Program: 24. Plasma Cells.

Program: 24. Plasma Cells.


Program description and justification of annotation generated by GPT5: Plasma cells/Plasmablasts - immunoglobulin secretion with ER stress-UPR.

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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 IGKC 0.0438481 immunoglobulin kappa constant GTEx DepMap Descartes 108.65 94481.56
2 IGHG1 0.0406453 immunoglobulin heavy constant gamma 1 (G1m marker) GTEx DepMap Descartes 22.49 6652.54
3 IGHG4 0.0249599 immunoglobulin heavy constant gamma 4 (G4m marker) GTEx DepMap Descartes 11.32 4477.27
4 IGHGP 0.0234022 immunoglobulin heavy constant gamma P (non-functional) GTEx DepMap Descartes 5.66 2801.93
5 JCHAIN 0.0199077 joining chain of multimeric IgA and IgM GTEx DepMap Descartes 2.23 NA
6 IGLC2 0.0169230 immunoglobulin lambda constant 2 GTEx DepMap Descartes 14.57 25617.59
7 IGLV3-1 0.0138209 immunoglobulin lambda variable 3-1 GTEx DepMap Descartes 0.12 202.46
8 IGHA1 0.0135419 immunoglobulin heavy constant alpha 1 GTEx DepMap Descartes 4.47 3125.55
9 IGHG3 0.0132682 immunoglobulin heavy constant gamma 3 (G3m marker) GTEx DepMap Descartes 15.35 6072.82
10 IGLC3 0.0131358 immunoglobulin lambda constant 3 (Kern-Oz+ marker) GTEx DepMap Descartes 8.22 16356.00
11 TENT5C 0.0130049 terminal nucleotidyltransferase 5C GTEx DepMap Descartes 2.14 NA
12 IGHG2 0.0126238 immunoglobulin heavy constant gamma 2 (G2m marker) GTEx DepMap Descartes 2.46 695.09
13 IGHV1-14 0.0125177 immunoglobulin heavy variable 1-14 (pseudogene) GTEx DepMap Descartes 0.00 0.62
14 MZB1 0.0117065 marginal zone B and B1 cell specific protein GTEx DepMap Descartes 1.42 NA
15 IGKV3-20 0.0106847 immunoglobulin kappa variable 3-20 GTEx DepMap Descartes 0.10 138.58
16 POU2AF1 0.0097827 POU class 2 homeobox associating factor 1 GTEx DepMap Descartes 1.47 436.21
17 IGLL5 0.0095521 immunoglobulin lambda like polypeptide 5 GTEx DepMap Descartes 1.16 834.49
18 XBP1 0.0091796 X-box binding protein 1 GTEx DepMap Descartes 2.61 965.03
19 IGHM 0.0089182 immunoglobulin heavy constant mu GTEx DepMap Descartes 6.61 3077.02
20 IGKV1-39 0.0082200 immunoglobulin kappa variable 1-39 GTEx DepMap Descartes 0.09 227.27
21 IGHA2 0.0081830 immunoglobulin heavy constant alpha 2 (A2m marker) GTEx DepMap Descartes 2.04 948.12
22 DERL3 0.0081778 derlin 3 GTEx DepMap Descartes 0.46 103.37
23 IGHV3-7 0.0079480 immunoglobulin heavy variable 3-7 GTEx DepMap Descartes 0.13 271.88
24 IGKV1D-33 0.0073166 immunoglobulin kappa variable 1D-33 GTEx DepMap Descartes 0.01 1.95
25 PIM2 0.0071512 Pim-2 proto-oncogene, serine/threonine kinase GTEx DepMap Descartes 0.73 265.63
26 IGHV3-23 0.0070322 immunoglobulin heavy variable 3-23 GTEx DepMap Descartes 0.07 164.87
27 IRF4 0.0066748 interferon regulatory factor 4 GTEx DepMap Descartes 0.90 152.97
28 IGHV3-15 0.0063004 immunoglobulin heavy variable 3-15 GTEx DepMap Descartes 0.12 258.16
29 HERPUD1 0.0062119 homocysteine inducible ER protein with ubiquitin like domain 1 GTEx DepMap Descartes 2.78 763.36
30 HSH2D 0.0058569 hematopoietic SH2 domain containing GTEx DepMap Descartes 1.02 378.89
31 SLAMF7 0.0057639 SLAM family member 7 GTEx DepMap Descartes 0.64 159.55
32 TP53INP1 0.0056849 tumor protein p53 inducible nuclear protein 1 GTEx DepMap Descartes 1.65 234.89
33 IGKV4-1 0.0056004 immunoglobulin kappa variable 4-1 GTEx DepMap Descartes 0.07 106.80
34 ZNF215 0.0054170 zinc finger protein 215 GTEx DepMap Descartes 0.45 90.61
35 IGLV2-23 0.0053041 immunoglobulin lambda variable 2-23 GTEx DepMap Descartes 0.04 61.44
36 PRDM1 0.0052563 PR/SET domain 1 GTEx DepMap Descartes 1.27 201.53
37 LAX1 0.0052157 lymphocyte transmembrane adaptor 1 GTEx DepMap Descartes 0.43 119.82
38 STAP1 0.0050182 signal transducing adaptor family member 1 GTEx DepMap Descartes 0.36 151.23
39 IGKV1-9 0.0048718 immunoglobulin kappa variable 1-9 GTEx DepMap Descartes 0.02 23.31
40 IGHV1-18 0.0048090 immunoglobulin heavy variable 1-18 GTEx DepMap Descartes 0.04 131.31
41 GNG7 0.0048006 G protein subunit gamma 7 GTEx DepMap Descartes 2.41 549.11
42 SEL1L3 0.0047400 SEL1L family member 3 GTEx DepMap Descartes 2.72 530.93
43 IGHV3-73 0.0045673 immunoglobulin heavy variable 3-73 GTEx DepMap Descartes 0.08 172.65
44 IGHV3-11 0.0044477 immunoglobulin heavy variable 3-11 GTEx DepMap Descartes 0.02 50.15
45 IGLV2-14 0.0044303 immunoglobulin lambda variable 2-14 GTEx DepMap Descartes 0.03 40.04
46 TXNDC11 0.0043814 thioredoxin domain containing 11 GTEx DepMap Descartes 1.82 481.32
47 FCRL5 0.0043296 Fc receptor like 5 GTEx DepMap Descartes 0.79 116.57
48 IGKV1-27 0.0042295 immunoglobulin kappa variable 1-27 GTEx DepMap Descartes 0.02 17.52
49 PIK3CG 0.0041919 phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma GTEx DepMap Descartes 0.65 75.21
50 FBXW7 0.0039972 F-box and WD repeat domain containing 7 GTEx DepMap Descartes 6.04 881.72


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UMAP plots showing activity of gene expression program identified in GEP 24. Plasma Cells:

Interactive UMAP Plot
Interactive UMAP Plot

Boxlot showing activity of gene expression program identified in GEP 24. Plasma Cells:
Interactive Boxplot
Interactive Boxplot

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
DURANTE_ADULT_OLFACTORY_NEUROEPITHELIUM_PLASMA_CELLS 2.88e-27 708.89 257.76 9.66e-25 1.93e-24
12IGKC, IGHG1, IGHG4, JCHAIN, IGLC2, IGHA1, IGHG3, IGLC3, MZB1, IGHA2, DERL3, HERPUD1
 21
AIZARANI_LIVER_C38_RESIDENT_B_CELLS_3 1.08e-18 322.50 115.58 1.45e-16 7.26e-16
9JCHAIN, TENT5C, MZB1, POU2AF1, XBP1, DERL3, HERPUD1, SLAMF7, FCRL5
 23
HAY_BONE_MARROW_PLASMA_CELL 4.12e-45 211.92 113.89 2.76e-42 2.76e-42
26IGKC, IGHG1, IGHG4, IGHGP, JCHAIN, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, MZB1, IGKV3-20, IGLL5, XBP1, IGHM, IGKV1-39, IGHA2, DERL3, IGHV3-7, IGHV3-23, HERPUD1, SLAMF7, IGKV4-1, IGLV2-14, TXNDC11, FCRL5
 130
AIZARANI_LIVER_C8_RESIDENT_B_CELLS_1 4.72e-19 205.25 81.94 7.92e-17 3.17e-16
10JCHAIN, TENT5C, MZB1, POU2AF1, XBP1, DERL3, HERPUD1, SLAMF7, SEL1L3, FCRL5
 35
AIZARANI_LIVER_C22_RESIDENT_B_CELLS_2 8.80e-15 155.38 57.37 9.85e-13 5.91e-12
8TENT5C, MZB1, POU2AF1, XBP1, DERL3, HERPUD1, SLAMF7, FCRL5
 33
DESCARTES_FETAL_PLACENTA_LYMPHOID_CELLS 7.07e-25 82.52 42.02 1.58e-22 4.74e-22
17IGKC, IGHG1, IGHG4, IGHGP, JCHAIN, IGHA1, IGHG3, MZB1, POU2AF1, IGLL5, IGHM, PIM2, IRF4, ZNF215, LAX1, STAP1, FCRL5
 145
DESCARTES_MAIN_FETAL_LYMPHOID_CELLS 3.66e-12 34.90 15.27 3.07e-10 2.46e-09
10IGKC, IGHG1, IGHG4, IGHGP, JCHAIN, IGHG3, IGLC3, IGLL5, IGHM, STAP1
 157
DESCARTES_FETAL_LIVER_LYMPHOID_CELLS 6.10e-10 33.40 13.25 4.09e-08 4.09e-07
8IGKC, JCHAIN, POU2AF1, IGLL5, IGHM, IRF4, LAX1, FCRL5
 125
DESCARTES_FETAL_ADRENAL_LYMPHOID_CELLS 1.74e-10 29.26 12.28 1.29e-08 1.16e-07
9IGKC, JCHAIN, MZB1, IGHM, IRF4, HSH2D, SLAMF7, LAX1, FCRL5
 163
DESCARTES_FETAL_SPLEEN_LYMPHOID_CELLS 1.88e-08 28.56 10.62 1.05e-06 1.26e-05
7IGKC, MZB1, POU2AF1, IGLL5, IGHM, STAP1, FCRL5
 124
DESCARTES_FETAL_LUNG_LYMPHOID_CELLS 3.69e-09 26.22 10.46 2.25e-07 2.48e-06
8IGKC, JCHAIN, MZB1, IGLL5, IGHM, LAX1, STAP1, FCRL5
 157
GAO_LARGE_INTESTINE_ADULT_CI_MESENCHYMAL_CELLS 1.91e-12 20.73 10.02 1.83e-10 1.28e-09
13MZB1, POU2AF1, IGLL5, DERL3, IRF4, SLAMF7, TP53INP1, PRDM1, LAX1, STAP1, GNG7, FCRL5, PIK3CG
 361
DESCARTES_FETAL_PANCREAS_LYMPHOID_CELLS 2.65e-06 17.71 6.08 1.37e-04 1.78e-03
6IGLC2, IGLC3, POU2AF1, IGHM, ZNF215, LAX1
 164
TRAVAGLINI_LUNG_B_CELL 3.53e-05 15.21 4.65 1.69e-03 2.37e-02
5POU2AF1, HSH2D, STAP1, GNG7, SEL1L3
 155
DESCARTES_FETAL_HEART_LYMPHOID_CELLS 1.44e-04 16.85 4.33 6.45e-03 9.67e-02
4IGKC, JCHAIN, POU2AF1, FCRL5
 110
DESCARTES_FETAL_THYMUS_ANTIGEN_PRESENTING_CELLS 7.79e-04 10.63 2.75 3.07e-02 5.23e-01
4IGKC, IGHM, SLAMF7, FCRL5
 172
ZHENG_CORD_BLOOD_C8_PUTATIVE_LYMPHOID_PRIMED_MULTIPOTENT_PROGENITOR_2 1.67e-03 13.94 2.73 5.56e-02 1.00e+00
3MZB1, IGHM, HSH2D
 97
ZHENG_CORD_BLOOD_C10_MULTILYMPHOID_PROGENITOR 1.67e-03 13.94 2.73 5.56e-02 1.00e+00
3JCHAIN, MZB1, IGHM
 97
AIZARANI_LIVER_C28_NK_NKT_CELLS_6 1.77e-03 13.65 2.67 5.56e-02 1.00e+00
3TENT5C, PIM2, PRDM1
 99
FAN_EMBRYONIC_CTX_BRAIN_B_CELL 1.82e-03 13.51 2.64 5.56e-02 1.00e+00
3MZB1, IGLL5, PIM2
 100

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mSigDB Hallmark Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
HALLMARK_UNFOLDED_PROTEIN_RESPONSE 3.05e-02 7.71 0.90 1.00e+00 1.00e+00
2XBP1, HERPUD1
 113
HALLMARK_IL2_STAT5_SIGNALING 8.29e-02 4.34 0.51 1.00e+00 1.00e+00
2XBP1, IRF4
 199
HALLMARK_INTERFERON_GAMMA_RESPONSE 8.36e-02 4.32 0.51 1.00e+00 1.00e+00
2IRF4, SLAMF7
 200
HALLMARK_CHOLESTEROL_HOMEOSTASIS 1.64e-01 5.74 0.14 1.00e+00 1.00e+00
1TP53INP1
 74
HALLMARK_ESTROGEN_RESPONSE_EARLY 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1XBP1
 200
HALLMARK_ESTROGEN_RESPONSE_LATE 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1XBP1
 200
HALLMARK_COMPLEMENT 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1PIK3CG
 200
HALLMARK_MTORC1_SIGNALING 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1XBP1
 200
HALLMARK_P53_PATHWAY 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1FBXW7
 200
HALLMARK_HEME_METABOLISM 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1TENT5C
 200
HALLMARK_ALLOGRAFT_REJECTION 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1IRF4
 200
HALLMARK_KRAS_SIGNALING_UP 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1PRDM1
 200
HALLMARK_KRAS_SIGNALING_DN 3.84e-01 2.11 0.05 1.00e+00 1.00e+00
1TENT5C
 200
HALLMARK_TNFA_SIGNALING_VIA_NFKB 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 200
HALLMARK_HYPOXIA 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
HALLMARK_TGF_BETA_SIGNALING 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 54
HALLMARK_IL6_JAK_STAT3_SIGNALING 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 87
HALLMARK_DNA_REPAIR 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 150

