Coexpression cluster:C278

Full id: C278_amygdala_hippocampus_insula_medial_putamen_temporal_olfactory

Phase1 CAGE Peaks

Hg19::chr10:126694575..126694592,-	p16@CTBP2
Hg19::chr11:134282221..134282236,-	p6@B3GAT1
Hg19::chr12:123466296..123466326,+	p9@ARL6IP4
Hg19::chr13:101712292..101712306,-	p@chr13:101712292..101712306 -
Hg19::chr13:44721892..44721904,-	p@chr13:44721892..44721904 -
Hg19::chr14:23983481..23983496,+	p@chr14:23983481..23983496 +
Hg19::chr14:71905725..71905743,+	p@chr14:71905725..71905743 +
Hg19::chr14:76241843..76241862,+	p@chr14:76241843..76241862 +
Hg19::chr14:94640408..94640419,+	p7@PPP4R4
Hg19::chr15:26147599..26147637,+	p1@ENST00000557171
Hg19::chr15:77988462..77988479,-	p15@LINGO1
Hg19::chr16:19183650..19183662,+	p8@SYT17
Hg19::chr16:19183671..19183690,+	p5@SYT17
Hg19::chr16:19183729..19183750,+	p7@SYT17
Hg19::chr16:57980465..57980483,-	p@chr16:57980465..57980483 -
Hg19::chr16:84002103..84002117,+	p2@NECAB2
Hg19::chr17:1029026..1029035,-	p37@ABR
Hg19::chr17:57604227..57604236,-	p@chr17:57604227..57604236 -
Hg19::chr18:32402321..32402331,+	p@chr18:32402321..32402331 +
Hg19::chr19:10506556..10506567,-	p6@CDC37
Hg19::chr1:95975684..95975731,+	p1@ENST00000432146 p1@ENST00000440116 p1@ENST00000456933
Hg19::chr22:39178758..39178776,-	p2@DNAL4
Hg19::chr2:10508688..10508712,+	p8@HPCAL1
Hg19::chr2:10508772..10508805,+	p4@HPCAL1
Hg19::chr2:183387791..183387813,-	p12@PDE1A
Hg19::chr2:242811874..242811904,+	p1@CXXC11
Hg19::chr2:242814260..242814263,+	p@chr2:242814260..242814263 +
Hg19::chr3:113023094..113023109,-	p3@WDR52
Hg19::chr3:113023157..113023168,-	p4@WDR52
Hg19::chr3:131756559..131756572,-	p7@CPNE4
Hg19::chr3:131756595..131756614,-	p4@CPNE4
Hg19::chr3:131756632..131756637,-	p11@CPNE4
Hg19::chr3:131756644..131756651,-	p13@CPNE4
Hg19::chr3:71777824..71777833,-	p28@EIF4E3
Hg19::chr4:118735142..118735153,-	p@chr4:118735142..118735153 -
Hg19::chr4:139230927..139230941,+	p2@ENST00000510736 p2@ENST00000515282
Hg19::chr4:46391095..46391114,-	p14@GABRA2
Hg19::chr6:76072731..76072770,-	p8@FILIP1
Hg19::chr6:90272488..90272510,+	p7@ANKRD6
Hg19::chr7:13141010..13141018,+	p2@ENST00000443947
Hg19::chr7:29845734..29845742,+	p16@WIPF3
Hg19::chr8:54752406..54752429,-	p5@ATP6V1H
Hg19::chr8:89554843..89554848,+	p2@ENST00000518631
Hg19::chr8:89554909..89554920,+	p3@ENST00000518631
Hg19::chr9:13165461..13165485,-	p13@MPDZ

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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p.value	FDR	nGenes	nPathway	Name
1.85355118110106e-05	0.0117329789763697	4	220	Signalling by NGF (Reactome):REACT_11061

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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No GOStat results

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><br>

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Uber Anatomy

Ontology term	p-value	n
neural tube	4.35e-29	57
neural rod	4.35e-29	57
future spinal cord	4.35e-29	57
neural keel	4.35e-29	57
central nervous system	5.95e-28	82
regional part of nervous system	4.11e-27	94
nervous system	4.11e-27	94
brain	4.61e-24	69
future brain	4.61e-24	69
regional part of brain	4.70e-24	59
anterior neural tube	6.06e-24	42
regional part of forebrain	1.18e-23	41
forebrain	1.18e-23	41
future forebrain	1.18e-23	41
neurectoderm	8.13e-23	90
adult organism	2.09e-22	115
telencephalon	4.72e-21	34
gray matter	5.44e-21	34
brain grey matter	5.44e-21	34
neural plate	8.49e-21	86
presumptive neural plate	8.49e-21	86
regional part of telencephalon	2.22e-20	33
cerebral hemisphere	6.31e-20	32
regional part of cerebral cortex	3.47e-16	22
cerebral cortex	1.62e-15	25
pallium	1.62e-15	25
pre-chordal neural plate	2.11e-15	61
neocortex	8.51e-15	20
ectoderm	1.57e-13	173
presumptive ectoderm	1.57e-13	173
ectoderm-derived structure	3.95e-12	169
head	1.13e-09	123
anterior region of body	3.92e-09	129
craniocervical region	3.92e-09	129
basal ganglion	3.82e-07	9
nuclear complex of neuraxis	3.82e-07	9
aggregate regional part of brain	3.82e-07	9
collection of basal ganglia	3.82e-07	9
cerebral subcortex	3.82e-07	9
nucleus of brain	6.07e-07	9
neural nucleus	6.07e-07	9

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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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

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