Coexpression cluster:C126

Full id: C126_gastrointestinal_argyrophil_smallcell_merkel_bile_insula_brain

Phase1 CAGE Peaks

Hg19::chr10:102055183..102055184,-	p@chr10:102055183..102055184 -
Hg19::chr10:102089952..102089973,-	p2@PKD2L1
Hg19::chr10:102089977..102089990,-	p1@PKD2L1
Hg19::chr10:102207688..102207707,+	p@chr10:102207688..102207707 +
Hg19::chr10:16562454..16562494,+	p@chr10:16562454..16562494 +
Hg19::chr10:16562497..16562508,+	p@chr10:16562497..16562508 +
Hg19::chr10:16563117..16563150,-	p5@C1QL3
Hg19::chr10:76801606..76801607,+	p@chr10:76801606..76801607 +
Hg19::chr12:52055874..52055911,+	p@chr12:52055874..52055911 +
Hg19::chr12:52081218..52081224,+	p@chr12:52081218..52081224 +
Hg19::chr12:53596603..53596614,+	p@chr12:53596603..53596614 +
Hg19::chr12:53596669..53596685,+	p@chr12:53596669..53596685 +
Hg19::chr12:58838512..58838558,+	p@chr12:58838512..58838558 +
Hg19::chr12:59095448..59095488,-	p@chr12:59095448..59095488 -
Hg19::chr12:81771814..81771826,+	p1@ENST00000546936
Hg19::chr12:81771827..81771839,+	p2@ENST00000546936
Hg19::chr12:81776004..81776007,+	p@chr12:81776004..81776007 +
Hg19::chr12:81813961..81813970,+	p@chr12:81813961..81813970 +
Hg19::chr13:86221801..86221809,+	p@chr13:86221801..86221809 +
Hg19::chr13:86221845..86221851,+	p@chr13:86221845..86221851 +
Hg19::chr13:92981567..92981607,-	p@chr13:92981567..92981607 -
Hg19::chr13:93057493..93057501,-	p@chr13:93057493..93057501 -
Hg19::chr13:93057514..93057522,-	p@chr13:93057514..93057522 -
Hg19::chr14:93383646..93383662,-	p@chr14:93383646..93383662 -
Hg19::chr14:93397768..93397779,+	p4@CHGA
Hg19::chr14:93398754..93398767,+	p2@BC106953
Hg19::chr15:46428206..46428211,-	p@chr15:46428206..46428211 -
Hg19::chr15:46545564..46545574,-	p@chr15:46545564..46545574 -
Hg19::chr16:19663104..19663118,+	p@chr16:19663104..19663118 +
Hg19::chr16:19663125..19663134,+	p@chr16:19663125..19663134 +
Hg19::chr16:57640925..57640941,-	p@chr16:57640925..57640941 -
Hg19::chr17:39565033..39565073,-	p@chr17:39565033..39565073 -
Hg19::chr17:39565125..39565132,-	p@chr17:39565125..39565132 -
Hg19::chr17:43053755..43053784,+	p@chr17:43053755..43053784 +
Hg19::chr17:46303368..46303374,+	p@chr17:46303368..46303374 +
Hg19::chr17:46303468..46303475,+	p@chr17:46303468..46303475 +
Hg19::chr18:40194793..40194820,+	p@chr18:40194793..40194820 +
Hg19::chr18:40194830..40194841,+	p@chr18:40194830..40194841 +
Hg19::chr18:42380070..42380105,+	p@chr18:42380070..42380105 +
Hg19::chr19:35940486..35940504,+	p2@FFAR2
Hg19::chr19:36347787..36347850,+	p1@KIRREL2
Hg19::chr19:42656683..42656689,+	p1@ENST00000559786 p1@uc002ost.1
Hg19::chr19:45417574..45417589,+	p1@APOC1
Hg19::chr1:31924907..31924925,-	p@chr1:31924907..31924925 -
Hg19::chr1:31944306..31944336,-	p@chr1:31944306..31944336 -
Hg19::chr1:31975103..31975114,+	p@chr1:31975103..31975114 +
Hg19::chr1:32013141..32013146,+	p27@TINAGL1
Hg19::chr1:95846540..95846548,-	p2@ENST00000426881 p2@uc001drj.1 p2@uc001drk.1
Hg19::chr1:95846559..95846566,-	p1@ENST00000426881 p1@uc001drj.1 p1@uc001drk.1
Hg19::chr1:98514995..98515010,-	p9@MIR137HG
Hg19::chr1:98515017..98515065,-	p3@MIR137HG
Hg19::chr20:22464921..22464928,-	p@chr20:22464921..22464928 -
Hg19::chr20:44048281..44048327,-	p@chr20:44048281..44048327 -
Hg19::chr20:44048705..44048721,+	p19@PIGT
Hg19::chr20:47299359..47299377,-	p@chr20:47299359..47299377 -
Hg19::chr21:45905448..45905455,+	p1@ENST00000449713
Hg19::chr22:26299513..26299521,+	p@chr22:26299513..26299521 +
Hg19::chr22:26299554..26299556,+	p@chr22:26299554..26299556 +
Hg19::chr22:26299576..26299591,+	p@chr22:26299576..26299591 +
Hg19::chr22:26299595..26299605,+	p@chr22:26299595..26299605 +
Hg19::chr22:26299607..26299623,+	p@chr22:26299607..26299623 +
Hg19::chr2:103969385..103969401,+	p@chr2:103969385..103969401 +
Hg19::chr2:105030478..105030489,-	p1@ENST00000449772
Hg19::chr2:128180446..128180455,+	p8@PROC
Hg19::chr2:158443765..158443789,-	p@chr2:158443765..158443789 -
Hg19::chr2:158443804..158443809,-	p@chr2:158443804..158443809 -
Hg19::chr2:163194011..163194032,+	p@chr2:163194011..163194032 +
Hg19::chr3:157823323..157823328,+	p17@RSRC1
Hg19::chr3:157824156..157824164,-	p4@SHOX2