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KEGG Pathways:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
KEGG_ACUTE_MYELOID_LEUKEMIA 8.43e-03 15.55 1.79 1.00e+00 1.00e+00
2PIM2, PIK3CG
 57
KEGG_CHEMOKINE_SIGNALING_PATHWAY 7.59e-02 4.57 0.53 1.00e+00 1.00e+00
2GNG7, PIK3CG
 189
KEGG_ALDOSTERONE_REGULATED_SODIUM_REABSORPTION 9.70e-02 10.22 0.25 1.00e+00 1.00e+00
1PIK3CG
 42
KEGG_TYPE_II_DIABETES_MELLITUS 1.08e-01 9.11 0.22 1.00e+00 1.00e+00
1PIK3CG
 47
KEGG_MTOR_SIGNALING_PATHWAY 1.19e-01 8.21 0.20 1.00e+00 1.00e+00
1PIK3CG
 52
KEGG_ENDOMETRIAL_CANCER 1.19e-01 8.21 0.20 1.00e+00 1.00e+00
1PIK3CG
 52
KEGG_INOSITOL_PHOSPHATE_METABOLISM 1.23e-01 7.91 0.19 1.00e+00 1.00e+00
1PIK3CG
 54
KEGG_NON_SMALL_CELL_LUNG_CANCER 1.23e-01 7.91 0.19 1.00e+00 1.00e+00
1PIK3CG
 54
KEGG_COLORECTAL_CANCER 1.40e-01 6.87 0.17 1.00e+00 1.00e+00
1PIK3CG
 62
KEGG_GLIOMA 1.46e-01 6.55 0.16 1.00e+00 1.00e+00
1PIK3CG
 65
KEGG_RENAL_CELL_CARCINOMA 1.56e-01 6.07 0.15 1.00e+00 1.00e+00
1PIK3CG
 70
KEGG_PANCREATIC_CANCER 1.56e-01 6.07 0.15 1.00e+00 1.00e+00
1PIK3CG
 70
KEGG_MELANOMA 1.58e-01 5.99 0.15 1.00e+00 1.00e+00
1PIK3CG
 71
KEGG_CHRONIC_MYELOID_LEUKEMIA 1.62e-01 5.82 0.14 1.00e+00 1.00e+00
1PIK3CG
 73
KEGG_B_CELL_RECEPTOR_SIGNALING_PATHWAY 1.66e-01 5.66 0.14 1.00e+00 1.00e+00
1PIK3CG
 75
KEGG_PHOSPHATIDYLINOSITOL_SIGNALING_SYSTEM 1.68e-01 5.59 0.14 1.00e+00 1.00e+00
1PIK3CG
 76
KEGG_VEGF_SIGNALING_PATHWAY 1.68e-01 5.59 0.14 1.00e+00 1.00e+00
1PIK3CG
 76
KEGG_FC_EPSILON_RI_SIGNALING_PATHWAY 1.74e-01 5.37 0.13 1.00e+00 1.00e+00
1PIK3CG
 79
KEGG_SMALL_CELL_LUNG_CANCER 1.84e-01 5.05 0.12 1.00e+00 1.00e+00
1PIK3CG
 84
KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION 1.86e-01 4.99 0.12 1.00e+00 1.00e+00
1PIK3CG
 85

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CHR Positional Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
chr14q32 1.24e-12 16.58 8.36 3.43e-10 3.43e-10
15IGHG1, IGHG4, IGHGP, IGHA1, IGHG3, IGHG2, IGHV1-14, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, IGHV1-18, IGHV3-73, IGHV3-11
 546
chr2p11 5.70e-07 16.88 6.33 7.93e-05 1.59e-04
7IGKC, IGKV3-20, IGKV1-39, IGKV1D-33, IGKV4-1, IGKV1-9, IGKV1-27
 205
chr22q11 3.31e-05 8.87 3.34 3.07e-03 9.21e-03
7IGLC2, IGLV3-1, IGLC3, IGLL5, DERL3, IGLV2-23, IGLV2-14
 384
chr1q23 9.58e-02 3.98 0.47 1.00e+00 1.00e+00
2SLAMF7, FCRL5
 217
chr16q13 9.26e-02 10.74 0.26 1.00e+00 1.00e+00
1HERPUD1
 40
chr1p12 1.12e-01 8.73 0.21 1.00e+00 1.00e+00
1TENT5C
 49
chr19p13 7.03e-01 1.11 0.13 1.00e+00 1.00e+00
2HSH2D, GNG7
 773
chr6p25 1.80e-01 5.17 0.13 1.00e+00 1.00e+00
1IRF4
 82
chr6q21 2.47e-01 3.61 0.09 1.00e+00 1.00e+00
1PRDM1
 117
chr4p15 2.56e-01 3.46 0.09 1.00e+00 1.00e+00
1SEL1L3
 122
chr8q22 3.10e-01 2.76 0.07 1.00e+00 1.00e+00
1TP53INP1
 153
chr4q31 3.16e-01 2.69 0.07 1.00e+00 1.00e+00
1FBXW7
 157
chr11q23 3.91e-01 2.05 0.05 1.00e+00 1.00e+00
1POU2AF1
 205
chr22q12 4.03e-01 1.98 0.05 1.00e+00 1.00e+00
1XBP1
 213
chr7q22 4.03e-01 1.98 0.05 1.00e+00 1.00e+00
1PIK3CG
 213
chr1q32 4.74e-01 1.58 0.04 1.00e+00 1.00e+00
1LAX1
 266
chr5q31 5.00e-01 1.47 0.04 1.00e+00 1.00e+00
1MZB1
 287
chrXp11 5.90e-01 1.14 0.03 1.00e+00 1.00e+00
1PIM2
 370
chr16p13 6.25e-01 1.03 0.03 1.00e+00 1.00e+00
1TXNDC11
 407
chr1p13 1.00e+00 0.00 0.00 1.00e+00 1.00e+00
0
 205

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Transcription Factor Targets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
MAML1_TARGET_GENES 6.54e-03 5.80 1.51 1.00e+00 1.00e+00
4IGKC, MZB1, POU2AF1, TXNDC11
 312
RTAAACA_FREAC2_01 5.68e-03 3.59 1.36 1.00e+00 1.00e+00
7POU2AF1, IRF4, HSH2D, PRDM1, STAP1, PIK3CG, FBXW7
 938
E4BP4_01 1.64e-02 5.96 1.18 1.00e+00 1.00e+00
3HERPUD1, SEL1L3, FBXW7
 223
PU1_Q6 1.91e-02 5.63 1.11 1.00e+00 1.00e+00
3DERL3, STAP1, PIK3CG
 236
POU2AF1_TARGET_GENES 1.95e-02 3.06 1.06 1.00e+00 1.00e+00
6MZB1, IGKV3-20, POU2AF1, IGLL5, IGKV1-39, PIM2
 922
MEIS1_01 2.19e-02 5.33 1.05 1.00e+00 1.00e+00
3POU2AF1, PIM2, FBXW7
 249
FREAC3_01 2.37e-02 5.16 1.02 1.00e+00 1.00e+00
3HERPUD1, PRDM1, SEL1L3
 257
AAAYWAACM_HFH4_01 2.49e-02 5.06 1.00 1.00e+00 1.00e+00
3IRF4, PRDM1, STAP1
 262
STAT_Q6 2.54e-02 5.02 0.99 1.00e+00 1.00e+00
3IRF4, PRDM1, FBXW7
 264
OCT_C 2.69e-02 4.91 0.97 1.00e+00 1.00e+00
3JCHAIN, PIM2, PRDM1
 270
OCT1_Q6 2.74e-02 4.87 0.96 1.00e+00 1.00e+00
3JCHAIN, PIM2, PRDM1
 272
TERF1_TARGET_GENES 3.36e-02 4.49 0.89 1.00e+00 1.00e+00
3PRDM1, LAX1, STAP1
 295
RACTNNRTTTNC_UNKNOWN 3.94e-02 6.68 0.78 1.00e+00 1.00e+00
2POU2AF1, FBXW7
 130
HDAC4_TARGET_GENES 7.56e-02 2.64 0.69 1.00e+00 1.00e+00
4JCHAIN, XBP1, HSH2D, TXNDC11
 681
AR_01 5.63e-02 5.45 0.64 1.00e+00 1.00e+00
2PIM2, PRDM1
 159
CTTTGA_LEF1_Q2 2.08e-01 1.84 0.57 1.00e+00 1.00e+00
5POU2AF1, PIM2, PRDM1, PIK3CG, FBXW7
 1247
CREBP1_01 7.18e-02 4.73 0.55 1.00e+00 1.00e+00
2HERPUD1, FBXW7
 183
TGACAGNY_MEIS1_01 1.36e-01 2.11 0.55 1.00e+00 1.00e+00
4POU2AF1, PIM2, PRDM1, SEL1L3
 850
RGAGGAARY_PU1_Q6 1.23e-01 2.56 0.51 1.00e+00 1.00e+00
3POU2AF1, STAP1, PIK3CG
 515
TGGAAA_NFAT_Q4_01 4.42e-01 1.45 0.51 1.00e+00 1.00e+00
6POU2AF1, XBP1, PIM2, IRF4, PRDM1, FBXW7
 1934

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GO Biological Processes:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GOBP_HUMORAL_IMMUNE_RESPONSE_MEDIATED_BY_CIRCULATING_IMMUNOGLOBULIN 5.37e-39 151.23 80.89 4.02e-35 4.02e-35
24IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 149
GOBP_PHAGOCYTOSIS_RECOGNITION 1.57e-28 142.53 71.21 1.17e-25 1.17e-24
17IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, IGLL5, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, IGHV1-18, IGHV3-73, IGHV3-11
 91
GOBP_COMPLEMENT_ACTIVATION 1.81e-37 128.66 69.02 6.77e-34 1.35e-33
24IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 171
GOBP_REGULATION_OF_COMPLEMENT_ACTIVATION 9.62e-27 108.97 54.87 4.50e-24 7.20e-23
17IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGKV1-39, IGHV3-7, IGKV1D-33, IGHV3-23, IGKV4-1, IGLV2-23, IGHV3-11, IGLV2-14
 114
GOBP_B_CELL_RECEPTOR_SIGNALING_PATHWAY 6.57e-28 105.64 54.09 4.09e-25 4.91e-24
18IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, IGLL5, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, STAP1, IGHV1-18, IGHV3-73, IGHV3-11
 127
GOBP_B_CELL_MEDIATED_IMMUNITY 9.01e-35 97.10 52.37 1.69e-31 6.74e-31
24IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 219
GOBP_MEMBRANE_INVAGINATION 2.41e-27 97.70 50.11 1.29e-24 1.80e-23
18IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, IGLL5, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, STAP1, IGHV1-18, IGHV3-73, IGHV3-11
 136
GOBP_POSITIVE_REGULATION_OF_B_CELL_ACTIVATION 6.21e-27 92.10 47.44 3.10e-24 4.64e-23
18IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, IGLL5, XBP1, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, IGHV1-18, IGHV3-73, IGHV3-11
 143
GOBP_REGULATION_OF_HUMORAL_IMMUNE_RESPONSE 2.59e-25 87.79 44.65 8.79e-23 1.93e-21
17IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGKV1-39, IGHV3-7, IGKV1D-33, IGHV3-23, IGKV4-1, IGLV2-23, IGHV3-11, IGLV2-14
 137
GOBP_FC_RECEPTOR_MEDIATED_STIMULATORY_SIGNALING_PATHWAY 6.25e-25 83.17 42.33 2.03e-22 4.68e-21
17IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGKV1-39, IGHV3-7, IGKV1D-33, IGHV3-23, IGKV4-1, IGLV2-23, IGHV3-11, IGLV2-14
 144
GOBP_REGULATION_OF_B_CELL_ACTIVATION 1.14e-26 75.29 39.32 5.04e-24 8.56e-23
19IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, MZB1, IGLL5, XBP1, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, IGHV1-18, IGHV3-73, IGHV3-11
 186
GOBP_HUMORAL_IMMUNE_RESPONSE 1.11e-32 64.17 35.01 1.66e-29 8.30e-29
26IGKC, IGHG1, IGHG4, JCHAIN, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, POU2AF1, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 373
GOBP_LYMPHOCYTE_MEDIATED_IMMUNITY 1.49e-31 62.93 34.31 1.86e-28 1.12e-27
25IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, SLAMF7, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 351
GOBP_POSITIVE_REGULATION_OF_RESPIRATORY_BURST 1.12e-06 215.66 34.13 1.61e-04 8.37e-03
3JCHAIN, IGHA1, IGHA2
 9
GOBP_ADAPTIVE_IMMUNE_RESPONSE_BASED_ON_SOMATIC_RECOMBINATION_OF_IMMUNE_RECEPTORS_BUILT_FROM_IMMUNOGLOBULIN_SUPERFAMILY_DOMAINS 2.45e-31 61.65 33.59 2.61e-28 1.83e-27
25IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IRF4, IGHV3-15, IGKV4-1, IGLV2-23, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 358
GOBP_PHAGOCYTOSIS 7.30e-31 58.78 32.09 6.83e-28 5.46e-27
25IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, STAP1, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 374
GOBP_ADAPTIVE_IMMUNE_RESPONSE 1.32e-35 55.26 29.95 3.29e-32 9.87e-32
32IGKC, IGHG1, IGHG4, JCHAIN, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IRF4, IGHV3-15, SLAMF7, IGKV4-1, IGLV2-23, PRDM1, LAX1, IGKV1-9, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14, IGKV1-27, PIK3CG
 693
GOBP_B_CELL_ACTIVATION 1.67e-25 49.95 26.71 5.94e-23 1.25e-21
21IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, MZB1, POU2AF1, IGLL5, XBP1, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, LAX1, IGHV1-18, IGHV3-73, IGHV3-11
 319
GOBP_CELL_RECOGNITION 1.47e-21 50.77 26.12 3.33e-19 1.10e-17
17IGKC, IGHG1, IGHG4, IGLC2, IGHA1, IGHG3, IGLC3, IGHG2, IGLL5, IGHM, IGHA2, IGHV3-7, IGHV3-23, IGHV3-15, IGHV1-18, IGHV3-73, IGHV3-11
 225
GOBP_IMMUNE_RESPONSE_REGULATING_SIGNALING_PATHWAY 3.50e-29 45.98 25.16 2.91e-26 2.62e-25
26IGKC, IGHG1, IGHG4, IGLC2, IGLV3-1, IGHA1, IGHG3, IGLC3, IGHG2, IGKV3-20, IGLL5, IGHM, IGKV1-39, IGHA2, IGHV3-7, IGKV1D-33, IGHV3-23, IGHV3-15, IGKV4-1, IGLV2-23, LAX1, STAP1, IGHV1-18, IGHV3-73, IGHV3-11, IGLV2-14
 510

