Coexpression cluster:C206

Full id: C206_melanoma_somatostatinoma_nonsmall_small_neuroblastoma_smallcell_pituitary

Phase1 CAGE Peaks

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<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

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No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0008130	neutrophil collagenase activity	0.0276156719696426
GO:0035066	positive regulation of histone acetylation	0.0276156719696426
GO:0007586	digestion	0.0276156719696426
GO:0004232	interstitial collagenase activity	0.0276156719696426
GO:0031058	positive regulation of histone modification	0.0276156719696426
GO:0045722	positive regulation of gluconeogenesis	0.0276156719696426
GO:0035065	regulation of histone acetylation	0.0276156719696426
GO:0005515	protein binding	0.0276156719696426
GO:0046321	positive regulation of fatty acid oxidation	0.0281758957954588
GO:0031056	regulation of histone modification	0.0281758957954588
GO:0001678	cell glucose homeostasis	0.0281758957954588
GO:0006930	substrate-bound cell migration, cell extension	0.0281758957954588
GO:0006111	regulation of gluconeogenesis	0.0281758957954588
GO:0046320	regulation of fatty acid oxidation	0.0281758957954588
GO:0008133	collagenase activity	0.0281758957954588
GO:0050873	brown fat cell differentiation	0.0281758957954588
GO:0032502	developmental process	0.0281758957954588
GO:0045923	positive regulation of fatty acid metabolic process	0.0281758957954588
GO:0043255	regulation of carbohydrate biosynthetic process	0.0281758957954588
GO:0048856	anatomical structure development	0.0281758957954588
GO:0016477	cell migration	0.0281758957954588
GO:0045913	positive regulation of carbohydrate metabolic process	0.0281758957954588
GO:0001659	thermoregulation	0.0281758957954588
GO:0030036	actin cytoskeleton organization and biogenesis	0.0281758957954588
GO:0006109	regulation of carbohydrate metabolic process	0.0281758957954588
GO:0019217	regulation of fatty acid metabolic process	0.0281758957954588
GO:0050930	induction of positive chemotaxis	0.0281758957954588
GO:0030029	actin filament-based process	0.0281758957954588
GO:0006929	substrate-bound cell migration	0.0281758957954588
GO:0032501	multicellular organismal process	0.0281758957954588
GO:0005102	receptor binding	0.0281758957954588
GO:0050926	regulation of positive chemotaxis	0.0281758957954588
GO:0045834	positive regulation of lipid metabolic process	0.0281758957954588
GO:0050927	positive regulation of positive chemotaxis	0.0281758957954588
GO:0050918	positive chemotaxis	0.0281758957954588
GO:0051054	positive regulation of DNA metabolic process	0.0281758957954588
GO:0050921	positive regulation of chemotaxis	0.0301518298716268
GO:0050920	regulation of chemotaxis	0.0320230610583892
GO:0042594	response to starvation	0.0329527024966334
GO:0016573	histone acetylation	0.0329527024966334
GO:0051130	positive regulation of cellular component organization and biogenesis	0.0337842185434333
GO:0050821	protein stabilization	0.0337842185434333
GO:0004697	protein kinase C activity	0.0337842185434333
GO:0001565	phorbol ester receptor activity	0.0337842185434333
GO:0042593	glucose homeostasis	0.0337842185434333
GO:0016455	RNA polymerase II transcription mediator activity	0.0337842185434333
GO:0045444	fat cell differentiation	0.0337842185434333
GO:0033500	carbohydrate homeostasis	0.0337842185434333
GO:0001541	ovarian follicle development	0.0348688036687015
GO:0006928	cell motility	0.0348688036687015
GO:0051674	localization of cell	0.0348688036687015
GO:0030574	collagen catabolic process	0.0348688036687015
GO:0044259	multicellular organismal macromolecule metabolic process	0.0348688036687015
GO:0044254	multicellular organismal protein catabolic process	0.0348688036687015
GO:0044268	multicellular organismal protein metabolic process	0.0348688036687015
GO:0044256	protein digestion	0.0348688036687015
GO:0044266	multicellular organismal macromolecule catabolic process	0.0348688036687015
GO:0006473	protein amino acid acetylation	0.0348688036687015
