Coexpression cluster:C184

Full id: C184_somatostatinoma_smallcell_nonsmall_small_gastrointestinal_pineal_thyroid

Phase1 CAGE Peaks

Hg19::chr10:120200137..120200154,+	p@chr10:120200137..120200154 +
Hg19::chr11:14993703..14993738,-	p@chr11:14993703..14993738 -
Hg19::chr11:14993888..14993903,-	p1@CALCA
Hg19::chr11:31531350..31531361,+	p5@ELP4
Hg19::chr11:31531366..31531387,+	p4@ELP4
Hg19::chr11:45307765..45307784,-	p2@SYT13
Hg19::chr11:45307785..45307803,-	p3@SYT13
Hg19::chr12:127385138..127385144,-	p@chr12:127385138..127385144 -
Hg19::chr12:128045165..128045171,+	p@chr12:128045165..128045171 +
Hg19::chr12:128108552..128108561,+	p1@ENST00000537470
Hg19::chr12:67253036..67253040,-	p@chr12:67253036..67253040 -
Hg19::chr12:70464593..70464598,+	p@chr12:70464593..70464598 +
Hg19::chr12:70464652..70464662,+	p@chr12:70464652..70464662 +
Hg19::chr12:70464665..70464668,+	p@chr12:70464665..70464668 +
Hg19::chr12:70464675..70464680,+	p@chr12:70464675..70464680 +
Hg19::chr13:110354471..110354477,-	p@chr13:110354471..110354477 -
Hg19::chr13:24246893..24246939,+	p@chr13:24246893..24246939 +
Hg19::chr13:93591283..93591289,-	p@chr13:93591283..93591289 -
Hg19::chr13:97500658..97500682,-	p@chr13:97500658..97500682 -
Hg19::chr15:59908698..59908705,+	p22@GCNT3
Hg19::chr15:59908719..59908730,+	p6@GCNT3
Hg19::chr15:59908741..59908754,+	p12@GCNT3
Hg19::chr15:59908762..59908770,+	p18@GCNT3
Hg19::chr15:59908801..59908817,+	p10@GCNT3
Hg19::chr15:59908820..59908829,+	p20@GCNT3
Hg19::chr15:59908955..59908965,+	p16@GCNT3
Hg19::chr15:59909013..59909022,+	p19@GCNT3
Hg19::chr15:59910132..59910144,+	p9@GCNT3
Hg19::chr15:59910171..59910184,+	p15@GCNT3
Hg19::chr15:59910206..59910219,+	p17@GCNT3
Hg19::chr15:92459135..92459153,+	p@chr15:92459135..92459153 +
Hg19::chr15:92459179..92459184,+	p@chr15:92459179..92459184 +
Hg19::chr16:735282..735294,+	p@chr16:735282..735294 +
Hg19::chr16:735529..735579,+	p@chr16:735529..735579 +
Hg19::chr16:736123..736159,-	p@chr16:736123..736159 -
Hg19::chr17:34037239..34037263,+	p@chr17:34037239..34037263 +
Hg19::chr18:30950056..30950073,-	p@chr18:30950056..30950073 -
Hg19::chr18:56813724..56813731,+	p@chr18:56813724..56813731 +
Hg19::chr18:56813732..56813760,+	p@chr18:56813732..56813760 +
Hg19::chr18:56815158..56815162,+	p@chr18:56815158..56815162 +
Hg19::chr18:56815628..56815675,+	p@chr18:56815628..56815675 +
Hg19::chr18:56815879..56815901,+	p@chr18:56815879..56815901 +
Hg19::chr18:7955176..7955183,+	p@chr18:7955176..7955183 +
Hg19::chr18:7955199..7955220,+	p@chr18:7955199..7955220 +
Hg19::chr18:7955240..7955261,+	p@chr18:7955240..7955261 +
Hg19::chr18:7955271..7955280,+	p@chr18:7955271..7955280 +
Hg19::chr18:7955315..7955339,+	p@chr18:7955315..7955339 +
Hg19::chr19:7570269..7570273,+	p13@C19orf45
Hg19::chr19:7570395..7570427,+	p5@C19orf45
Hg19::chr1:110661599..110661609,-	p@chr1:110661599..110661609 -
Hg19::chr1:110678110..110678115,+	p@chr1:110678110..110678115 +
Hg19::chr1:110678156..110678168,+	p@chr1:110678156..110678168 +
Hg19::chr1:110678228..110678236,+	p@chr1:110678228..110678236 +
Hg19::chr1:155954237..155954260,-	p@chr1:155954237..155954260 -
Hg19::chr1:155954270..155954294,-	p@chr1:155954270..155954294 -
Hg19::chr1:155954306..155954320,-	p@chr1:155954306..155954320 -
Hg19::chr1:155954331..155954340,-	p@chr1:155954331..155954340 -
Hg19::chr1:193186112..193186120,-	p@chr1:193186112..193186120 -
Hg19::chr1:193186161..193186169,-	p@chr1:193186161..193186169 -
Hg19::chr1:193186195..193186210,-	p@chr1:193186195..193186210 -
Hg19::chr1:193232079..193232084,+	p@chr1:193232079..193232084 +
Hg19::chr1:193232096..193232117,+	p@chr1:193232096..193232117 +
Hg19::chr1:193232144..193232147,+	p@chr1:193232144..193232147 +
Hg19::chr1:55446510..55446545,+	p4@TMEM61
Hg19::chr1:6534313..6534324,-	p@chr1:6534313..6534324 -
Hg19::chr20:20173664..20173680,+	p@chr20:20173664..20173680 +
Hg19::chr20:401500..401515,+	p@chr20:401500..401515 +
Hg19::chr20:401531..401574,+	p@chr20:401531..401574 +
Hg19::chr2:42182201..42182213,-	p@chr2:42182201..42182213 -
Hg19::chr2:42182357..42182372,+	p@chr2:42182357..42182372 +
Hg19::chr2:8712183..8712192,-	p@chr2:8712183..8712192 -
Hg19::chr4:139208173..139208199,-	p@chr4:139208173..139208199 -
Hg19::chr4:173014804..173014812,+	p@chr4:173014804..173014812 +
Hg19::chr4:39034552..39034578,-	p4@TMEM156
Hg19::chr4:59982412..59982425,+	p@chr4:59982412..59982425 +
Hg19::chr6:107596741..107596750,+	p@chr6:107596741..107596750 +
Hg19::chr6:107596755..107596774,+	p@chr6:107596755..107596774 +
Hg19::chr6:137243349..137243360,+	p3@SLC35D3
Hg19::chr6:137243373..137243391,+	p1@SLC35D3
Hg19::chr6:154858221..154858224,-	p@chr6:154858221..154858224 -
Hg19::chr6:154858237..154858245,-	p@chr6:154858237..154858245 -
Hg19::chr6:161970049..161970057,-	p3@GU361471
Hg19::chr6:48078977..48078989,-	p5@C6orf138
Hg19::chr6:50692227..50692236,+	p@chr6:50692227..50692236 +
Hg19::chr6:50692244..50692251,+	p@chr6:50692244..50692251 +
Hg19::chr7:129330290..129330300,+	p@chr7:129330290..129330300 +
Hg19::chr8:10004983..10005007,-	p@chr8:10004983..10005007 -
Hg19::chr9:77257424..77257435,-	p@chr9:77257424..77257435 -
Hg19::chr9:77257468..77257474,-	p@chr9:77257468..77257474 -
Hg19::chr9:77257481..77257492,-	p@chr9:77257481..77257492 -
Hg19::chr9:77257683..77257703,+	p@chr9:77257683..77257703 +
Hg19::chr9:96678236..96678246,-	p@chr9:96678236..96678246 -

