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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C206_melanoma_somatostatinoma_nonsmall_small_neuroblastoma_smallcell_pituitary
|full_id=C206_melanoma_somatostatinoma_nonsmall_small_neuroblastoma_smallcell_pituitary
|gostat_on_coexpression_clusters=GO:0008130!neutrophil collagenase activity!0.0276156719696426!4317$GO:0035066!positive regulation of histone acetylation!0.0276156719696426!10891$GO:0007586!digestion!0.0276156719696426!10891;4317$GO:0004232!interstitial collagenase activity!0.0276156719696426!4317$GO:0031058!positive regulation of histone modification!0.0276156719696426!10891$GO:0045722!positive regulation of gluconeogenesis!0.0276156719696426!10891$GO:0035065!regulation of histone acetylation!0.0276156719696426!10891$GO:0005515!protein binding!0.0276156719696426!7425;4983;3603;23683;23532;10891;3897;54434$GO:0046321!positive regulation of fatty acid oxidation!0.0281758957954588!10891$GO:0031056!regulation of histone modification!0.0281758957954588!10891$GO:0001678!cell glucose homeostasis!0.0281758957954588!10891$GO:0006930!substrate-bound cell migration, cell extension!0.0281758957954588!4983$GO:0006111!regulation of gluconeogenesis!0.0281758957954588!10891$GO:0046320!regulation of fatty acid oxidation!0.0281758957954588!10891$GO:0008133!collagenase activity!0.0281758957954588!4317$GO:0050873!brown fat cell differentiation!0.0281758957954588!10891$GO:0032502!developmental process!0.0281758957954588!7425;4983;10891;3897;54434$GO:0045923!positive regulation of fatty acid metabolic process!0.0281758957954588!10891$GO:0043255!regulation of carbohydrate biosynthetic process!0.0281758957954588!10891$GO:0048856!anatomical structure development!0.0281758957954588!7425;4983;3897;54434$GO:0016477!cell migration!0.0281758957954588!4983;3603$GO:0045913!positive regulation of carbohydrate metabolic process!0.0281758957954588!10891$GO:0001659!thermoregulation!0.0281758957954588!10891$GO:0030036!actin cytoskeleton organization and biogenesis!0.0281758957954588!4983;54434$GO:0006109!regulation of carbohydrate metabolic process!0.0281758957954588!10891$GO:0019217!regulation of fatty acid metabolic process!0.0281758957954588!10891$GO:0050930!induction of positive chemotaxis!0.0281758957954588!3603$GO:0030029!actin filament-based process!0.0281758957954588!4983;54434$GO:0006929!substrate-bound cell migration!0.0281758957954588!4983$GO:0032501!multicellular organismal process!0.0281758957954588!7425;4983;10891;3897;4317$GO:0005102!receptor binding!0.0281758957954588!7425;3603;10891$GO:0050926!regulation of positive chemotaxis!0.0281758957954588!3603$GO:0045834!positive regulation of lipid metabolic process!0.0281758957954588!10891$GO:0050927!positive regulation of positive chemotaxis!0.0281758957954588!3603$GO:0050918!positive chemotaxis!0.0281758957954588!3603$GO:0051054!positive regulation of DNA metabolic process!0.0281758957954588!10891$GO:0050921!positive regulation of chemotaxis!0.0301518298716268!3603$GO:0050920!regulation of chemotaxis!0.0320230610583892!3603$GO:0042594!response to starvation!0.0329527024966334!10891$GO:0016573!histone acetylation!0.0329527024966334!10891$GO:0051130!positive regulation of cellular component organization and biogenesis!0.0337842185434333!10891$GO:0050821!protein stabilization!0.0337842185434333!10891$GO:0004697!protein kinase C activity!0.0337842185434333!23683$GO:0001565!phorbol ester receptor activity!0.0337842185434333!23683$GO:0042593!glucose homeostasis!0.0337842185434333!10891$GO:0016455!RNA polymerase II transcription mediator activity!0.0337842185434333!10891$GO:0045444!fat cell differentiation!0.0337842185434333!10891$GO:0033500!carbohydrate homeostasis!0.0337842185434333!10891$GO:0001541!ovarian follicle development!0.0348688036687015!7425$GO:0006928!cell motility!0.0348688036687015!4983;3603$GO:0051674!localization of cell!0.0348688036687015!4983;3603$GO:0030574!collagen catabolic process!0.0348688036687015!4317$GO:0044259!multicellular organismal macromolecule metabolic process!0.0348688036687015!4317$GO:0044254!multicellular organismal protein catabolic process!0.0348688036687015!4317$GO:0044268!multicellular organismal protein metabolic process!0.0348688036687015!4317$GO:0044256!protein