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Coexpression cluster:C206

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Full id: C206_melanoma_somatostatinoma_nonsmall_small_neuroblastoma_smallcell_pituitary



Phase1 CAGE Peaks

  Short description
Hg19::chr10:7576104..7576107,+ p@chr10:7576104..7576107
+
Hg19::chr11:102595591..102595599,- p2@MMP8
Hg19::chr12:109219937..109219944,- p14@SSH1
Hg19::chr12:56078416..56078434,- p@chr12:56078416..56078434
-
Hg19::chr12:56347918..56347929,- p1@ENST00000554053
Hg19::chr12:56347949..56347964,- p3@ENST00000554053
Hg19::chr12:56347974..56347983,- p4@ENST00000554053
Hg19::chr12:56347996..56348011,- p2@ENST00000554053
Hg19::chr12:56352176..56352182,- p@chr12:56352176..56352182
-
Hg19::chr12:56352244..56352258,- p5@PMEL
Hg19::chr13:109149332..109149345,- p@chr13:109149332..109149345
-
Hg19::chr15:33261464..33261481,- p@chr15:33261464..33261481
-
Hg19::chr15:81474771..81474784,+ p13@IL16
Hg19::chr16:34442315..34442323,+ p@chr16:34442315..34442323
+
Hg19::chr18:64249873..64249877,- p@chr18:64249873..64249877
-
Hg19::chr1:153604428..153604442,+ p@chr1:153604428..153604442
+
Hg19::chr20:60330113..60330129,- p1@ENST00000447909
Hg19::chr22:22890694..22890704,- p8@PRAME
Hg19::chr22:22892274..22892288,- p@chr22:22892274..22892288
-
Hg19::chr2:122660104..122660115,+ p@chr2:122660104..122660115
+
Hg19::chr2:12455600..12455618,+ p@chr2:12455600..12455618
+
Hg19::chr2:28768212..28768254,+ p@chr2:28768212..28768254
+
Hg19::chr2:34359425..34359427,+ p@chr2:34359425..34359427
+
Hg19::chr2:37551500..37551518,- p9@PRKD3
Hg19::chr2:85987891..85987897,+ p22@ATOH8
Hg19::chr4:23905683..23905691,- p6@PPARGC1A
Hg19::chr6:165597175..165597184,- p@chr6:165597175..165597184
-
Hg19::chr6:165597234..165597249,- p@chr6:165597234..165597249
-
Hg19::chr7:100805828..100805836,- p@chr7:100805828..100805836
-
Hg19::chr7:100805847..100805856,- p@chr7:100805847..100805856
-
Hg19::chr7:100806148..100806155,- p@chr7:100806148..100806155
-
Hg19::chr7:100806157..100806162,- p@chr7:100806157..100806162
-
Hg19::chr7:100806199..100806216,- p@chr7:100806199..100806216
-
Hg19::chr7:100806427..100806441,- p@chr7:100806427..100806441
-
Hg19::chr7:100806481..100806491,- p@chr7:100806481..100806491
-
Hg19::chr7:100806494..100806505,- p@chr7:100806494..100806505
-
Hg19::chr7:100806543..100806554,- p@chr7:100806543..100806554
-
Hg19::chr7:100806567..100806600,- p@chr7:100806567..100806600
-
Hg19::chr7:100806665..100806726,+ p@chr7:100806665..100806726
+
Hg19::chr7:100806730..100806789,+ p@chr7:100806730..100806789
+
Hg19::chr7:100806851..100806862,- p@chr7:100806851..100806862
-
Hg19::chr7:100806914..100806937,+ p@chr7:100806914..100806937
+
Hg19::chr7:100806958..100806976,+ p@chr7:100806958..100806976
+
Hg19::chr7:100806981..100806993,- p@chr7:100806981..100806993
-
Hg19::chr7:100807004..100807014,+ p@chr7:100807004..100807014
+
Hg19::chr7:100807335..100807344,+ p@chr7:100807335..100807344
+
Hg19::chr7:100807359..100807373,- p@chr7:100807359..100807373
-
Hg19::chr7:100807419..100807430,- p@chr7:100807419..100807430
-
Hg19::chr7:100807523..100807543,+ p@chr7:100807523..100807543
+
Hg19::chr7:100807835..100807861,- p@chr7:100807835..100807861
-
Hg19::chr7:100807886..100807899,- p@chr7:100807886..100807899
-
Hg19::chr7:100808087..100808104,- p@chr7:100808087..100808104
-
Hg19::chr7:100808304..100808313,- p5@VGF
Hg19::chr7:100808620..100808648,- p4@VGF
Hg19::chr7:100808843..100808858,- p1@VGF
Hg19::chr7:104418730..104418735,- p@chr7:104418730..104418735
-
Hg19::chr7:104422480..104422488,- p@chr7:104422480..104422488
-
Hg19::chr7:104427340..104427345,- -
p@chr7:104427340..104427345
Hg19::chr7:104443997..104444016,- p1@ENST00000450896
Hg19::chr7:104444519..104444532,- p1@ENST00000411448
p1@ENST00000417290
p1@uc003vcg.2
Hg19::chr7:104444538..104444574,- p1@LOC645591
Hg19::chr7:135777671..135777676,+ p1@ENST00000445293
Hg19::chr7:22852667..22852682,- p@chr7:22852667..22852682
-
Hg19::chr7:6297405..6297429,- p@chr7:6297405..6297429
-
Hg19::chr7:98992335..98992365,+ p@chr7:98992335..98992365
+
Hg19::chr9:22216803..22216809,- p@chr9:22216803..22216809
-
Hg19::chr9:22216815..22216826,+ p@chr9:22216815..22216826
+
Hg19::chr9:22216862..22216867,+ p@chr9:22216862..22216867
+
Hg19::chr9:22216863..22216869,- p@chr9:22216863..22216869
-
Hg19::chr9:22216920..22216921,+ p@chr9:22216920..22216921
+
Hg19::chr9:22217116..22217128,+ p@chr9:22217116..22217128
+
Hg19::chr9:22340313..22340318,+ p@chr9:22340313..22340318
+
Hg19::chr9:22407849..22407853,+ p@chr9:22407849..22407853
+
Hg19::chr9:73216801..73216815,+ p@chr9:73216801..73216815
+
Hg19::chrX:153135912..153135932,- p9@L1CAM
Hg19::chrX:67332272..67332295,- p8@OPHN1
Hg19::chrX:67332313..67332323,- p17@OPHN1