Hg19::chr3:157824202..157824211,-	p3@SHOX2
Hg19::chr3:157824322..157824334,-	p7@SHOX2
Hg19::chr3:157824341..157824356,-	p8@SHOX2
Hg19::chr3:157824437..157824459,-	p5@SHOX2
Hg19::chr3:157825104..157825109,-	p@chr3:157825104..157825109 -
Hg19::chr3:183947366..183947381,+	p@chr3:183947366..183947381 +
Hg19::chr3:183947382..183947395,+	p@chr3:183947382..183947395 +
Hg19::chr3:183948136..183948147,+	p2@VWA5B2
Hg19::chr3:183948161..183948173,+	p1@VWA5B2
Hg19::chr3:24206665..24206674,-	p21@THRB
Hg19::chr3:55187389..55187391,-	p@chr3:55187389..55187391 -
Hg19::chr3:55313580..55313599,-	p@chr3:55313580..55313599 -
Hg19::chr3:59035577..59035598,-	p3@C3orf67
Hg19::chr4:140762693..140762699,-	p@chr4:140762693..140762699 -
Hg19::chr4:147558115..147558117,-	p@chr4:147558115..147558117 -
Hg19::chr4:147558642..147558652,-	p@chr4:147558642..147558652 -
Hg19::chr4:147559302..147559313,+	p@chr4:147559302..147559313 +
Hg19::chr4:182186203..182186217,-	p1@ENST00000512547
Hg19::chr4:90185426..90185448,+	p@chr4:90185426..90185448 +
Hg19::chr5:115890554..115890570,-	p11@SEMA6A
Hg19::chr5:140220769..140220797,+	p1@PCDHA8
Hg19::chr5:147365729..147365732,-	p@chr5:147365729..147365732 -
Hg19::chr5:35238029..35238052,-	p@chr5:35238029..35238052 -
Hg19::chr5:7078237..7078241,-	p@chr5:7078237..7078241 -
Hg19::chr5:85440032..85440036,-	p@chr5:85440032..85440036 -
Hg19::chr5:85654384..85654387,-	p@chr5:85654384..85654387 -
Hg19::chr5:85698439..85698441,-	p@chr5:85698439..85698441 -
Hg19::chr5:85726548..85726552,-	p@chr5:85726548..85726552 -
Hg19::chr5:85758220..85758224,-	p@chr5:85758220..85758224 -
Hg19::chr5:85866603..85866622,-	p@chr5:85866603..85866622 -
Hg19::chr6:102247584..102247620,+	p@chr6:102247584..102247620 +
Hg19::chr6:2431114..2431122,+	p@chr6:2431114..2431122 +
Hg19::chr6:25703371..25703392,-	p@chr6:25703371..25703392 -
Hg19::chr6:25703430..25703438,-	p@chr6:25703430..25703438 -
Hg19::chr6:52591707..52591712,+	p@chr6:52591707..52591712 +
Hg19::chr7:10279440..10279456,-	p@chr7:10279440..10279456 -
Hg19::chr7:10279467..10279477,-	p@chr7:10279467..10279477 -
Hg19::chr7:119341438..119341443,-	p@chr7:119341438..119341443 -
Hg19::chr7:119432715..119432719,-	p@chr7:119432715..119432719 -
Hg19::chr7:119434164..119434168,-	p@chr7:119434164..119434168 -
Hg19::chr7:141840592..141840632,+	p@chr7:141840592..141840632 +
Hg19::chr7:19417679..19417693,+	p@chr7:19417679..19417693 +
Hg19::chr7:19417700..19417718,+	p@chr7:19417700..19417718 +
Hg19::chr7:25476780..25476790,+	p@chr7:25476780..25476790 +
Hg19::chr7:25476805..25476814,+	p@chr7:25476805..25476814 +
Hg19::chr7:27135418..27135419,-	p6@HOXA1
Hg19::chr8:61496517..61496522,+	p30@RAB2A
Hg19::chr8:61761056..61761069,+	p@chr8:61761056..61761069 +
Hg19::chr8:61761479..61761510,+	p@chr8:61761479..61761510 +
Hg19::chr8:83522938..83522947,-	p@chr8:83522938..83522947 -
Hg19::chr8:83570383..83570385,-	p@chr8:83570383..83570385 -
Hg19::chr8:83573739..83573746,-	p@chr8:83573739..83573746 -
Hg19::chr8:83574464..83574473,-	p@chr8:83574464..83574473 -
Hg19::chr8:83603164..83603178,-	p@chr8:83603164..83603178 -
Hg19::chr8:83603186..83603195,-	p@chr8:83603186..83603195 -
Hg19::chr9:104500249..104500268,-	p1@AB385519
Hg19::chr9:104500922..104500940,-	p1@GRIN3A
Hg19::chr9:105186923..105186932,+	p@chr9:105186923..105186932 +
Hg19::chr9:105186934..105186953,+	p@chr9:105186934..105186953 +
Hg19::chr9:105186978..105186981,+	p@chr9:105186978..105186981 +
Hg19::chr9:109984515..109984523,+	p@chr9:109984515..109984523 +
Hg19::chr9:136754716..136754724,-	p@chr9:136754716..136754724 -
Hg19::chr9:18777363..18777375,-	p@chr9:18777363..18777375 -
Hg19::chr9:18777378..18777385,-	p@chr9:18777378..18777385 -
Hg19::chr9:74802300..74802309,+	p@chr9:74802300..74802309 +
Hg19::chr9:9687992..9688006,+	p@chr9:9687992..9688006 +
Hg19::chr9:9688031..9688053,+	p@chr9:9688031..9688053 +
Hg19::chrX:122447934..122447944,-	p@chrX:122447934..122447944 -
Hg19::chrX:122447968..122447983,-	p@chrX:122447968..122447983 -
Hg19::chrX:33744981..33744990,-	p@chrX:33744981..33744990 -
Hg19::chrX:33745016..33745027,-	p@chrX:33745016..33745027 -
Hg19::chrX:83993981..83993987,+	p@chrX:83993981..83993987 +