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:0031716	calcitonin receptor binding	0.0137489753507221
GO:0033588	Elongator holoenzyme complex	0.0137489753507221
GO:0001984	vasodilation of artery during baroreceptor response to increased systemic arterial blood pressure	0.0137489753507221
GO:0001983	baroreceptor response to increased systemic arterial blood pressure	0.0137489753507221
GO:0003829	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity	0.0137489753507221
GO:0050961	detection of temperature stimulus during sensory perception	0.0137489753507221
GO:0045932	negative regulation of muscle contraction	0.0137489753507221
GO:0050965	detection of temperature stimulus during sensory perception of pain	0.0137489753507221
GO:0045986	negative regulation of smooth muscle contraction	0.0137489753507221
GO:0043195	terminal button	0.0137489753507221
GO:0004406	H3/H4 histone acetyltransferase activity	0.0137489753507221
GO:0008109	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity	0.0137489753507221
GO:0001978	carotid sinus baroreceptor feedback regulation of systemic arterial blood pressure	0.0137489753507221
GO:0033267	axon part	0.0137489753507221
GO:0016048	detection of temperature stimulus	0.0137489753507221
GO:0050951	sensory perception of temperature stimulus	0.0137489753507221
GO:0003025	baroreceptor regulation of systemic arterial blood pressure	0.0137489753507221
GO:0016021	integral to membrane	0.0137489753507221
GO:0031224	intrinsic to membrane	0.0137489753507221
GO:0048265	response to pain	0.0137489753507221
GO:0003085	negative regulation of systemic arterial blood pressure	0.0137489753507221
GO:0008607	phosphorylase kinase regulator activity	0.0137489753507221
GO:0002027	regulation of heart rate	0.0139590597962431
GO:0051482	elevation of cytosolic calcium ion concentration during G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)	0.0139590597962431
GO:0045778	positive regulation of ossification	0.0139590597962431
GO:0016944	RNA polymerase II transcription elongation factor activity	0.0139590597962431
GO:0031645	negative regulation of neurological process	0.0151207568562064
GO:0046852	positive regulation of bone remodeling	0.0151207568562064
GO:0001976	regulation of systemic arterial blood pressure by neurological process	0.0156069152171386
GO:0045776	negative regulation of blood pressure	0.0156069152171386
GO:0030279	negative regulation of ossification	0.0156069152171386
GO:0044425	membrane part	0.0201527026644171
GO:0046851	negative regulation of bone remodeling	0.0201527026644171
GO:0033555	multicellular organismal response to stress	0.0207263588466125
GO:0008023	transcription elongation factor complex	0.0207263588466125
GO:0009408	response to heat	0.0218275968006529
GO:0019233	sensory perception of pain	0.0244999460665658
GO:0007202	phospholipase C activation	0.0247905539309607
GO:0003073	regulation of systemic arterial blood pressure	0.0247905539309607
GO:0003711	transcription elongation regulator activity	0.0271865372509221
GO:0042311	vasodilation	0.0273275662456433
GO:0030278	regulation of ossification	0.0273275662456433
GO:0006940	regulation of smooth muscle contraction	0.0280939917086146
GO:0007190	adenylate cyclase activation	0.0301823823024857
GO:0046850	regulation of bone remodeling	0.0301823823024857
GO:0051241	negative regulation of multicellular organismal process	0.0301823823024857
GO:0031644	regulation of neurological process	0.0301823823024857
GO:0004468	lysine N-acetyltransferase activity	0.0301823823024857
GO:0004402	histone acetyltransferase activity	0.0301823823024857
GO:0051349	positive regulation of lyase activity	0.0301823823024857
GO:0045762	positive regulation of adenylate cyclase activity	0.0301823823024857
GO:0031281	positive regulation of cyclase activity	0.0301823823024857
GO:0009266	response to temperature stimulus	0.0330195727456264
GO:0006493	protein amino acid O-linked glycosylation	0.0335221671514171
GO:0030424	axon	0.0372856665626736
GO:0043025	cell soma	0.0376930235471054
GO:0007189	G-protein signaling, adenylate cyclase activating pathway	0.0377782978616244
GO:0007631	feeding behavior	0.0377782978616244
GO:0016020	membrane	0.0377782978616244
GO:0006937	regulation of muscle contraction	0.0377782978616244
GO:0006939	smooth muscle contraction	0.0377782978616244
GO:0045761	regulation of adenylate cyclase activity	0.0377782978616244
GO:0031279	regulation of cyclase activity	0.0377782978616244
GO:0035150	regulation of tube size	0.0377782978616244
GO:0050880	regulation of blood vessel size	0.0377782978616244
GO:0051339	regulation of lyase activity	0.0377782978616244
GO:0008016	regulation of heart contraction	0.0377782978616244
GO:0003018	vascular process in circulatory system	0.0381050662887932
GO:0008375	acetylglucosaminyltransferase activity	0.0382569587600429
GO:0009582	detection of abiotic stimulus	0.0382569587600429
GO:0050906	detection of stimulus during sensory perception	0.0382569587600429
GO:0003015	heart process	0.0382569587600429
GO:0044463	cell projection part	0.0382569587600429
GO:0060047	heart contraction	0.0382569587600429
GO:0009581	detection of external stimulus	0.0401438385172046
GO:0008217	regulation of blood pressure	0.0435547660791225
GO:0030133	transport vesicle	0.0492015448315908