Enriched pathways on this co-expression cluster
Summary:


Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.
Analyst: Emmanuel Dimont

link to source dataset


data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster
Summary: Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter.
Analyst: Erik Arner



link to source dataset


data

GO IDGO nameFDR corrected p-value
GO:0008130neutrophil collagenase activity0.0276156719696426
GO:0035066positive regulation of histone acetylation0.0276156719696426
GO:0007586digestion0.0276156719696426
GO:0004232interstitial collagenase activity0.0276156719696426
GO:0031058positive regulation of histone modification0.0276156719696426
GO:0045722positive regulation of gluconeogenesis0.0276156719696426
GO:0035065regulation of histone acetylation0.0276156719696426
GO:0005515protein binding0.0276156719696426
GO:0046321positive regulation of fatty acid oxidation0.0281758957954588
GO:0031056regulation of histone modification0.0281758957954588
GO:0001678cell glucose homeostasis0.0281758957954588
GO:0006930substrate-bound cell migration, cell extension0.0281758957954588
GO:0006111regulation of gluconeogenesis0.0281758957954588
GO:0046320regulation of fatty acid oxidation0.0281758957954588
GO:0008133collagenase activity0.0281758957954588
GO:0050873brown fat cell differentiation0.0281758957954588
GO:0032502developmental process0.0281758957954588
GO:0045923positive regulation of fatty acid metabolic process0.0281758957954588
GO:0043255regulation of carbohydrate biosynthetic process0.0281758957954588
GO:0048856anatomical structure development0.0281758957954588
GO:0016477cell migration0.0281758957954588
GO:0045913positive regulation of carbohydrate metabolic process0.0281758957954588
GO:0001659thermoregulation0.0281758957954588
GO:0030036actin cytoskeleton organization and biogenesis0.0281758957954588
GO:0006109regulation of carbohydrate metabolic process0.0281758957954588
GO:0019217regulation of fatty acid metabolic process0.0281758957954588
GO:0050930induction of positive chemotaxis0.0281758957954588
GO:0030029actin filament-based process0.0281758957954588
GO:0006929substrate-bound cell migration0.0281758957954588
GO:0032501multicellular organismal process0.0281758957954588
GO:0005102receptor binding0.0281758957954588
GO:0050926regulation of positive chemotaxis0.0281758957954588
GO:0045834positive regulation of lipid metabolic process0.0281758957954588
GO:0050927positive regulation of positive chemotaxis0.0281758957954588
GO:0050918positive chemotaxis0.0281758957954588
GO:0051054positive regulation of DNA metabolic process0.0281758957954588
GO:0050921positive regulation of chemotaxis0.0301518298716268
GO:0050920regulation of chemotaxis0.0320230610583892
GO:0042594response to starvation0.0329527024966334
GO:0016573histone acetylation0.0329527024966334
GO:0051130positive regulation of cellular component organization and biogenesis0.0337842185434333
GO:0050821protein stabilization0.0337842185434333
GO:0004697protein kinase C activity0.0337842185434333
GO:0001565phorbol ester receptor activity0.0337842185434333
GO:0042593glucose homeostasis0.0337842185434333
GO:0016455RNA polymerase II transcription mediator activity0.0337842185434333
GO:0045444fat cell differentiation0.0337842185434333
GO:0033500carbohydrate homeostasis0.0337842185434333
GO:0001541ovarian follicle development0.0348688036687015
GO:0006928cell motility0.0348688036687015
GO:0051674localization of cell0.0348688036687015