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Immunological Gene Sets:

P-value OR Lower 95% CI FDR FWER Genes Found Gene Set Size
GSE29614_DAY3_VS_DAY7_TIV_FLU_VACCINE_PBMC_DN 2.54e-19 50.24 25.02 1.24e-15 1.24e-15
15IGKC, JCHAIN, MZB1, IGKV3-20, POU2AF1, XBP1, IGHM, DERL3, SLAMF7, IGKV4-1, LAX1, GNG7, SEL1L3, TXNDC11, FCRL5
 190
GSE29618_BCELL_VS_MONOCYTE_UP 2.77e-14 35.61 16.66 6.75e-11 1.35e-10
12IGKC, IGHG1, JCHAIN, TENT5C, IGKV3-20, POU2AF1, IGHM, PIM2, IGKV4-1, STAP1, GNG7, SEL1L3
 194
GSE29618_BCELL_VS_MDC_DAY7_FLU_VACCINE_UP 8.11e-13 32.16 14.62 7.90e-10 3.95e-09
11IGKC, IGHG1, JCHAIN, MZB1, IGKV3-20, POU2AF1, IGHM, PIM2, IGKV4-1, STAP1, SEL1L3
 191
GSE10325_CD4_TCELL_VS_BCELL_DN 9.60e-13 31.64 14.38 7.90e-10 4.68e-09
11IGKC, JCHAIN, IGHA1, MZB1, POU2AF1, IGHM, IRF4, IGKV4-1, STAP1, GNG7, SEL1L3
 194
GSE10325_LUPUS_BCELL_VS_LUPUS_MYELOID_UP 9.60e-13 31.64 14.38 7.90e-10 4.68e-09
11IGKC, JCHAIN, IGHA1, POU2AF1, IGHM, PIM2, IRF4, IGKV4-1, STAP1, GNG7, SEL1L3
 194
GSE10325_LUPUS_CD4_TCELL_VS_LUPUS_BCELL_DN 1.02e-12 31.47 14.30 7.90e-10 4.95e-09
11IGKC, JCHAIN, IGHA1, MZB1, IGKV3-20, POU2AF1, IGHM, IGKV4-1, STAP1, GNG7, SEL1L3
 195
GSE3982_MEMORY_CD4_TCELL_VS_BCELL_DN 1.13e-12 31.13 14.15 7.90e-10 5.53e-09
11IGKC, JCHAIN, IGHA1, MZB1, POU2AF1, IGHM, IRF4, IGKV4-1, STAP1, GNG7, SEL1L3
 197
GSE29614_CTRL_VS_DAY7_TIV_FLU_VACCINE_PBMC_DN 2.96e-11 27.87 12.25 1.45e-08 1.44e-07
10IGKC, JCHAIN, MZB1, IGKV3-20, POU2AF1, XBP1, IGHM, SLAMF7, GNG7, SEL1L3
 194
GSE4748_CYANOBACTERIUM_LPSLIKE_VS_LPS_AND_CYANOBACTERIUM_LPSLIKE_STIM_DC_3H_UP 2.96e-11 27.87 12.25 1.45e-08 1.44e-07
10IGKC, JCHAIN, MZB1, IGKV3-20, XBP1, IGHM, IGKV4-1, LAX1, STAP1, FCRL5
 194
GSE29618_BCELL_VS_MONOCYTE_DAY7_FLU_VACCINE_UP 3.11e-11 27.72 12.18 1.45e-08 1.52e-07
10IGKC, TENT5C, IGKV3-20, POU2AF1, IGHM, PIM2, IGKV4-1, STAP1, GNG7, SEL1L3
 195
GSE10325_BCELL_VS_MYELOID_UP 3.27e-11 27.58 12.12 1.45e-08 1.59e-07
10IGKC, JCHAIN, MZB1, POU2AF1, IGHM, PIM2, IGKV4-1, STAP1, GNG7, SEL1L3
 196
GSE29617_DAY3_VS_DAY7_TIV_FLU_VACCINE_PBMC_2008_DN 6.71e-10 24.89 10.48 2.63e-07 3.27e-06
9IGHG1, JCHAIN, MZB1, IGKV3-20, POU2AF1, XBP1, TP53INP1, IGLV2-23, SEL1L3
 190
GSE4984_UNTREATED_VS_GALECTIN1_TREATED_DC_DN 7.03e-10 24.75 10.42 2.63e-07 3.42e-06
9IGKC, JCHAIN, MZB1, POU2AF1, IGHM, IGKV4-1, STAP1, SEL1L3, FCRL5
 191
GSE29618_BCELL_VS_MDC_UP 7.70e-10 24.49 10.31 2.68e-07 3.75e-06
9IGKC, IGHG1, TENT5C, IGKV3-20, POU2AF1, IGHM, PIM2, IGKV4-1, STAP1
 193
GSE29618_BCELL_VS_PDC_DAY7_FLU_VACCINE_UP 3.81e-07 17.96 6.73 1.14e-04 1.86e-03
7IGKC, TENT5C, IGKV3-20, POU2AF1, IGHM, IGKV4-1, STAP1
 193
GSE29618_BCELL_VS_PDC_UP 4.08e-07 17.78 6.66 1.14e-04 1.99e-03
7IGKC, IGHG1, TENT5C, IGKV3-20, POU2AF1, IGHM, STAP1
 195
GSE13411_PLASMA_CELL_VS_MEMORY_BCELL_UP 4.23e-07 17.68 6.63 1.14e-04 2.06e-03
7IGKC, MZB1, XBP1, PIM2, SLAMF7, ZNF215, PRDM1
 196
GSE29618_MONOCYTE_VS_PDC_DN 4.37e-07 17.59 6.59 1.14e-04 2.13e-03
7IGKC, MZB1, IGHM, IRF4, HERPUD1, GNG7, SEL1L3
 197
GSE29618_MONOCYTE_VS_PDC_DAY7_FLU_VACCINE_DN 4.68e-07 17.41 6.52 1.14e-04 2.28e-03
7IGKC, MZB1, IGHM, IRF4, GNG7, SEL1L3, PIK3CG
 199
GSE20727_CTRL_VS_ROS_INHIBITOR_TREATED_DC_DN 4.68e-07 17.41 6.52 1.14e-04 2.28e-03
7IGKC, JCHAIN, XBP1, IRF4, SLAMF7, PRDM1, TXNDC11
 199

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Top Ranked Transcription Factors for this Gene Expression Program:

Gene Symbol Gene Loading Rank DNA Binding Domain Motif Status IUPAC PWM GTEx DepMap Decartes
POU2AF1 16 Yes Known motif Obligate heteromer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain Requires POU2F1 to bind DNA. In the crystal structure (PDB:1CQT), POU2AF1 contacts both the POU2F1 and DNA major groove
XBP1 18 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
IGHM 19 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
IRF4 27 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ZNF215 34 Yes Likely to be sequence specific TF Monomer or homomultimer No motif None None
PRDM1 36 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
ZBP1 71 No Unlikely to be sequence specific TF Low specificity DNA-binding protein No motif None ZBP1 is structurally-specific for Z-DNA, but does not have any sequence specificity (PDB: 1J75; PMID: 11524677)
BTG2 73 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Transcriptional co-factor (PMID: 10617598)
ESR1 76 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
NCOA3 83 Yes Likely to be sequence specific TF Obligate heteromer No motif None NCOA½/3 all have been tested on PBMs and HT-SELEX without yielding a motif. All are co-activators, collectively suggesting they might be obligate heteromers.
CREB3L2 87 Yes Known motif Monomer or homomultimer 100 perc ID - in vitro None None
TSC22D3 115 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None There is some evidence that a related protein (TSC22D1) binds DNA specifically - thus, it is possible this is also a TF.
PELI1 126 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Ubiquitin ligase
HIPK2 140 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None Transcriptional cofactor that can act as a coactivator or corepressor. Phosphorylates many transcription factors. (UniProt Q9H2X6)
EAF2 161 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None No convincing evidence that this protein binds DNA with any sequence specificity, or that this activity is required for its function. Thus at best the current evidence is that it is a cofactor of some sort cofactor (PMID: 12446457)
MED13L 171 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
EIF2AK4 175 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None
DNAJC1 183 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
KLF2 186 Yes Known motif Monomer or homomultimer High-throughput in vitro None None
CFLAR 190 No Unlikely to be sequence specific TF Not a DNA binding protein No motif None None

Druggable Genes for this Gene Expression Program:

Gene Symbol Gene Loading Rank Drug Names Drug Category GTEx DepMap
PIM2 25
3AZD-1208, SGI-1776, LGH-447
 Small molecule GTEx DepMap
SLAMF7 31
1ELOTUZUMAB
 Antibody GTEx DepMap
PIK3CG 49
6SONOLISIB, LY-3023414, BGT-226, ZSTK-474, PF-04691502, TG100-115
 Small molecule GTEx DepMap
CD38 52
1DARATUMUMAB
 Antibody GTEx DepMap
ESR1 76
23DIETHYLSTILBESTROL DIPHOSPHATE, TAMOXIFEN, TOREMIFENE, ESTRADIOL ACETATE, ESTROGENS, ESTERIFIED, SYNTHETIC CONJUGATED ESTROGENS, B, ESTROGENS, CONJUGATED, ESTROGENS, CONJUGATED SYNTHETIC A, BAZEDOXIFENE, CLOMIPHENE CITRATE, OSPEMIFENE, ESTRONE SULFURIC ACID, ESTRADIOL CYPIONATE, POLYESTRADIOL PHOSPHATE, MESTRANOL, QUINESTROL, ETHINYL ESTRADIOL, ESTRADIOL, DIETHYLSTILBESTROL, FULVESTRANT, ESTRADIOL VALERATE, ESTRONE, DIENESTROL
 Small molecule GTEx DepMap
DHFR 210
3PEMETREXED DISODIUM, PRALATREXATE, METHOTREXATE
 Small molecule GTEx DepMap
CCR2 229
3CCX140, PF-04634817, AZD2423
 Small molecule GTEx DepMap
SCNN1B 239
2AMILORIDE, TRIAMTERENE
 Small molecule GTEx DepMap
CXCR4 265
1PLERIXAFOR
 Small molecule GTEx DepMap
TRPV3 276
1GRC-15300
 Small molecule GTEx DepMap
TYMP 306
1TIPIRACIL
 Small molecule GTEx DepMap
BTK 323
1IBRUTINIB
 Small molecule GTEx DepMap
SYK 335
4R-333, Cerdulatinib, R-112, TAMATINIB
 Small molecule GTEx DepMap
ITGB7 392
1VEDOLIZUMAB
 Antibody GTEx DepMap
MAPKAPK2 411
1AT-13148
 Small molecule GTEx DepMap
CYSLTR1 412
2MONTELUKAST, ZAFIRLUKAST
 Small molecule GTEx DepMap
CDK14 444
2Roniciclib, AT-7519
 Small molecule GTEx DepMap
S1PR4 445
1FINGOLIMOD
 Small molecule GTEx DepMap
KCNA2 486
2GUANIDINE, DALFAMPRIDINE
 Small molecule GTEx DepMap
DPEP1 505
1CILASTATIN
 Small molecule GTEx DepMap