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:0032501	multicellular organismal process	0.0323796067349582
GO:0007399	nervous system development	0.0323796067349582
GO:0005509	calcium ion binding	0.0323796067349582
GO:0003808	protein C (activated) activity	0.0323796067349582
GO:0042157	lipoprotein metabolic process	0.0389844058753471

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
regional part of nervous system	7.81e-32	94
nervous system	7.81e-32	94
central nervous system	1.01e-29	82
neural tube	1.62e-26	57
neural rod	1.62e-26	57
future spinal cord	1.62e-26	57
neural keel	1.62e-26	57
adult organism	1.23e-25	115
brain	6.31e-25	69
future brain	6.31e-25	69
regional part of forebrain	2.45e-22	41
forebrain	2.45e-22	41
future forebrain	2.45e-22	41
anterior neural tube	8.51e-22	42
regional part of brain	1.16e-21	59
gray matter	1.69e-18	34
brain grey matter	1.69e-18	34
telencephalon	2.04e-18	34
neurectoderm	6.41e-18	90
regional part of telencephalon	8.61e-18	33
cerebral hemisphere	1.74e-17	32
neural plate	2.82e-17	86
presumptive neural plate	2.82e-17	86
regional part of cerebral cortex	2.21e-15	22
neocortex	3.86e-14	20
cerebral cortex	9.92e-14	25
pallium	9.92e-14	25
pre-chordal neural plate	4.50e-13	61
ectoderm	4.64e-12	173
presumptive ectoderm	4.64e-12	173
ectoderm-derived structure	1.83e-11	169
anterior region of body	5.53e-11	129
craniocervical region	5.53e-11	129
head	1.19e-10	123
tube	2.17e-09	194

Disease

Ontology term	p-value	n
cell type cancer	1.81e-08	143
cancer	7.14e-07	235

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
SUZ12#23512	9	3.19887963262104	0.00220640677423792	0.0127087423943655

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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