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><br>uberon_data<br>disease_data<br>

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Uber Anatomy

Ontology term	p-value	n
adult organism	1.71e-23	115
neural tube	4.00e-13	57
neural rod	4.00e-13	57
future spinal cord	4.00e-13	57
neural keel	4.00e-13	57
subdivision of digestive tract	5.90e-12	129
endodermal part of digestive tract	5.90e-12	129
regional part of brain	8.64e-12	59
central nervous system	8.87e-12	82
anterior neural tube	9.46e-12	42
regional part of forebrain	1.94e-11	41
forebrain	1.94e-11	41
future forebrain	1.94e-11	41
regional part of nervous system	2.50e-11	94
nervous system	2.50e-11	94
anatomical conduit	5.72e-10	241
brain	9.89e-10	69
future brain	9.89e-10	69
endoderm-derived structure	1.78e-09	169
endoderm	1.78e-09	169
presumptive endoderm	1.78e-09	169
digestive system	1.95e-09	155
digestive tract	1.95e-09	155
primitive gut	1.95e-09	155
tube	2.72e-09	194
anatomical cluster	4.56e-09	286
gray matter	5.07e-09	34
brain grey matter	5.07e-09	34
neural plate	6.23e-09	86
presumptive neural plate	6.23e-09	86
neurectoderm	8.76e-09	90
telencephalon	9.46e-09	34
cerebral hemisphere	1.10e-08	32
foregut	1.11e-08	98
mixed endoderm/mesoderm-derived structure	1.13e-08	130
regional part of telencephalon	1.95e-08	33
immaterial anatomical entity	4.99e-08	126
multi-tissue structure	8.12e-08	347
neocortex	1.18e-07	20
regional part of cerebral cortex	1.18e-07	22
pre-chordal neural plate	1.29e-07	61
trunk region element	2.35e-07	107

Disease

Ontology term	p-value	n
carcinoma	1.87e-14	106
cell type cancer	5.47e-12	143

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
ESR1#2099	9	3.00997206158033	0.00309012297816625	0.0162871235789405
NR3C1#2908	13	2.11575329679619	0.00811830728409651	0.0320615577403576

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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