GO:0030574collagen catabolic process0.0348688036687015
GO:0044259multicellular organismal macromolecule metabolic process0.0348688036687015
GO:0044254multicellular organismal protein catabolic process0.0348688036687015
GO:0044268multicellular organismal protein metabolic process0.0348688036687015
GO:0044256protein digestion0.0348688036687015
GO:0044266multicellular organismal macromolecule catabolic process0.0348688036687015
GO:0006473protein amino acid acetylation0.0348688036687015
GO:0044243multicellular organismal catabolic process0.0348688036687015
GO:0031647regulation of protein stability0.0348688036687015
GO:0032963collagen metabolic process0.0348688036687015
GO:0050681androgen receptor binding0.0356450507091056
GO:0044236multicellular organismal metabolic process0.0356450507091056
GO:0005665DNA-directed RNA polymerase II, core complex0.0356450507091056
GO:0030595leukocyte chemotaxis0.0356450507091056
GO:0003779actin binding0.0356450507091056
GO:0005100Rho GTPase activator activity0.0356450507091056
GO:0022601menstrual cycle phase0.0356450507091056
GO:0006094gluconeogenesis0.0356450507091056
GO:0022602menstrual cycle process0.0356450507091056
GO:0030374ligand-dependent nuclear receptor transcription coactivator activity0.0356450507091056
GO:0008585female gonad development0.0369103935828845
GO:0019216regulation of lipid metabolic process0.0369103935828845
GO:0032989cellular structure morphogenesis0.0369103935828845
GO:0000902cell morphogenesis0.0369103935828845
GO:0006090pyruvate metabolic process0.0369103935828845
GO:0046660female sex differentiation0.0369103935828845
GO:0019395fatty acid oxidation0.0369103935828845
GO:0046545development of primary female sexual characteristics0.0369103935828845
GO:0006996organelle organization and biogenesis0.0369103935828845
GO:0035258steroid hormone receptor binding0.0374685021035196
GO:0050900leukocyte migration0.0377794999277673
GO:0043543protein amino acid acylation0.0377794999277673
GO:0000428DNA-directed RNA polymerase complex0.0378718921375282
GO:0042698menstrual cycle0.0378718921375282
GO:0005184neuropeptide hormone activity0.0378718921375282
GO:0055029nuclear DNA-directed RNA polymerase complex0.0378718921375282
GO:0048731system development0.0378718921375282
GO:0030521androgen receptor signaling pathway0.0378718921375282
GO:0030880RNA polymerase complex0.0378718921375282
GO:0005615extracellular space0.0378718921375282
GO:0019319hexose biosynthetic process0.0404231534720621
GO:0007205protein kinase C activation0.0404231534720621
GO:0046165alcohol biosynthetic process0.0404231534720621
GO:0046364monosaccharide biosynthetic process0.0404231534720621
GO:0016251general RNA polymerase II transcription factor activity0.0431430043764394
GO:0008092cytoskeletal protein binding0.0458074366161085
GO:0048869cellular developmental process0.0476034415930083
GO:0030154cell differentiation0.0476034415930083
GO:0016570histone modification0.048255320498129
GO:0009605response to external stimulus0.048255320498129
GO:0051052regulation of DNA metabolic process0.0484767948771282
GO:0030031cell projection biogenesis0.0485084267640463
GO:0016569covalent chromatin modification0.0485084267640463
GO:0030518steroid hormone receptor signaling pathway0.0485386140891264
GO:0006367transcription initiation from RNA polymerase II promoter0.0485386140891264
GO:0048608reproductive structure development0.0485674371638828
GO:0008406gonad development0.0485674371638828