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
AGACACTAGTTGCTGT-1_HTA4_1001_4004 B_cell 0.09 3477.50
Raw ScoresB_cell: 0.28, Pro-B_cell_CD34+: 0.23, HSC_-G-CSF: 0.23, Pre-B_cell_CD34-: 0.22, NK_cell: 0.22, T_cells: 0.22, DC: 0.22, Monocyte: 0.22, Macrophage: 0.21, GMP: 0.21
ATGAGTCGTTCGCGTG-1_HTA4_1001_4004 B_cell 0.07 2536.05
Raw ScoresB_cell: 0.27, NK_cell: 0.23, T_cells: 0.22, HSC_-G-CSF: 0.22, Pro-B_cell_CD34+: 0.22, DC: 0.22, Monocyte: 0.22, Platelets: 0.21, Macrophage: 0.21, Pre-B_cell_CD34-: 0.21
GACTATGTCGAAGCCC-1_HTA4_1001_4004 B_cell 0.09 2180.25
Raw ScoresB_cell: 0.29, T_cells: 0.27, NK_cell: 0.27, HSC_-G-CSF: 0.25, Platelets: 0.25, Pro-B_cell_CD34+: 0.25, Pre-B_cell_CD34-: 0.25, Monocyte: 0.25, DC: 0.24, GMP: 0.24
CGTTGGGCAGATTTCG-1_HTA4_1001_4003 B_cell 0.08 1072.37
Raw ScoresB_cell: 0.21, NK_cell: 0.18, T_cells: 0.17, Monocyte: 0.17, HSC_-G-CSF: 0.17, DC: 0.16, Pre-B_cell_CD34-: 0.16, Macrophage: 0.16, Platelets: 0.16, BM: 0.15
ATCGCCTAGTGATGGC-1_HTA4_1021_4081 T_cells 0.07 589.94
Raw ScoresB_cell: 0.25, T_cells: 0.24, NK_cell: 0.24, Pro-B_cell_CD34+: 0.23, HSC_CD34+: 0.21, Pre-B_cell_CD34-: 0.21, CMP: 0.2, HSC_-G-CSF: 0.2, GMP: 0.2, MEP: 0.2
TATCTTGTCCCGAGGT-1_HTA4_1001_4003 DC 0.03 447.36
Raw ScoresDC: 0.1, Macrophage: 0.1, B_cell: 0.1, Monocyte: 0.09, Pre-B_cell_CD34-: 0.09, HSC_-G-CSF: 0.09, Osteoblasts: 0.09, Pro-B_cell_CD34+: 0.09, Tissue_stem_cells: 0.08, T_cells: 0.08
AGAGAGCAGTCACACT-1_HTA4_1001_4003 B_cell 0.10 408.98
Raw ScoresB_cell: 0.26, T_cells: 0.22, NK_cell: 0.21, HSC_-G-CSF: 0.2, Pro-B_cell_CD34+: 0.2, Pre-B_cell_CD34-: 0.19, HSC_CD34+: 0.19, Platelets: 0.19, Monocyte: 0.19, DC: 0.19
AAACGCTTCCACGAAT-1_HTA4_1021_4082 Neurons 0.07 342.43
Raw ScoresNeurons: 0.17, Astrocyte: 0.14, Neuroepithelial_cell: 0.14, Embryonic_stem_cells: 0.13, iPS_cells: 0.13, B_cell: 0.12, Fibroblasts: 0.11, Pro-B_cell_CD34+: 0.11, Endothelial_cells: 0.11, CMP: 0.11
TCATCCGTCCGATCGG-1_HTA4_1004_4014 Neurons 0.03 321.38
Raw ScoresAstrocyte: 0.19, Neurons: 0.18, B_cell: 0.18, DC: 0.18, Macrophage: 0.17, Fibroblasts: 0.16, Smooth_muscle_cells: 0.16, Monocyte: 0.16, NK_cell: 0.16, Neuroepithelial_cell: 0.16
TGTAGACTCTATGCCC-1_HTA4_1007_4024 Neurons 0.15 309.65
Raw ScoresNeurons: 0.25, Astrocyte: 0.22, Neuroepithelial_cell: 0.22, Embryonic_stem_cells: 0.18, iPS_cells: 0.17, Osteoblasts: 0.15, Smooth_muscle_cells: 0.15, Endothelial_cells: 0.14, MSC: 0.14, Chondrocytes: 0.14
CATGCCTGTGGCACTC-1_HTA4_1015_4054 Neurons 0.11 303.04
Raw ScoresNeurons: 0.15, Neuroepithelial_cell: 0.13, Astrocyte: 0.13, Embryonic_stem_cells: 0.11, MSC: 0.09, Endothelial_cells: 0.08, iPS_cells: 0.08, Smooth_muscle_cells: 0.08, Osteoblasts: 0.07, Tissue_stem_cells: 0.07
GGGTTATTCGTCCTCA-1_HTA4_1015_4054 Neurons 0.15 302.73
Raw ScoresNeurons: 0.21, Neuroepithelial_cell: 0.2, Astrocyte: 0.16, Embryonic_stem_cells: 0.16, iPS_cells: 0.15, MSC: 0.11, Endothelial_cells: 0.1, Smooth_muscle_cells: 0.1, Fibroblasts: 0.09, Tissue_stem_cells: 0.09
TGTCCACTCATTGTGG-1_HTA4_1006_4019 Neurons 0.12 270.86
Raw ScoresNeurons: 0.18, Neuroepithelial_cell: 0.16, Astrocyte: 0.15, Embryonic_stem_cells: 0.14, iPS_cells: 0.12, Fibroblasts: 0.11, Smooth_muscle_cells: 0.11, Osteoblasts: 0.11, MSC: 0.11, Chondrocytes: 0.11
CCTCACACATATCGGT-1_HTA4_1003_4010 Neurons 0.08 230.07
Raw ScoresNeuroepithelial_cell: 0.16, Neurons: 0.15, Astrocyte: 0.15, Embryonic_stem_cells: 0.14, iPS_cells: 0.13, Chondrocytes: 0.11, Fibroblasts: 0.11, MSC: 0.11, Osteoblasts: 0.1, Tissue_stem_cells: 0.1
ATCCTATGTAAGATAC-1_HTA4_1008_4029 Astrocyte 0.05 195.77
Raw ScoresNeuroepithelial_cell: 0.15, Astrocyte: 0.15, Neurons: 0.15, Embryonic_stem_cells: 0.14, Chondrocytes: 0.14, Tissue_stem_cells: 0.13, MSC: 0.13, Fibroblasts: 0.13, Osteoblasts: 0.13, iPS_cells: 0.13
AAGACAAGTTCGGCTG-1_HTA4_1021_4081 B_cell 0.08 189.84
Raw ScoresB_cell: 0.2, T_cells: 0.17, NK_cell: 0.17, HSC_-G-CSF: 0.17, Platelets: 0.16, Pre-B_cell_CD34-: 0.16, Pro-B_cell_CD34+: 0.15, Monocyte: 0.15, DC: 0.15, HSC_CD34+: 0.14
TGTTCCGCAGCCCACA-1_HTA4_1021_4081 B_cell 0.10 178.06
Raw ScoresB_cell: 0.24, HSC_-G-CSF: 0.22, T_cells: 0.21, NK_cell: 0.21, Pre-B_cell_CD34-: 0.2, Platelets: 0.2, Pro-B_cell_CD34+: 0.2, Monocyte: 0.19, Neutrophils: 0.19, DC: 0.18
ATTTCACTCTACTTCA-1_HTA4_1003_4010 B_cell 0.06 171.97
Raw ScoresB_cell: 0.2, T_cells: 0.16, Platelets: 0.16, NK_cell: 0.16, HSC_-G-CSF: 0.16, Pro-B_cell_CD34+: 0.16, Pre-B_cell_CD34-: 0.15, BM: 0.15, Monocyte: 0.15, Neurons: 0.14
CGTCCATTCGGTGTTA-1_HTA4_1012_4045 B_cell 0.05 171.23
Raw ScoresB_cell: 0.21, NK_cell: 0.18, Macrophage: 0.18, DC: 0.18, Pro-B_cell_CD34+: 0.17, HSC_CD34+: 0.17, Monocyte: 0.17, T_cells: 0.17, Platelets: 0.16, Endothelial_cells: 0.16
CTGCTCAAGCTCGAAG-1_HTA4_1005_4017 Neurons 0.07 160.37
Raw ScoresFibroblasts: 0.18, Smooth_muscle_cells: 0.18, Tissue_stem_cells: 0.17, Chondrocytes: 0.17, Neurons: 0.17, Osteoblasts: 0.16, MSC: 0.16, iPS_cells: 0.16, Neuroepithelial_cell: 0.16, Astrocyte: 0.16
CTTCCTTAGAATCGTA-1_HTA4_1012_4046 B_cell 0.08 157.84
Raw ScoresB_cell: 0.2, Platelets: 0.17, T_cells: 0.16, NK_cell: 0.16, HSC_-G-CSF: 0.16, Pre-B_cell_CD34-: 0.16, Pro-B_cell_CD34+: 0.15, HSC_CD34+: 0.15, Monocyte: 0.15, Macrophage: 0.15
CATACTTCAGTTACCA-1_HTA4_1015_4057 Neurons 0.04 154.94
Raw ScoresNeurons: 0.18, B_cell: 0.18, NK_cell: 0.17, Astrocyte: 0.17, HSC_CD34+: 0.16, Platelets: 0.16, Pro-B_cell_CD34+: 0.16, T_cells: 0.16, HSC_-G-CSF: 0.16, Monocyte: 0.16
TAAGTCGAGCCAAGTG-1_HTA4_1008_4030 Neurons 0.18 120.68
Raw ScoresNeurons: 0.3, Neuroepithelial_cell: 0.3, Fibroblasts: 0.3, Astrocyte: 0.3, MSC: 0.29, Smooth_muscle_cells: 0.29, Osteoblasts: 0.29, iPS_cells: 0.28, Chondrocytes: 0.27, Embryonic_stem_cells: 0.27
CTTGATTCATGTTTGG-1_HTA4_1005_4016 Macrophage 0.08 111.80
Raw ScoresMacrophage: 0.25, DC: 0.25, Monocyte: 0.25, HSC_-G-CSF: 0.21, Pre-B_cell_CD34-: 0.2, Neutrophils: 0.2, HSC_CD34+: 0.19, GMP: 0.19, Neurons: 0.19, NK_cell: 0.19
CACGAATCACTAGTAC-1_HTA4_1006_4021 Astrocyte 0.10 111.46
Raw ScoresNeuroepithelial_cell: 0.13, Neurons: 0.13, Astrocyte: 0.13, Embryonic_stem_cells: 0.12, iPS_cells: 0.11, Fibroblasts: 0.09, Osteoblasts: 0.09, Smooth_muscle_cells: 0.08, MSC: 0.08, Endothelial_cells: 0.08
CTAAGTGGTGTTCATG-1_HTA4_1020_4077 B_cell 0.04 107.27
Raw ScoresB_cell: 0.17, Astrocyte: 0.15, Endothelial_cells: 0.15, Platelets: 0.15, Neurons: 0.15, NK_cell: 0.14, Smooth_muscle_cells: 0.14, Osteoblasts: 0.14, Fibroblasts: 0.14, HSC_CD34+: 0.13
CCCAACTCAGAACATA-1_HTA4_1008_4030 Neurons 0.08 105.70
Raw ScoresAstrocyte: 0.28, Neurons: 0.28, Neuroepithelial_cell: 0.27, Endothelial_cells: 0.25, MSC: 0.25, Osteoblasts: 0.24, Fibroblasts: 0.24, Embryonic_stem_cells: 0.24, Smooth_muscle_cells: 0.24, Platelets: 0.24
GATTCTTAGGTATTGA-1_HTA4_1017_4064 B_cell 0.11 104.89
Raw ScoresB_cell: 0.25, Platelets: 0.2, Pro-B_cell_CD34+: 0.2, T_cells: 0.19, NK_cell: 0.19, HSC_-G-CSF: 0.19, HSC_CD34+: 0.18, Pre-B_cell_CD34-: 0.17, BM: 0.17, GMP: 0.17
AGGTCATCATTGCTTT-1_HTA4_1019_4075 Hepatocytes 0.13 101.90
Raw ScoresOsteoblasts: 0.29, Smooth_muscle_cells: 0.28, Chondrocytes: 0.28, Tissue_stem_cells: 0.28, Fibroblasts: 0.28, iPS_cells: 0.26, Hepatocytes: 0.25, MSC: 0.24, Endothelial_cells: 0.22, Astrocyte: 0.22
AGCGCTGGTTCGTGCG-1_HTA4_1005_4017 Endothelial_cells 0.15 101.28
Raw ScoresEndothelial_cells: 0.32, Smooth_muscle_cells: 0.28, Osteoblasts: 0.27, Fibroblasts: 0.27, Chondrocytes: 0.25, MSC: 0.25, Tissue_stem_cells: 0.25, iPS_cells: 0.24, Astrocyte: 0.23, Neurons: 0.22
ACTCCCATCTCATGGA-1_HTA4_1017_4064 Neurons 0.22 97.48
Raw ScoresNeurons: 0.45, Neuroepithelial_cell: 0.43, Astrocyte: 0.43, Embryonic_stem_cells: 0.37, iPS_cells: 0.35, MSC: 0.34, Tissue_stem_cells: 0.3, Fibroblasts: 0.3, Endothelial_cells: 0.3, Smooth_muscle_cells: 0.29
TCTGGCTAGACAGCTG-1_HTA4_1012_4046 B_cell 0.07 95.18
Raw ScoresB_cell: 0.19, NK_cell: 0.17, T_cells: 0.16, Monocyte: 0.14, Platelets: 0.14, Pro-B_cell_CD34+: 0.13, Pre-B_cell_CD34-: 0.13, HSC_CD34+: 0.13, HSC_-G-CSF: 0.13, DC: 0.13
CCTCCTCAGCGATCGA-1_HTA4_1017_4064 B_cell 0.08 93.99
Raw ScoresB_cell: 0.16, Pro-B_cell_CD34+: 0.13, HSC_CD34+: 0.12, Platelets: 0.12, BM: 0.12, GMP: 0.11, T_cells: 0.11, CMP: 0.11, NK_cell: 0.11, Pre-B_cell_CD34-: 0.11
TCCATCGGTGTTTACG-1_HTA4_1023_4088 Smooth_muscle_cells 0.12 92.46
Raw ScoresSmooth_muscle_cells: 0.32, Fibroblasts: 0.31, Osteoblasts: 0.31, Chondrocytes: 0.3, Tissue_stem_cells: 0.3, DC: 0.28, iPS_cells: 0.28, Macrophage: 0.27, MSC: 0.27, Monocyte: 0.27
AATGGAAGTAGACGTG-1_HTA4_1008_4030 Fibroblasts 0.17 91.64
Raw ScoresFibroblasts: 0.27, Astrocyte: 0.26, Neuroepithelial_cell: 0.26, Neurons: 0.26, Osteoblasts: 0.26, MSC: 0.25, Chondrocytes: 0.24, Smooth_muscle_cells: 0.24, iPS_cells: 0.24, Tissue_stem_cells: 0.23
GACTTCCTCTGGTGCG-1_HTA4_1008_4030 Smooth_muscle_cells 0.10 88.06
Raw ScoresFibroblasts: 0.18, Neuroepithelial_cell: 0.17, Smooth_muscle_cells: 0.17, Osteoblasts: 0.17, MSC: 0.16, Astrocyte: 0.16, Neurons: 0.16, Embryonic_stem_cells: 0.16, Chondrocytes: 0.16, Tissue_stem_cells: 0.16
GTACAACCATCGATCA-1_HTA4_1020_4078 Neurons 0.04 85.50
Raw ScoresB_cell: 0.2, Neurons: 0.19, Astrocyte: 0.18, Platelets: 0.18, Endothelial_cells: 0.17, NK_cell: 0.17, Neuroepithelial_cell: 0.17, Pro-B_cell_CD34+: 0.17, Osteoblasts: 0.17, T_cells: 0.17
GCACGTGTCGATACAC-1_HTA4_1021_4081 B_cell 0.05 81.47
Raw ScoresB_cell: 0.17, T_cells: 0.16, NK_cell: 0.16, Pro-B_cell_CD34+: 0.15, BM: 0.15, HSC_-G-CSF: 0.15, Pre-B_cell_CD34-: 0.15, BM & Prog.: 0.14, MEP: 0.14, HSC_CD34+: 0.14
ATCCCTGAGGCTTCCG-1_HTA4_1008_4030 Neurons 0.14 81.37
Raw ScoresNeurons: 0.28, Neuroepithelial_cell: 0.25, Astrocyte: 0.24, Embryonic_stem_cells: 0.22, iPS_cells: 0.2, MSC: 0.19, Endothelial_cells: 0.18, Smooth_muscle_cells: 0.18, Fibroblasts: 0.17, Osteoblasts: 0.16
GGGTAGAGTGTCTTAG-1_HTA4_1008_4030 Neurons 0.09 78.69
Raw ScoresNeurons: 0.24, Astrocyte: 0.23, Neuroepithelial_cell: 0.23, Embryonic_stem_cells: 0.21, iPS_cells: 0.2, Osteoblasts: 0.19, MSC: 0.18, Fibroblasts: 0.18, Endothelial_cells: 0.18, Smooth_muscle_cells: 0.18
GTAGATCAGGCTAAAT-1_HTA4_1017_4064 Neurons 0.14 77.55
Raw ScoresNeurons: 0.26, Astrocyte: 0.24, Neuroepithelial_cell: 0.24, Embryonic_stem_cells: 0.2, MSC: 0.19, Smooth_muscle_cells: 0.19, iPS_cells: 0.18, Fibroblasts: 0.18, Tissue_stem_cells: 0.18, Chondrocytes: 0.17
GTTTACTAGACTTAAG-1_HTA4_1005_4016 Neurons 0.20 74.68
Raw ScoresNeurons: 0.31, Neuroepithelial_cell: 0.31, Astrocyte: 0.31, Embryonic_stem_cells: 0.26, Smooth_muscle_cells: 0.25, Fibroblasts: 0.25, Osteoblasts: 0.25, MSC: 0.24, iPS_cells: 0.24, Chondrocytes: 0.23
AGGAATAAGACGATAT-1_HTA4_1021_4081 B_cell 0.11 74.44
Raw ScoresB_cell: 0.26, T_cells: 0.23, NK_cell: 0.22, HSC_-G-CSF: 0.21, Pro-B_cell_CD34+: 0.21, Platelets: 0.2, Pre-B_cell_CD34-: 0.19, Monocyte: 0.18, HSC_CD34+: 0.18, CMP: 0.18
TGCAGATGTCATCGGC-1_HTA4_1017_4064 Neurons 0.11 73.97
Raw ScoresAstrocyte: 0.21, Smooth_muscle_cells: 0.21, Fibroblasts: 0.2, Neuroepithelial_cell: 0.19, MSC: 0.19, Osteoblasts: 0.19, Neurons: 0.19, iPS_cells: 0.19, Tissue_stem_cells: 0.18, Chondrocytes: 0.18
CGGCAGTCACTCCACT-1_HTA4_1021_4081 B_cell 0.10 71.30
Raw ScoresB_cell: 0.26, NK_cell: 0.22, HSC_-G-CSF: 0.22, T_cells: 0.22, Pre-B_cell_CD34-: 0.21, Pro-B_cell_CD34+: 0.2, Monocyte: 0.2, DC: 0.19, BM: 0.19, HSC_CD34+: 0.19
GAGGCCTAGGTCACCC-1_HTA4_1019_4075 Hepatocytes 0.16 71.01
Raw ScoresHepatocytes: 0.22, Tissue_stem_cells: 0.1, Smooth_muscle_cells: 0.09, Fibroblasts: 0.09, Osteoblasts: 0.09, Chondrocytes: 0.08, Platelets: 0.07, Epithelial_cells: 0.07, Endothelial_cells: 0.07, iPS_cells: 0.07
AGGAGGTGTCTTTCAT-1_HTA4_1004_4015 Neurons 0.04 69.90
Raw ScoresNeurons: 0.14, Neuroepithelial_cell: 0.13, DC: 0.13, Fibroblasts: 0.13, Astrocyte: 0.13, Macrophage: 0.13, Osteoblasts: 0.13, Smooth_muscle_cells: 0.13, MSC: 0.13, iPS_cells: 0.12
TCCTTTCCAAACCACT-1_HTA4_1018_4067 Neurons 0.16 68.34
Raw ScoresNeurons: 0.27, Astrocyte: 0.26, Neuroepithelial_cell: 0.25, Fibroblasts: 0.22, Smooth_muscle_cells: 0.22, Embryonic_stem_cells: 0.21, Osteoblasts: 0.21, iPS_cells: 0.2, Tissue_stem_cells: 0.2, MSC: 0.2
TGCAGATTCAAGAGTA-1_HTA4_1018_4069 Neurons 0.05 67.56
Raw ScoresAstrocyte: 0.16, Neuroepithelial_cell: 0.15, Neurons: 0.15, Embryonic_stem_cells: 0.13, Fibroblasts: 0.13, iPS_cells: 0.13, Smooth_muscle_cells: 0.13, MSC: 0.13, Osteoblasts: 0.13, Platelets: 0.12
AGCCACGTCTTGTTAC-1_HTA4_1001_4003 Smooth_muscle_cells 0.20 66.36
Raw ScoresFibroblasts: 0.33, Neurons: 0.33, Smooth_muscle_cells: 0.32, Osteoblasts: 0.32, Chondrocytes: 0.31, Tissue_stem_cells: 0.3, MSC: 0.3, iPS_cells: 0.29, Astrocyte: 0.29, Endothelial_cells: 0.29