GO:0044243	multicellular organismal catabolic process	0.0348688036687015
GO:0031647	regulation of protein stability	0.0348688036687015
GO:0032963	collagen metabolic process	0.0348688036687015
GO:0050681	androgen receptor binding	0.0356450507091056
GO:0044236	multicellular organismal metabolic process	0.0356450507091056
GO:0005665	DNA-directed RNA polymerase II, core complex	0.0356450507091056
GO:0030595	leukocyte chemotaxis	0.0356450507091056
GO:0003779	actin binding	0.0356450507091056
GO:0005100	Rho GTPase activator activity	0.0356450507091056
GO:0022601	menstrual cycle phase	0.0356450507091056
GO:0006094	gluconeogenesis	0.0356450507091056
GO:0022602	menstrual cycle process	0.0356450507091056
GO:0030374	ligand-dependent nuclear receptor transcription coactivator activity	0.0356450507091056
GO:0008585	female gonad development	0.0369103935828845
GO:0019216	regulation of lipid metabolic process	0.0369103935828845
GO:0032989	cellular structure morphogenesis	0.0369103935828845
GO:0000902	cell morphogenesis	0.0369103935828845
GO:0006090	pyruvate metabolic process	0.0369103935828845
GO:0046660	female sex differentiation	0.0369103935828845
GO:0019395	fatty acid oxidation	0.0369103935828845
GO:0046545	development of primary female sexual characteristics	0.0369103935828845
GO:0006996	organelle organization and biogenesis	0.0369103935828845
GO:0035258	steroid hormone receptor binding	0.0374685021035196
GO:0050900	leukocyte migration	0.0377794999277673
GO:0043543	protein amino acid acylation	0.0377794999277673
GO:0000428	DNA-directed RNA polymerase complex	0.0378718921375282
GO:0042698	menstrual cycle	0.0378718921375282
GO:0005184	neuropeptide hormone activity	0.0378718921375282
GO:0055029	nuclear DNA-directed RNA polymerase complex	0.0378718921375282
GO:0048731	system development	0.0378718921375282
GO:0030521	androgen receptor signaling pathway	0.0378718921375282
GO:0030880	RNA polymerase complex	0.0378718921375282
GO:0005615	extracellular space	0.0378718921375282
GO:0019319	hexose biosynthetic process	0.0404231534720621
GO:0007205	protein kinase C activation	0.0404231534720621
GO:0046165	alcohol biosynthetic process	0.0404231534720621
GO:0046364	monosaccharide biosynthetic process	0.0404231534720621
GO:0016251	general RNA polymerase II transcription factor activity	0.0431430043764394
GO:0008092	cytoskeletal protein binding	0.0458074366161085
GO:0048869	cellular developmental process	0.0476034415930083
GO:0030154	cell differentiation	0.0476034415930083
GO:0016570	histone modification	0.048255320498129
GO:0009605	response to external stimulus	0.048255320498129
GO:0051052	regulation of DNA metabolic process	0.0484767948771282
GO:0030031	cell projection biogenesis	0.0485084267640463
GO:0016569	covalent chromatin modification	0.0485084267640463
GO:0030518	steroid hormone receptor signaling pathway	0.0485386140891264
GO:0006367	transcription initiation from RNA polymerase II promoter	0.0485386140891264
GO:0048608	reproductive structure development	0.0485674371638828
GO:0008406	gonad development	0.0485674371638828

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>

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Cell Type

Ontology term	p-value	n
dark melanocyte	4.66e-66	1
melanocyte	6.56e-08	10
melanoblast	6.56e-08	10

Uber Anatomy

Ontology term	p-value	n
skin epidermis	1.04e-18	15
outer epithelium	1.04e-18	15
enveloping layer of ectoderm	1.04e-18	15
skin of body	1.42e-07	41
integument	7.30e-07	46
integumental system	7.30e-07	46

Disease

Ontology term	p-value	n
melanoma	4.61e-131	2

Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

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

TF	#promoters	Enrichment	p-value	q-value
NR3C1#2908	11	2.13900333302472	0.0131405771881268	0.0465958897548899
REST#5978	27	3.38377630305788	6.00521873162615e-09	4.76579816954638e-07
ZNF263#10127	19	2.02876611822341	0.00184533963965252	0.0109186690060432

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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