartes 0.02 0.29
SAMD3 -0.0002455 3754 GTEx DepMap Descartes 0.00 0.00
MCTP2 -0.0002791 4244 GTEx DepMap Descartes 0.02 1.02
CCL5 -0.0003485 5298 GTEx DepMap Descartes 0.13 6.36
LEF1 -0.0003729 5645 GTEx DepMap Descartes 0.09 3.14
ETS1 -0.0003875 5875 GTEx DepMap Descartes 0.06 1.89
BACH2 -0.0003919 5945 GTEx DepMap Descartes 0.04 0.29
RAP1GAP2 -0.0003955 6003 GTEx DepMap Descartes 0.17 2.24
SKAP1 -0.0004116 6234 GTEx DepMap Descartes 0.02 2.61
PDE3B -0.0004455 6743 GTEx DepMap Descartes 0.04 1.14
SCML4 -0.0004643 6999 GTEx DepMap Descartes 0.06 1.56
PITPNC1 -0.0004681 7045 GTEx DepMap Descartes 0.06 1.48
WIPF1 -0.0004773 7192 GTEx DepMap Descartes 0.09 1.37
DOCK10 -0.0004805 7240 GTEx DepMap Descartes 0.02 0.21
PRKCH -0.0004857 7307 GTEx DepMap Descartes 0.02 0.32
IKZF1 -0.0004876 7328 GTEx DepMap Descartes 0.00 0.00
LCP1 -0.0004947 7427 GTEx DepMap Descartes 0.11 3.62
ARID5B -0.0005170 7756 GTEx DepMap Descartes 0.09 1.94
ARHGAP15 -0.0005299 7915 GTEx DepMap Descartes 0.02 1.28
RCSD1 -0.0005313 7941 GTEx DepMap Descartes 0.02 0.20
MBNL1 -0.0005349 7993 GTEx DepMap Descartes 0.09 1.63
ABLIM1 -0.0005358 8003 GTEx DepMap Descartes 0.11 1.27
PTPRC -0.0006096 8812 GTEx DepMap Descartes 0.06 1.08
TOX -0.0006283 9025 GTEx DepMap Descartes 0.06 2.79
ANKRD44 -0.0006804 9536 GTEx DepMap Descartes 0.00 0.00
CCND3 -0.0006822 9552 GTEx DepMap Descartes 0.19 8.25
MSN -0.0006941 9655 GTEx DepMap Descartes 0.06 0.79
SORL1 -0.0007319 9934 GTEx DepMap Descartes 0.04 0.47


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.


Erythroid: Early erythroid (model markers)
early erythroid cells which are committed to erythroid lineage cells:
Wilcoxon ranksum test P-value for gene set overrepresentation: 4.45e-03
Mean rank of genes in gene set: 1536.75
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
FAM178B 0.0037072 31 GTEx DepMap Descartes 0.77 15.39
PRSS57 0.0001323 250 GTEx DepMap Descartes 0.09 4.23
CD207 -0.0000938 1572 GTEx DepMap Descartes 0.00 0.00
APOC1 -0.0002817 4294 GTEx DepMap Descartes 1.32 151.21


B-cell lineage: Small pre-B cells (model markers)
non-proliferative B lymphocyte precursors derived from Pro-B cells and expressing membrane μ chains with surrogate light chains in their receptors:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.11e-02
Mean rank of genes in gene set: 2135.5
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
TLDC2 -0.0000188 579 GTEx DepMap Descartes 0.00 NA
AICDA -0.0000862 1470 GTEx DepMap Descartes 0.00 0.00
CD207 -0.0000938 1572 GTEx DepMap Descartes 0.00 0.00
CD79B -0.0003234 4921 GTEx DepMap Descartes 0.11 10.69


Fibroblasts: Fibroblasts (model markers)
the most common cells of connective tissues which synthesize the extracellular matrix and collagen to maintain tissue homeostasis:
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.12e-02
Mean rank of genes in gene set: 3520
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
OLFML1 -0.0000253 668 GTEx DepMap Descartes 0.00 0.00
SMOC2 -0.0000743 1304 GTEx DepMap Descartes 0.02 0.66
F10 -0.0000873 1481 GTEx DepMap Descartes 0.00 0.00
ANGPTL1 -0.0001017 1680 GTEx DepMap Descartes 0.00 0.00
PRRX1 -0.0001100 1807 GTEx DepMap Descartes 0.00 0.00
EBF2 -0.0001461 2345 GTEx DepMap Descartes 0.00 0.00
NTRK2 -0.0003128 4769 GTEx DepMap Descartes 0.13 3.19
PDGFRA -0.0004159 6299 GTEx DepMap Descartes 0.04 0.57
SFRP1 -0.0010012 11327 GTEx DepMap Descartes 0.02 1.27