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


M1 Macrophage
These genes were collated from multiple sources:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.09e-04
Mean rank of genes in gene set: 5485.21
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
CXCL9 0.0002381 1489 GTEx DepMap Descartes 0.02 3.89
IL18 0.0002235 1593 GTEx DepMap Descartes 0.13 44.95
CCL4 0.0002181 1636 GTEx DepMap Descartes 0.03 14.38
CXCL11 0.0001868 1904 GTEx DepMap Descartes 0.00 0.00
CXCL10 0.0001487 2298 GTEx DepMap Descartes 0.00 1.78
CCL2 0.0001223 2644 GTEx DepMap Descartes 0.16 76.86
TNF 0.0001147 2781 GTEx DepMap Descartes 0.02 13.26
CD14 0.0001054 2954 GTEx DepMap Descartes 0.11 45.78
IL1B 0.0000986 3109 GTEx DepMap Descartes 0.03 8.39
IL33 0.0000955 3168 GTEx DepMap Descartes 0.08 17.12
CCL5 0.0000772 3601 GTEx DepMap Descartes 0.06 46.18
CCL3 0.0000766 3621 GTEx DepMap Descartes 0.03 16.14
CXCL16 0.0000695 3777 GTEx DepMap Descartes 0.04 8.55
CD80 0.0000355 4895 GTEx DepMap Descartes 0.06 19.81
IL6 -0.0000155 9346 GTEx DepMap Descartes 0.01 4.14
TLR4 -0.0000267 10515 GTEx DepMap Descartes 0.00 0.05
CXCL8 -0.0000487 12319 GTEx DepMap Descartes 0.02 NA
ITGAX -0.0000829 14359 GTEx DepMap Descartes 0.30 33.57
CD86 -0.0002033 18210 GTEx DepMap Descartes 0.23 54.17


Stress response (Dong)
Markers obtained in computationally inferred meta program (by NMF applied to their neuroblastoma sc-RNA-seq data) from Fig. 5(a) of Dong et al. (PMID 32946775).:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.27e-03
Mean rank of genes in gene set: 558.33
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
FOS 0.0008916 384 GTEx DepMap Descartes 2.18 569.35
JUN 0.0006252 572 GTEx DepMap Descartes 1.07 185.08
JUNB 0.0005086 719 GTEx DepMap Descartes 0.78 250.90


Antigen Presenting CAF
These marker genes were curated across cancer subtypes in multiple organ systems as reviewed in Lavie et. al. (PMID 35883004) and contain antigen presenting specific CAF genes:
Wilcoxon ranksum test P-value for gene set overrepresentation: 3.61e-03
Mean rank of genes in gene set: 6423.53
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
CD74 0.0010669 297 GTEx DepMap Descartes 1.46 327.41
CCL19 0.0009020 375 GTEx DepMap Descartes 0.25 212.22
HLA-DRA 0.0007861 433 GTEx DepMap Descartes 0.65 372.64
HLA-DPA1 0.0004710 779 GTEx DepMap Descartes 0.30 43.46
S100A4 0.0003569 1019 GTEx DepMap Descartes 0.12 124.79
S100A10 0.0001079 2912 GTEx DepMap Descartes 0.20 169.42
S100A13 0.0000824 3483 GTEx DepMap Descartes 0.06 15.85
CCL5 0.0000772 3601 GTEx DepMap Descartes 0.06 46.18
SLPI 0.0000301 5117 GTEx DepMap Descartes 0.01 16.77
S100A3 0.0000123 6062 GTEx DepMap Descartes 0.00 0.00
KRT18 0.0000045 6626 GTEx DepMap Descartes 0.05 12.92
UPK3B -0.0000155 9344 GTEx DepMap Descartes 0.01 0.93
KRT19 -0.0000361 11353 GTEx DepMap Descartes 0.63 284.69
MSLN -0.0000465 12136 GTEx DepMap Descartes 0.00 0.00
KRT8 -0.0000797 14198 GTEx DepMap Descartes 0.04 4.71
HLA-DQA1 -0.0000862 14541 GTEx DepMap Descartes 0.11 6.50
CD83 -0.0001499 16924 GTEx DepMap Descartes 0.28 68.55