Enriched sample ontology terms on this co-expression cluster
Summary:To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. Analyst: Hideya Kawaji



links to source dataset

cell_data
uberon_data

disease_data

Cell Type
Ontology termp-valuen
dark melanocyte4.66e-661
melanocyte6.56e-0810
melanoblast6.56e-0810
Uber Anatomy
Ontology termp-valuen
skin epidermis1.04e-1815
outer epithelium1.04e-1815
enveloping layer of ectoderm1.04e-1815
skin of body1.42e-0741
integument7.30e-0746
integumental system7.30e-0746
Disease
Ontology termp-valuen
melanoma4.61e-1312


Overrepresented TFBS (DNA) motifs on this co-expression cluster
Summary:The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs

data

Novel motifs


JASPAR motifs
Motifs-log10(p-value)
MA0003.10.00959583
MA0004.10.62245
MA0006.10.0986219
MA0007.13.72033
MA0009.10.890816
MA0014.13.13362
MA0017.10.611081
MA0019.10.522031
MA0024.10.0973535
MA0025.10.648069
MA0027.11.5542
MA0028.10.0212335
MA0029.10.34488
MA0030.10.331028
MA0031.10.0740723
MA0038.10.686613
MA0040.10.108755
MA0041.10.123467
MA0042.10.365019
MA0043.10.149109
MA0046.10.143088
MA0048.10.000234699
MA0050.10.367137
MA0051.10.213663
MA0052.10.110564
MA0055.10.662171
MA0056.10
MA0057.10.466604
MA0058.10.507207
MA0059.15.26703
MA0060.10.00460549
MA0061.10.0658914
MA0063.10
MA0066.10.420848
MA0067.10.945041
MA0068.10.0851974
MA0069.10.141042
MA0070.10.135182
MA0071.10.0649912
MA0072.10.13286
MA0073.110.6394
MA0074.10.212694
MA0076.10.372975
MA0077.10.404478
MA0078.10.156741
MA0081.11.59775
MA0083.10.153035
MA0084.10.510771
MA0087.10.411341
MA0088.11.51235
MA0089.10
MA0090.10.414249
MA0091.10.40425
MA0092.11.35173
MA0093.10.461195
MA0095.10
MA0098.10
MA0100.10.0958065
MA0101.10.0496144
MA0103.10.164181
MA0105.10.0640042
MA0106.10.027383
MA0107.10.138108
MA0108.20.254243
MA0109.10
MA0111.10.454634
MA0113.10.874479
MA0114.10.128639
MA0115.10.302816
MA0116.10.0157839
MA0117.10.169951
MA0119.10.0820583
MA0122.10.544157
MA0124.10.273374
MA0125.10.217266
MA0130.10
MA0131.12.01622
MA0132.10
MA0133.10
MA0135.10.16581
MA0136.10.0914206
MA0139.14.92457
MA0140.10.0133642
MA0141.10.0392635
MA0142.10.0625085
MA0143.10.0310214
MA0144.10.104136
MA0145.10.501072
MA0146.10.473213
MA0147.10.245289
MA0148.10.461785
MA0149.10.316131
MA0062.20.780059
MA0035.20.0132721
MA0039.21.22176
MA0138.23.67073
MA0002.20.227323
MA0137.20.127938
MA0104.20.518222
MA0047.20.106024
MA0112.20.103716
MA0065.20.334957
MA0150.10.0539777
MA0151.10
MA0152.10.176042
MA0153.10.206623
MA0154.10.831192
MA0155.10.168403
MA0156.10.0630715
MA0157.10.0534238
MA0158.10
MA0159.10.703336
MA0160.10.0533444
MA0161.10
MA0162.16.82593
MA0163.12.90963
MA0164.10.136362
MA0080.20.0474834
MA0018.20.115583
MA0099.20.17646
MA0079.210.857
MA0102.20.542415
MA0258.10.153022
MA0259.11.79433
MA0442.10


ENCODE TF ChIP-seq peak enrichment analysis
Summary: For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained.
Analyst: Erik Arner



link to source dataset


data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
NR3C1#2908112.139003333024720.01314057718812680.0465958897548899
REST#5978273.383776303057886.00521873162615e-094.76579816954638e-07
ZNF263#10127192.028766118223410.001845339639652520.0109186690060432



Relative expression of the co-expression cluster
Summary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data