digestion!0.0348688036687015!4317$GO:0044266!multicellular organismal macromolecule catabolic process!0.0348688036687015!4317$GO:0006473!protein amino acid acetylation!0.0348688036687015!10891$GO:0044243!multicellular organismal catabolic process!0.0348688036687015!4317$GO:0031647!regulation of protein stability!0.0348688036687015!10891$GO:0032963!collagen metabolic process!0.0348688036687015!4317$GO:0050681!androgen receptor binding!0.0356450507091056!10891$GO:0044236!multicellular organismal metabolic process!0.0356450507091056!4317$GO:0005665!DNA-directed RNA polymerase II, core complex!0.0356450507091056!10891$GO:0030595!leukocyte chemotaxis!0.0356450507091056!3603$GO:0003779!actin binding!0.0356450507091056!4983;54434$GO:0005100!Rho GTPase activator activity!0.0356450507091056!4983$GO:0022601!menstrual cycle phase!0.0356450507091056!7425$GO:0006094!gluconeogenesis!0.0356450507091056!10891$GO:0022602!menstrual cycle process!0.0356450507091056!7425$GO:0030374!ligand-dependent nuclear receptor transcription coactivator activity!0.0356450507091056!10891$GO:0008585!female gonad development!0.0369103935828845!7425$GO:0019216!regulation of lipid metabolic process!0.0369103935828845!10891$GO:0032989!cellular structure morphogenesis!0.0369103935828845!4983;54434$GO:0000902!cell morphogenesis!0.0369103935828845!4983;54434$GO:0006090!pyruvate metabolic process!0.0369103935828845!10891$GO:0046660!female sex differentiation!0.0369103935828845!7425$GO:0019395!fatty acid oxidation!0.0369103935828845!10891$GO:0046545!development of primary female sexual characteristics!0.0369103935828845!7425$GO:0006996!organelle organization and biogenesis!0.0369103935828845!4983;10891;54434$GO:0035258!steroid hormone receptor binding!0.0374685021035196!10891$GO:0050900!leukocyte migration!0.0377794999277673!3603$GO:0043543!protein amino acid acylation!0.0377794999277673!10891$GO:0000428!DNA-directed RNA polymerase complex!0.0378718921375282!10891$GO:0042698!menstrual cycle!0.0378718921375282!7425$GO:0005184!neuropeptide hormone activity!0.0378718921375282!7425$GO:0055029!nuclear DNA-directed RNA polymerase complex!0.0378718921375282!10891$GO:0048731!system development!0.0378718921375282!7425;4983;3897$GO:0030521!androgen receptor signaling pathway!0.0378718921375282!10891$GO:0030880!RNA polymerase complex!0.0378718921375282!10891$GO:0005615!extracellular space!0.0378718921375282!3603;4317$GO:0019319!hexose biosynthetic process!0.0404231534720621!10891$GO:0007205!protein kinase C activation!0.0404231534720621!23683$GO:0046165!alcohol biosynthetic process!0.0404231534720621!10891$GO:0046364!monosaccharide biosynthetic process!0.0404231534720621!10891$GO:0016251!general RNA polymerase II transcription factor activity!0.0431430043764394!10891$GO:0008092!cytoskeletal protein binding!0.0458074366161085!4983;54434$GO:0048869!cellular developmental process!0.0476034415930083!4983;10891;3897$GO:0030154!cell differentiation!0.0476034415930083!4983;10891;3897$GO:0016570!histone modification!0.048255320498129!10891$GO:0009605!response to external stimulus!0.048255320498129!3603;10891$GO:0051052!regulation of DNA metabolic process!0.0484767948771282!10891$GO:0030031!cell projection biogenesis!0.0485084267640463!4983$GO:0016569!covalent chromatin modification!0.0485084267640463!10891$GO:0030518!steroid hormone receptor signaling pathway!0.0485386140891264!10891$GO:0006367!transcription initiation from RNA polymerase II promoter!0.0485386140891264!10891$GO:0048608!reproductive structure development!0.0485674371638828!7425$GO:0008406!gonad development!0.0485674371638828!7425
|id=C206
|id=C206
}}
}}

Revision as of 17:36, 18 May 2012


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

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

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<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>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

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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

No analysis results for this cluster

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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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