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: 16782.82
Median rank of genes in gene set: 18713
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
PDK1 0.0032695 72 GTEx DepMap Descartes 1.52 87.38
CXCR4 0.0011670 265 GTEx DepMap Descartes 0.61 223.42
SEC11C 0.0011005 287 GTEx DepMap Descartes 0.66 231.72
DAPK1 0.0006950 502 GTEx DepMap Descartes 1.90 180.51
KLF13 0.0006677 526 GTEx DepMap Descartes 0.84 83.53
FOXO3 0.0006332 563 GTEx DepMap Descartes 3.30 258.20
FAM107B 0.0004364 846 GTEx DepMap Descartes 1.53 253.94
GLCCI1 0.0004225 869 GTEx DepMap Descartes 4.69 606.16
MSI2 0.0003958 917 GTEx DepMap Descartes 8.48 627.90
UCP2 0.0002720 1322 GTEx DepMap Descartes 0.10 42.65
DNAJB1 0.0001336 2501 GTEx DepMap Descartes 0.19 42.85
INO80C 0.0001309 2527 GTEx DepMap Descartes 0.00 0.90
GLRX 0.0001249 2610 GTEx DepMap Descartes 0.17 37.68
NPY 0.0000900 3288 GTEx DepMap Descartes 1.92 2533.53
TSPAN13 0.0000583 4109 GTEx DepMap Descartes 0.20 54.09
MYBL2 0.0000566 4174 GTEx DepMap Descartes 0.17 47.73
CDKN2C 0.0000429 4582 GTEx DepMap Descartes 0.05 10.23
DDX39A 0.0000409 4673 GTEx DepMap Descartes 0.20 76.67
HK2 0.0000321 5026 GTEx DepMap Descartes 0.07 6.33
ANP32A 0.0000269 5268 GTEx DepMap Descartes 0.46 78.41
ZNF22 0.0000233 5468 GTEx DepMap Descartes 0.12 27.64
NET1 0.0000132 5998 GTEx DepMap Descartes 0.27 41.21
SCAMP5 0.0000126 6049 GTEx DepMap Descartes 0.52 77.42
EML6 0.0000120 6086 GTEx DepMap Descartes 0.92 58.70
DIABLO 0.0000113 6137 GTEx DepMap Descartes 0.00 0.00
ELAVL2 0.0000097 6242 GTEx DepMap Descartes 1.09 123.20
CCSAP 0.0000092 6278 GTEx DepMap Descartes 0.19 NA
MYO5A 0.0000034 6723 GTEx DepMap Descartes 1.26 56.74
BEND4 0.0000005 6958 GTEx DepMap Descartes 0.03 3.04
CERK -0.0000022 7778 GTEx DepMap Descartes 0.64 73.78


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: 3.49e-01
Mean rank of genes in gene set: 10188.36
Median rank of genes in gene set: 11094
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SEL1L3 0.0047400 42 GTEx DepMap Descartes 2.72 530.93
CREB3L2 0.0029944 87 GTEx DepMap Descartes 2.79 315.57
EDEM1 0.0028789 91 GTEx DepMap Descartes 1.03 135.68
TRAM2 0.0027526 97 GTEx DepMap Descartes 0.95 111.44
FNDC3B 0.0026767 100 GTEx DepMap Descartes 8.62 892.63
TSC22D3 0.0022839 115 GTEx DepMap Descartes 1.11 358.76
HSP90B1 0.0022207 119 GTEx DepMap Descartes 2.37 599.34
HLA-B 0.0020548 127 GTEx DepMap Descartes 0.97 470.74
DUSP5 0.0019754 133 GTEx DepMap Descartes 0.42 120.71
B2M 0.0019104 141 GTEx DepMap Descartes 5.12 1507.56
RRBP1 0.0018502 147 GTEx DepMap Descartes 1.25 191.41
HLA-C 0.0017390 163 GTEx DepMap Descartes 0.56 192.69
DNAJC1 0.0016248 183 GTEx DepMap Descartes 1.72 606.78
PDIA4 0.0015093 202 GTEx DepMap Descartes 0.66 167.20
CRELD2 0.0013939 217 GTEx DepMap Descartes 0.22 50.58
SPCS3 0.0013502 228 GTEx DepMap Descartes 0.55 83.05
SEC14L1 0.0013211 235 GTEx DepMap Descartes 1.93 252.16
SSR3 0.0012506 243 GTEx DepMap Descartes 0.50 105.44
ITM2C 0.0011546 269 GTEx DepMap Descartes 0.45 140.44
IQGAP2 0.0011513 270 GTEx DepMap Descartes 1.37 172.99
DNAJC3 0.0011197 283 GTEx DepMap Descartes 0.80 108.75
WIPI1 0.0010644 299 GTEx DepMap Descartes 0.29 100.96
TRAM1 0.0010643 300 GTEx DepMap Descartes 0.68 149.32
CLIC4 0.0009929 328 GTEx DepMap Descartes 1.65 258.11
ELF1 0.0009340 354 GTEx DepMap Descartes 1.75 310.38
MANF 0.0009027 374 GTEx DepMap Descartes 0.26 127.27
HLA-A 0.0009002 377 GTEx DepMap Descartes 0.90 116.46
HSPA5 0.0008525 402 GTEx DepMap Descartes 0.78 134.95
ERBIN 0.0008482 408 GTEx DepMap Descartes 2.03 NA
ADAM19 0.0008429 416 GTEx DepMap Descartes 1.12 120.23


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: 1.00e+00
Mean rank of genes in gene set: 17141.47
Median rank of genes in gene set: 18884
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ERN1 0.0018369 150 GTEx DepMap Descartes 2.25 225.57
FREM2 0.0002414 1470 GTEx DepMap Descartes 0.03 0.93
APOC1 0.0000628 3972 GTEx DepMap Descartes 0.33 312.00
SLC2A14 -0.0000210 9947 GTEx DepMap Descartes 0.02 4.92
PEG3 -0.0000291 10752 GTEx DepMap Descartes 0.00 NA
INHA -0.0000809 14253 GTEx DepMap Descartes 0.00 0.65
TM7SF2 -0.0000911 14778 GTEx DepMap Descartes 0.10 28.21
CLU -0.0001003 15171 GTEx DepMap Descartes 1.11 284.65
DHCR7 -0.0001134 15748 GTEx DepMap Descartes 0.07 12.05
SCAP -0.0001175 15898 GTEx DepMap Descartes 0.36 51.27
FDXR -0.0001560 17114 GTEx DepMap Descartes 0.05 7.66
CYP17A1 -0.0001577 17163 GTEx DepMap Descartes 0.05 34.36
FDPS -0.0001607 17246 GTEx DepMap Descartes 0.44 114.12
CYP11A1 -0.0001757 17632 GTEx DepMap Descartes 0.05 18.45
MC2R -0.0001862 17858 GTEx DepMap Descartes 0.01 4.60
SULT2A1 -0.0001939 18003 GTEx DepMap Descartes 0.03 11.53
CYB5B -0.0002085 18326 GTEx DepMap Descartes 0.30 46.30
NPC1 -0.0002207 18528 GTEx DepMap Descartes 0.36 38.06
BAIAP2L1 -0.0002253 18611 GTEx DepMap Descartes 0.06 7.46
LDLR -0.0002320 18720 GTEx DepMap Descartes 0.37 46.69
DHCR24 -0.0002389 18812 GTEx DepMap Descartes 0.21 23.35
SH3BP5 -0.0002410 18851 GTEx DepMap Descartes 0.80 139.20
CYP21A2 -0.0002437 18884 GTEx DepMap Descartes 0.03 13.52
MSMO1 -0.0002497 18965 GTEx DepMap Descartes 0.20 58.73
PAPSS2 -0.0002586 19078 GTEx DepMap Descartes 0.37 52.95
HMGCR -0.0002603 19094 GTEx DepMap Descartes 0.25 38.32
SCARB1 -0.0002664 19169 GTEx DepMap Descartes 0.46 60.49
CYP11B1 -0.0002679 19184 GTEx DepMap Descartes 0.04 14.92
STAR -0.0002690 19195 GTEx DepMap Descartes 0.04 19.37
HMGCS1 -0.0002694 19199 GTEx DepMap Descartes 0.45 46.07


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: 18205
Median rank of genes in gene set: 19478
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
NPY 0.0000900 3288 GTEx DepMap Descartes 1.92 2533.53
ELAVL2 0.0000097 6242 GTEx DepMap Descartes 1.09 123.20
GREM1 -0.0000509 12473 GTEx DepMap Descartes 0.05 1.98
NTRK1 -0.0000629 13274 GTEx DepMap Descartes 0.20 29.69
MAB21L1 -0.0000975 15060 GTEx DepMap Descartes 0.17 37.59
IL7 -0.0001166 15864 GTEx DepMap Descartes 3.09 509.97
SLC6A2 -0.0001250 16154 GTEx DepMap Descartes 0.19 23.80
RPH3A -0.0001460 16798 GTEx DepMap Descartes 0.10 10.44
TUBB2A -0.0001514 16969 GTEx DepMap Descartes 0.67 220.62
PRPH -0.0001697 17492 GTEx DepMap Descartes 0.82 249.33
ANKFN1 -0.0001906 17954 GTEx DepMap Descartes 0.60 60.91
PLXNA4 -0.0002008 18159 GTEx DepMap Descartes 1.00 22.24
TMEM132C -0.0002201 18510 GTEx DepMap Descartes 3.54 239.14
REEP1 -0.0002419 18865 GTEx DepMap Descartes 0.38 45.04
GAP43 -0.0002550 19033 GTEx DepMap Descartes 1.24 369.24
RGMB -0.0002553 19038 GTEx DepMap Descartes 0.27 25.24
MLLT11 -0.0002661 19164 GTEx DepMap Descartes 0.52 124.99
PTCHD1 -0.0002776 19283 GTEx DepMap Descartes 0.20 6.60
KCNB2 -0.0002831 19342 GTEx DepMap Descartes 2.54 241.58
HMX1 -0.0002910 19407 GTEx DepMap Descartes 0.34 63.00
CNTFR -0.0002974 19459 GTEx DepMap Descartes 0.12 22.20
MAB21L2 -0.0002990 19478 GTEx DepMap Descartes 0.09 28.88
TMEFF2 -0.0003022 19505 GTEx DepMap Descartes 0.56 57.43
HS3ST5 -0.0003300 19683 GTEx DepMap Descartes 0.91 81.21
EPHA6 -0.0003314 19689 GTEx DepMap Descartes 1.03 101.23
RYR2 -0.0003449 19780 GTEx DepMap Descartes 2.73 72.40
CCND1 -0.0003475 19797 GTEx DepMap Descartes 1.57 183.68
EYA4 -0.0003550 19836 GTEx DepMap Descartes 0.51 23.54
FAT3 -0.0003591 19858 GTEx DepMap Descartes 0.43 10.02
TUBA1A -0.0003893 20004 GTEx DepMap Descartes 3.84 1050.97


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: 9.29e-01
Mean rank of genes in gene set: 11608.36
Median rank of genes in gene set: 12919
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
FCGR2B 0.0005665 639 GTEx DepMap Descartes 0.07 12.63
DNASE1L3 0.0003007 1206 GTEx DepMap Descartes 0.08 27.56
CLDN5 0.0002879 1261 GTEx DepMap Descartes 0.12 24.20
APLNR 0.0002011 1782 GTEx DepMap Descartes 0.03 4.48
PLVAP 0.0001729 2033 GTEx DepMap Descartes 0.16 31.72
SOX18 0.0001161 2746 GTEx DepMap Descartes 0.07 16.33
IRX3 0.0000453 4506 GTEx DepMap Descartes 0.02 3.21
RAMP2 0.0000386 4749 GTEx DepMap Descartes 0.09 44.55
KANK3 0.0000361 4870 GTEx DepMap Descartes 0.07 12.39
MMRN2 0.0000358 4882 GTEx DepMap Descartes 0.07 6.51
TM4SF18 0.0000014 6885 GTEx DepMap Descartes 0.01 1.20
F8 -0.0000015 7720 GTEx DepMap Descartes 0.10 7.10
NPR1 -0.0000016 7725 GTEx DepMap Descartes 0.01 1.12
ROBO4 -0.0000081 8498 GTEx DepMap Descartes 0.04 5.00
SHE -0.0000279 10642 GTEx DepMap Descartes 0.03 2.00
TIE1 -0.0000424 11843 GTEx DepMap Descartes 0.07 6.96
ECSCR -0.0000437 11943 GTEx DepMap Descartes 0.00 0.00
ID1 -0.0000442 11979 GTEx DepMap Descartes 0.11 40.69
PODXL -0.0000462 12112 GTEx DepMap Descartes 0.23 11.87
SLCO2A1 -0.0000500 12418 GTEx DepMap Descartes 0.11 9.23
ESM1 -0.0000515 12520 GTEx DepMap Descartes 0.02 4.66
RASIP1 -0.0000563 12848 GTEx DepMap Descartes 0.04 4.09
HYAL2 -0.0000585 12990 GTEx DepMap Descartes 0.11 14.81
KDR -0.0000594 13051 GTEx DepMap Descartes 0.04 2.16
CRHBP -0.0000618 13206 GTEx DepMap Descartes 0.00 2.35
NOTCH4 -0.0000712 13750 GTEx DepMap Descartes 0.04 2.12
TEK -0.0000715 13763 GTEx DepMap Descartes 0.11 16.34
CDH5 -0.0000741 13908 GTEx DepMap Descartes 0.05 5.18
FLT4 -0.0000801 14218 GTEx DepMap Descartes 0.03 2.12
BTNL9 -0.0000808 14246 GTEx DepMap Descartes 0.08 7.25


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: 1.00e+00
Mean rank of genes in gene set: 14591
Median rank of genes in gene set: 15314
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SCARA5 0.0000829 3468 GTEx DepMap Descartes 0.01 2.04
IGFBP3 0.0000620 4000 GTEx DepMap Descartes 0.21 41.08
ITGA11 0.0000156 5866 GTEx DepMap Descartes 0.11 5.34
LUM 0.0000049 6593 GTEx DepMap Descartes 0.34 72.48
MGP -0.0000041 8018 GTEx DepMap Descartes 1.15 321.06
ACTA2 -0.0000240 10259 GTEx DepMap Descartes 0.60 169.84
CCDC80 -0.0000245 10314 GTEx DepMap Descartes 0.17 8.18
CLDN11 -0.0000320 11016 GTEx DepMap Descartes 0.00 0.00
C7 -0.0000334 11139 GTEx DepMap Descartes 0.88 75.52
ISLR -0.0000345 11229 GTEx DepMap Descartes 0.03 4.94
LRRC17 -0.0000376 11465 GTEx DepMap Descartes 0.07 29.15
LAMC3 -0.0000385 11545 GTEx DepMap Descartes 0.04 1.96
RSPO3 -0.0000472 12193 GTEx DepMap Descartes 0.03 NA
SULT1E1 -0.0000508 12463 GTEx DepMap Descartes 0.00 0.00
PRRX1 -0.0000513 12495 GTEx DepMap Descartes 0.32 39.28
FNDC1 -0.0000633 13288 GTEx DepMap Descartes 0.06 2.93
COL6A3 -0.0000640 13328 GTEx DepMap Descartes 0.57 26.88
DCN -0.0000894 14687 GTEx DepMap Descartes 0.28 21.94
CDH11 -0.0000908 14755 GTEx DepMap Descartes 0.46 34.96
PCDH18 -0.0000920 14823 GTEx DepMap Descartes 0.02 2.10
CD248 -0.0000929 14864 GTEx DepMap Descartes 0.02 5.67
ZNF385D -0.0000975 15057 GTEx DepMap Descartes 0.35 12.92
GLI2 -0.0000990 15117 GTEx DepMap Descartes 0.15 9.51
LOX -0.0001032 15300 GTEx DepMap Descartes 0.02 2.16
ELN -0.0001034 15314 GTEx DepMap Descartes 0.18 20.44
EDNRA -0.0001052 15386 GTEx DepMap Descartes 0.10 11.72
MXRA5 -0.0001180 15916 GTEx DepMap Descartes 0.02 0.61
COL12A1 -0.0001321 16375 GTEx DepMap Descartes 0.28 11.79
SFRP2 -0.0001357 16488 GTEx DepMap Descartes 0.06 15.01
COL27A1 -0.0001375 16551 GTEx DepMap Descartes 0.12 8.61


Descartes sympathoblasts markers
Top 50 marker genes of sympathoblasts cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/sympathoblasts/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 1.00e+00
Mean rank of genes in gene set: 17721.02
Median rank of genes in gene set: 18908
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
EML6 0.0000120 6086 GTEx DepMap Descartes 0.92 58.70
PNMT 0.0000048 6598 GTEx DepMap Descartes 0.02 11.31
SLC24A2 -0.0000319 11001 GTEx DepMap Descartes 0.26 7.32
SLC35F3 -0.0000713 13752 GTEx DepMap Descartes 0.68 58.94
TIAM1 -0.0000727 13828 GTEx DepMap Descartes 1.55 123.49
ARC -0.0000781 14116 GTEx DepMap Descartes 0.11 14.46
CNTN3 -0.0000863 14542 GTEx DepMap Descartes 0.10 10.11
HTATSF1 -0.0000947 14938 GTEx DepMap Descartes 0.18 26.69
C1QL1 -0.0001351 16475 GTEx DepMap Descartes 0.08 21.44
TMEM130 -0.0001364 16514 GTEx DepMap Descartes 0.26 36.07
NTNG1 -0.0001584 17178 GTEx DepMap Descartes 0.95 86.29
DGKK -0.0001621 17287 GTEx DepMap Descartes 0.07 3.13
SLC18A1 -0.0001731 17579 GTEx DepMap Descartes 0.08 11.77
SCG2 -0.0001758 17633 GTEx DepMap Descartes 1.73 473.33
PENK -0.0001761 17641 GTEx DepMap Descartes 0.01 9.78
KSR2 -0.0001775 17672 GTEx DepMap Descartes 0.46 9.17
LAMA3 -0.0001980 18096 GTEx DepMap Descartes 0.33 10.52
GRM7 -0.0001987 18115 GTEx DepMap Descartes 0.56 51.37
CHGA -0.0002138 18408 GTEx DepMap Descartes 0.40 130.16
CNTNAP5 -0.0002158 18445 GTEx DepMap Descartes 0.27 20.55
ST18 -0.0002364 18778 GTEx DepMap Descartes 0.19 15.97
SPOCK3 -0.0002457 18908 GTEx DepMap Descartes 0.25 46.46
SORCS3 -0.0002610 19103 GTEx DepMap Descartes 0.12 9.55
GCH1 -0.0002631 19132 GTEx DepMap Descartes 0.45 71.32
GRID2 -0.0002765 19270 GTEx DepMap Descartes 0.74 34.12
INSM1 -0.0002789 19292 GTEx DepMap Descartes 0.06 11.44
CDH18 -0.0002942 19422 GTEx DepMap Descartes 0.32 41.22
PCSK2 -0.0002959 19443 GTEx DepMap Descartes 0.37 19.17
PACRG -0.0003314 19688 GTEx DepMap Descartes 0.86 174.53
CHGB -0.0003463 19786 GTEx DepMap Descartes 1.46 426.20


Descartes erythroblasts markers
Top 50 marker genes of erythroblasts cells in the Decartes fetal adrenal single cell map (https://atlas.brotmanbaty.org/bbi/human-gene-expression-during-development/cell/erythroblasts/in/adrenal)
Wilcoxon ranksum test P-value for gene set overrepresentation: 7.04e-01
Mean rank of genes in gene set: 10763.8
Median rank of genes in gene set: 10455
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
GYPC 0.0008434 414 GTEx DepMap Descartes 0.24 82.50
EPB41 0.0004169 876 GTEx DepMap Descartes 1.77 173.29
RAPGEF2 0.0002652 1359 GTEx DepMap Descartes 2.27 167.77
CPOX 0.0001760 1997 GTEx DepMap Descartes 0.04 10.69
TMCC2 0.0001727 2036 GTEx DepMap Descartes 0.10 23.46
BLVRB 0.0001158 2758 GTEx DepMap Descartes 0.18 84.85
SLC4A1 0.0000535 4252 GTEx DepMap Descartes 0.01 1.61
HBB 0.0000484 4413 GTEx DepMap Descartes 0.21 140.88
HBZ 0.0000384 4756 GTEx DepMap Descartes 0.01 11.48
HEMGN 0.0000354 4898 GTEx DepMap Descartes 0.00 0.31
HBA1 0.0000269 5262 GTEx DepMap Descartes 0.03 24.79
ABCB10 0.0000264 5296 GTEx DepMap Descartes 0.24 32.97
HBG1 0.0000066 6479 GTEx DepMap Descartes 0.00 0.00
AHSP 0.0000048 6604 GTEx DepMap Descartes 0.00 0.00
SPTA1 0.0000004 6969 GTEx DepMap Descartes 0.00 0.77
HBG2 0.0000000 7371 GTEx DepMap Descartes 0.00 0.00
SELENBP1 -0.0000013 7706 GTEx DepMap Descartes 0.01 1.55
CR1L -0.0000023 7792 GTEx DepMap Descartes 0.02 7.13
RHCE -0.0000114 8874 GTEx DepMap Descartes 0.05 15.34
GYPE -0.0000172 9539 GTEx DepMap Descartes 0.02 7.77
HBA2 -0.0000179 9630 GTEx DepMap Descartes 0.07 53.17
FECH -0.0000207 9921 GTEx DepMap Descartes 0.15 9.19
HBM -0.0000229 10152 GTEx DepMap Descartes 0.00 3.86
RHD -0.0000292 10758 GTEx DepMap Descartes 0.08 16.12
DENND4A -0.0000398 11655 GTEx DepMap Descartes 1.85 124.49
ALAS2 -0.0000432 11905 GTEx DepMap Descartes 0.00 0.41
RHAG -0.0000563 12846 GTEx DepMap Descartes 0.01 1.19
EPB42 -0.0000629 13278 GTEx DepMap Descartes 0.00 0.00
CAT -0.0000711 13739 GTEx DepMap Descartes 0.20 58.47
GYPA -0.0000786 14142 GTEx DepMap Descartes 0.00 0.00


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: 1.13e-01
Mean rank of genes in gene set: 9268.63
Median rank of genes in gene set: 7942
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
SFMBT2 0.0011292 277 GTEx DepMap Descartes 2.33 219.12
CD74 0.0010669 297 GTEx DepMap Descartes 1.46 327.41
CTSS 0.0008749 390 GTEx DepMap Descartes 0.58 94.71
ITPR2 0.0008685 397 GTEx DepMap Descartes 3.26 170.95
HLA-DRA 0.0007861 433 GTEx DepMap Descartes 0.65 372.64
HLA-DPA1 0.0004710 779 GTEx DepMap Descartes 0.30 43.46
HLA-DRB1 0.0004194 872 GTEx DepMap Descartes 0.15 79.89
C1QA 0.0003776 957 GTEx DepMap Descartes 0.19 146.66
MPEG1 0.0002264 1574 GTEx DepMap Descartes 0.09 14.52
MERTK 0.0002012 1780 GTEx DepMap Descartes 0.70 131.93
SPP1 0.0001965 1820 GTEx DepMap Descartes 0.71 260.95
C1QB 0.0001678 2087 GTEx DepMap Descartes 0.15 87.38
CTSC 0.0001591 2174 GTEx DepMap Descartes 0.30 28.93
FGL2 0.0001573 2199 GTEx DepMap Descartes 0.11 17.06
CST3 0.0001566 2205 GTEx DepMap Descartes 0.56 112.91
C1QC 0.0001519 2250 GTEx DepMap Descartes 0.09 43.21
SLC9A9 0.0001076 2914 GTEx DepMap Descartes 1.17 194.18
CD14 0.0001054 2954 GTEx DepMap Descartes 0.11 45.78
CYBB 0.0000967 3150 GTEx DepMap Descartes 0.01 0.43
RNASE1 0.0000566 4172 GTEx DepMap Descartes 0.05 27.81
LGMN 0.0000405 4684 GTEx DepMap Descartes 0.40 109.06
CD163L1 0.0000380 4775 GTEx DepMap Descartes 0.27 28.22
FGD2 0.0000204 5624 GTEx DepMap Descartes 0.15 19.93
IFNGR1 0.0000084 6347 GTEx DepMap Descartes 0.29 61.00
ADAP2 -0.0000035 7942 GTEx DepMap Descartes 0.21 43.90
CTSD -0.0000190 9763 GTEx DepMap Descartes 0.00 0.00
TGFBI -0.0000438 11952 GTEx DepMap Descartes 0.20 23.50
CTSB -0.0000555 12795 GTEx DepMap Descartes 0.64 88.61
MS4A7 -0.0000632 13284 GTEx DepMap Descartes 0.02 2.09
CSF1R -0.0000735 13867 GTEx DepMap Descartes 0.09 12.77


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: 1.00e+00
Mean rank of genes in gene set: 15522.49
Median rank of genes in gene set: 17655
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
VIM 0.0006671 527 GTEx DepMap Descartes 1.91 391.22
PAG1 0.0001733 2027 GTEx DepMap Descartes 1.41 76.06
PTN 0.0001039 2982 GTEx DepMap Descartes 0.26 104.64
KCTD12 0.0000567 4169 GTEx DepMap Descartes 0.15 11.14
MPZ 0.0000189 5703 GTEx DepMap Descartes 0.04 9.72
PLP1 0.0000018 6847 GTEx DepMap Descartes 0.03 6.79
GFRA3 -0.0000158 9384 GTEx DepMap Descartes 0.08 22.59
MARCKS -0.0000266 10511 GTEx DepMap Descartes 1.29 201.17
ERBB4 -0.0000361 11359 GTEx DepMap Descartes 1.87 47.17
ERBB3 -0.0000412 11754 GTEx DepMap Descartes 0.01 2.33
OLFML2A -0.0000452 12051 GTEx DepMap Descartes 0.07 4.57
ADAMTS5 -0.0000558 12813 GTEx DepMap Descartes 0.06 3.31
SOX10 -0.0000694 13647 GTEx DepMap Descartes 0.02 5.05
CDH19 -0.0000734 13865 GTEx DepMap Descartes 0.23 18.91
HMGA2 -0.0000891 14669 GTEx DepMap Descartes 0.04 3.04
TRPM3 -0.0000947 14939 GTEx DepMap Descartes 0.21 8.85
XKR4 -0.0000965 15004 GTEx DepMap Descartes 0.81 14.30
PTPRZ1 -0.0001050 15376 GTEx DepMap Descartes 0.07 5.81
EDNRB -0.0001054 15395 GTEx DepMap Descartes 0.14 14.72
MDGA2 -0.0001206 16016 GTEx DepMap Descartes 0.66 31.87
IL1RAPL2 -0.0001390 16586 GTEx DepMap Descartes 0.25 46.98
PMP22 -0.0001395 16599 GTEx DepMap Descartes 0.48 109.20
COL25A1 -0.0001471 16844 GTEx DepMap Descartes 0.25 15.12
LAMC1 -0.0001738 17590 GTEx DepMap Descartes 0.63 35.59
LAMA4 -0.0001768 17655 GTEx DepMap Descartes 0.63 35.75
ABCA8 -0.0001788 17705 GTEx DepMap Descartes 0.15 9.64
SORCS1 -0.0001852 17839 GTEx DepMap Descartes 1.06 63.50
EGFLAM -0.0002233 18579 GTEx DepMap Descartes 0.28 29.70
SCN7A -0.0002378 18796 GTEx DepMap Descartes 0.42 24.51
GRIK3 -0.0002517 18986 GTEx DepMap Descartes 0.07 3.08


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: 7.03e-01
Mean rank of genes in gene set: 10746.39
Median rank of genes in gene set: 11994
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
P2RX1 0.0036172 59 GTEx DepMap Descartes 0.46 140.23
HIPK2 0.0019151 140 GTEx DepMap Descartes 2.96 137.93
TPM4 0.0006962 500 GTEx DepMap Descartes 1.49 214.37
RAP1B 0.0006758 519 GTEx DepMap Descartes 1.77 81.78
FERMT3 0.0004501 817 GTEx DepMap Descartes 0.16 47.72
FLI1 0.0003595 1009 GTEx DepMap Descartes 0.87 115.38
BIN2 0.0002830 1278 GTEx DepMap Descartes 0.23 49.18
ACTB 0.0002789 1294 GTEx DepMap Descartes 3.78 1062.87
GP1BA 0.0002635 1371 GTEx DepMap Descartes 0.02 5.14
TMSB4X 0.0002457 1451 GTEx DepMap Descartes 3.14 1214.08
PLEK 0.0002285 1556 GTEx DepMap Descartes 0.12 32.79
TLN1 0.0001145 2790 GTEx DepMap Descartes 0.37 24.84
FLNA 0.0001113 2852 GTEx DepMap Descartes 0.43 24.20
CD84 0.0000681 3813 GTEx DepMap Descartes 0.13 9.83
MYLK 0.0000570 4157 GTEx DepMap Descartes 0.24 8.35
TGFB1 0.0000361 4866 GTEx DepMap Descartes 0.44 101.39
PF4 0.0000282 5197 GTEx DepMap Descartes 0.00 5.71
ITGB3 0.0000277 5229 GTEx DepMap Descartes 0.00 0.00
PPBP 0.0000171 5790 GTEx DepMap Descartes 0.00 0.00
GP9 -0.0000088 8574 GTEx DepMap Descartes 0.00 0.00
UBASH3B -0.0000384 11538 GTEx DepMap Descartes 0.88 62.61
MYH9 -0.0000389 11585 GTEx DepMap Descartes 1.13 81.04
GSN -0.0000417 11790 GTEx DepMap Descartes 0.55 48.56
ZYX -0.0000430 11894 GTEx DepMap Descartes 0.13 24.84
ARHGAP6 -0.0000444 11994 GTEx DepMap Descartes 0.42 30.02
SPN -0.0000567 12873 GTEx DepMap Descartes 0.00 0.00
MMRN1 -0.0000651 13396 GTEx DepMap Descartes 0.20 10.94
ITGA2B -0.0001070 15478 GTEx DepMap Descartes 0.06 8.80
TUBB1 -0.0001073 15492 GTEx DepMap Descartes 0.01 0.36
LIMS1 -0.0001107 15626 GTEx DepMap Descartes 1.11 180.51


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: 3.76e-01
Mean rank of genes in gene set: 10019.43
Median rank of genes in gene set: 12084
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
HLA-B 0.0020548 127 GTEx DepMap Descartes 0.97 470.74
B2M 0.0019104 141 GTEx DepMap Descartes 5.12 1507.56
HLA-C 0.0017390 163 GTEx DepMap Descartes 0.56 192.69
MCTP2 0.0015705 192 GTEx DepMap Descartes 0.73 67.97
HLA-A 0.0009002 377 GTEx DepMap Descartes 0.90 116.46
ARHGAP15 0.0005933 612 GTEx DepMap Descartes 3.08 735.34
ARID5B 0.0004934 749 GTEx DepMap Descartes 1.70 132.59
IKZF1 0.0004869 755 GTEx DepMap Descartes 1.27 144.17
WIPF1 0.0004667 786 GTEx DepMap Descartes 1.21 163.22
SP100 0.0004580 802 GTEx DepMap Descartes 1.07 145.88
IFI16 0.0004530 810 GTEx DepMap Descartes 0.64 102.39
ANKRD44 0.0004453 824 GTEx DepMap Descartes 3.42 339.64
ARHGDIB 0.0003722 972 GTEx DepMap Descartes 0.27 173.81
SKAP1 0.0003681 985 GTEx DepMap Descartes 1.45 578.92
LCP1 0.0002550 1412 GTEx DepMap Descartes 0.37 60.32
PTPRC 0.0002267 1570 GTEx DepMap Descartes 1.63 195.30
LEF1 0.0002009 1783 GTEx DepMap Descartes 1.49 249.27
MBNL1 0.0001640 2134 GTEx DepMap Descartes 4.85 499.58
PLEKHA2 0.0001262 2590 GTEx DepMap Descartes 0.62 68.12
MSN 0.0001048 2967 GTEx DepMap Descartes 0.53 78.44
NKG7 0.0001012 3052 GTEx DepMap Descartes 0.02 13.49
CD44 0.0000903 3279 GTEx DepMap Descartes 2.14 192.34
CCL5 0.0000772 3601 GTEx DepMap Descartes 0.06 46.18
RCSD1 -0.0000457 12084 GTEx DepMap Descartes 0.76 96.51
CCND3 -0.0000659 13456 GTEx DepMap Descartes 1.87 431.09
SAMD3 -0.0001077 15505 GTEx DepMap Descartes 0.24 45.76
FOXP1 -0.0001093 15578 GTEx DepMap Descartes 0.23 13.79
DOCK10 -0.0001196 15975 GTEx DepMap Descartes 1.76 137.66
ITPKB -0.0001302 16320 GTEx DepMap Descartes 0.54 49.29
BCL2 -0.0001306 16338 GTEx DepMap Descartes 3.92 299.87


Embryonic Pausing Signatures Up
Embryonic pausing signature upregulated genes from Supplementary Table 6 of Rehman et al. Cell 2021. These genes are upregulated in paused ESCs and diapaused embryos.
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.25e-02
Mean rank of genes in gene set: 7121
Median rank of genes in gene set: 6745
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
ACSS1 0.0018428 149 GTEx DepMap Descartes 0.41 70.58
PDCD4 0.0005276 695 GTEx DepMap Descartes 0.85 167.40
DPP7 0.0003835 947 GTEx DepMap Descartes 0.35 147.77
APOE 0.0002577 1398 GTEx DepMap Descartes 1.39 686.82
RENBP 0.0000628 3978 GTEx DepMap Descartes 0.07 28.45
ALDH6A1 0.0000303 5112 GTEx DepMap Descartes 0.08 7.96
HEXB 0.0000061 6517 GTEx DepMap Descartes 0.21 61.25
CTSL 0.0000003 6973 GTEx DepMap Descartes 0.26 NA
LY6G6E 0.0000000 7464 GTEx DepMap Descartes 0.00 0.00
AUH -0.0000054 8174 GTEx DepMap Descartes 1.11 392.59
SPRY1 -0.0000331 11109 GTEx DepMap Descartes 0.30 50.93
HEXA -0.0000675 13543 GTEx DepMap Descartes 0.04 2.43
CCNG2 -0.0001064 15449 GTEx DepMap Descartes 0.27 29.55
YPEL2 -0.0002023 18186 GTEx DepMap Descartes 0.39 34.65


Embryonic Pausing Signatures Down
Embryonic pausing signature downregulated genes from Supplementary Table 6 of Rehman et al. Cell 2021. These genes are downregulated in paused ESCs and diapaused embryos.
Wilcoxon ranksum test P-value for gene set overrepresentation: 3.33e-01
Mean rank of genes in gene set: 10043.5
Median rank of genes in gene set: 9997
Rank on gene expression program of top 30 genes in gene set:

Genes Weight Rank GTEx DepMap Descartes Mean.Counts Mean.TPM
HDLBP 0.0010655 298 GTEx DepMap Descartes 1.29 141.35
ANKRD37 0.0005995 604 GTEx DepMap Descartes 0.09 32.39
P4HB 0.0004007 910 GTEx DepMap Descartes 0.82 215.58
CENPM 0.0003002 1208 GTEx DepMap Descartes 0.10 68.90
PLAC8 0.0002993 1213 GTEx DepMap Descartes 0.14 45.29
ARPC1B 0.0002958 1226 GTEx DepMap Descartes 0.09 35.03
DAD1 0.0002507 1428 GTEx DepMap Descartes 0.39 365.32
ATOX1 0.0002332 1525 GTEx DepMap Descartes 0.37 60.60
SEC13 0.0002261 1576 GTEx DepMap Descartes 0.31 89.67
PSMB4 0.0002095 1713 GTEx DepMap Descartes 0.31 82.00
MGMT 0.0001947 1837 GTEx DepMap Descartes 0.89 112.74
CAPG 0.0001803 1963 GTEx DepMap Descartes 0.06 31.87
MRPL20 0.0001780 1984 GTEx DepMap Descartes 0.34 128.96
INO80E 0.0001746 2012 GTEx DepMap Descartes 0.21 31.00
BRMS1 0.0001568 2202 GTEx DepMap Descartes 0.07 27.20
CCNE1 0.0001473 2318 GTEx DepMap Descartes 0.04 9.30
TMEM258 0.0001419 2388 GTEx DepMap Descartes 0.35 NA
MRPS18A 0.0001270 2577 GTEx DepMap Descartes 0.07 45.20
DRG2 0.0001048 2966 GTEx DepMap Descartes 0.11 11.84
PSMG3 0.0001031 3003 GTEx DepMap Descartes 0.13 51.73
TMEM109 0.0000888 3318 GTEx DepMap Descartes 0.07 18.29
FAM118B 0.0000821 3488 GTEx DepMap Descartes 0.11 28.95
ELOF1 0.0000802 3527 GTEx DepMap Descartes 0.06 14.70
RPS19BP1 0.0000779 3579 GTEx DepMap Descartes 0.18 42.42
ASB6 0.0000712 3733 GTEx DepMap Descartes 0.07 8.82
TMEM39B 0.0000695 3778 GTEx DepMap Descartes 0.20 45.31
PSMD13 0.0000684 3806 GTEx DepMap Descartes 0.23 74.86
ID3 0.0000621 3996 GTEx DepMap Descartes 0.27 100.49
PSMB10 0.0000593 4086 GTEx DepMap Descartes 0.02 4.52
EXOSC4 0.0000582 4118 GTEx DepMap Descartes 0.05 36.81


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.


Double-negative thymocytes: Double-negative thymocytes (model markers)
the early immature thymocytes from the thymus in the double negative (co-receptors CD4- and CD8-) stage:
Wilcoxon ranksum test P-value for gene set overrepresentation: 2.55e-05
Mean rank of genes in gene set: 2683.1
Rank on gene expression program of genes in gene set:
Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
JCHAIN 0.0199077 5 GTEx DepMap Descartes 2.23 NA
MZB1 0.0117065 14 GTEx DepMap Descartes 1.42 NA
CD99 0.0003732 967 GTEx DepMap Descartes 0.72 289.77
PTCRA 0.0003190 1135 GTEx DepMap Descartes 0.12 49.43
IGLL1 0.0003003 1207 GTEx DepMap Descartes 0.02 14.14
CD7 0.0002112 1701 GTEx DepMap Descartes 0.05 9.64
FXYD2 0.0000474 4451 GTEx DepMap Descartes 0.00 0.50
PDLIM1 0.0000201 5636 GTEx DepMap Descartes 0.36 132.04
MFAP4 0.0000160 5845 GTEx DepMap Descartes 0.03 10.06
SELL 0.0000156 5870 GTEx DepMap Descartes 0.09 23.86


Mono-mac: Mono-mac (model markers)
mononuclear phagocytes including monocytes and macrophages that are involved in the regulation of innate and adaptive immunity:
Wilcoxon ranksum test P-value for gene set overrepresentation: 3.28e-05
Mean rank of genes in gene set: 2793.9
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
HLA-DRA 0.0007861 433 GTEx DepMap Descartes 0.65 372.64
LYZ 0.0005607 647 GTEx DepMap Descartes 0.25 106.30
SAT1 0.0003095 1167 GTEx DepMap Descartes 1.98 948.78
KRT13 0.0002195 1623 GTEx DepMap Descartes 0.00 4.68
KLRB1 0.0001613 2157 GTEx DepMap Descartes 0.05 22.20
C1QC 0.0001519 2250 GTEx DepMap Descartes 0.09 43.21
S100A2 0.0001237 2627 GTEx DepMap Descartes 0.01 2.29
NKG7 0.0001012 3052 GTEx DepMap Descartes 0.02 13.49
FTH1 0.0000383 4760 GTEx DepMap Descartes 2.53 1261.26
SPRR3 -0.0000144 9223 GTEx DepMap Descartes 0.00 0.00


Macrophages: Macrophages (model markers)
specialised mononuclear phagocytic cells which recognise:
Wilcoxon ranksum test P-value for gene set overrepresentation: 3.40e-05
Mean rank of genes in gene set: 2809.4
Rank on gene expression program of genes in gene set:

Genes Weight Rank GTEx DepMap Decartes Mean.Counts Mean.TPM
FTL 0.0005342 687 GTEx DepMap Descartes 3.31 2120.43
C1QA 0.0003776 957 GTEx DepMap Descartes 0.19 146.66
SELENOP 0.0003405 1061 GTEx DepMap Descartes 0.46 NA
APOE 0.0002577 1398 GTEx DepMap Descartes 1.39 686.82
C1QB 0.0001678 2087 GTEx DepMap Descartes 0.15 87.38
GNLY 0.0001317 2518 GTEx DepMap Descartes 0.03 8.53
APOC1 0.0000628 3972 GTEx DepMap Descartes 0.33 312.00
RNASE1 0.0000566 4172 GTEx DepMap Descartes 0.05 27.81
FTH1 0.0000383 4760 GTEx DepMap Descartes 2.53 1261.26
CD5L 0.0000065 6482 GTEx DepMap Descartes 0.02 4.08