Coexpression cluster:C227

Full id: C227_chorionic_amniotic_Mesenchymal_Placental_gastric_diaphragm_tongue

Phase1 CAGE Peaks

Hg19::chr11:2016471..2016492,+	p3@RPSA
Hg19::chr11:2016512..2016519,-	p10@BC106079
Hg19::chr11:2016522..2016560,-	p1@BC106079
Hg19::chr11:2016652..2016663,-	p9@BC106079
Hg19::chr11:2016663..2016681,+	p5@RPSA
Hg19::chr11:2016672..2016677,-	p11@BC106079
Hg19::chr11:2016689..2016722,-	p3@BC106079
Hg19::chr11:2016732..2016739,-	p8@BC106079
Hg19::chr11:2016740..2016751,-	p7@BC106079
Hg19::chr11:2016752..2016772,-	p5@BC106079
Hg19::chr11:2016780..2016789,-	p2@AF116709
Hg19::chr11:2016791..2016794,-	p1@AF116709
Hg19::chr11:2016803..2016860,-	p4@H19
Hg19::chr11:2016865..2016913,-	p9@H19
Hg19::chr11:2016915..2016943,-	p24@H19
Hg19::chr11:2016937..2016981,+	p@chr11:2016937..2016981 +
Hg19::chr11:2016952..2016959,-	p35@H19
Hg19::chr11:2016960..2016996,-	p20@H19
Hg19::chr11:2017005..2017026,-	p27@H19
Hg19::chr11:2017110..2017135,+	p@chr11:2017110..2017135 +
Hg19::chr11:2017138..2017174,-	p18@H19
Hg19::chr11:2017178..2017212,-	p16@H19
Hg19::chr11:2017214..2017227,-	p10@H19
Hg19::chr11:2017228..2017236,-	p34@H19
Hg19::chr11:2017331..2017342,-	p30@H19
Hg19::chr11:2017349..2017365,-	p7@H19
Hg19::chr11:2017366..2017393,-	p3@H19
Hg19::chr11:2017367..2017398,+	p@chr11:2017367..2017398 +
Hg19::chr11:2017395..2017407,-	p17@H19
Hg19::chr11:2017416..2017437,-	p13@H19
Hg19::chr11:2017525..2017553,+	p@chr11:2017525..2017553 +
Hg19::chr11:2017623..2017638,-	p14@H19
Hg19::chr11:2017656..2017665,-	p36@H19
Hg19::chr11:2017849..2017895,+	p@chr11:2017849..2017895 +
Hg19::chr11:2017862..2017869,-	p28@H19
Hg19::chr11:2017907..2017914,-	p32@H19
Hg19::chr11:2017929..2017975,+	p@chr11:2017929..2017975 +
Hg19::chr11:2018007..2018012,-	p1@MIR675
Hg19::chr11:2018058..2018067,+	p14@AF118081
Hg19::chr11:2018115..2018182,+	p4@AF118081
Hg19::chr11:2018178..2018183,-	p31@H19
Hg19::chr11:2018235..2018266,+	p7@AF118081
Hg19::chr11:2018305..2018318,-	p8@H19
Hg19::chr11:2018321..2018332,-	p22@H19
Hg19::chr11:2018359..2018371,-	p11@H19
Hg19::chr11:2018389..2018396,-	p26@H19
Hg19::chr11:2018395..2018415,+	p9@AF118081
Hg19::chr11:2018399..2018408,-	p23@H19
Hg19::chr11:2018440..2018456,-	p5@H19
Hg19::chr11:2018455..2018516,+	p2@AF118081
Hg19::chr11:2018467..2018477,-	p19@H19
Hg19::chr11:2018544..2018555,-	p21@H19
Hg19::chr11:2018636..2018661,+	p6@AF118081
Hg19::chr11:2018694..2018745,+	p3@AF118081
Hg19::chr11:2018773..2018785,-	p12@H19
Hg19::chr11:2018875..2018886,-	p25@H19
Hg19::chr11:2018901..2018914,-	p6@H19
Hg19::chr11:2018956..2018969,-	p15@H19
Hg19::chr11:2018977..2019048,-	p1@H19
Hg19::chr11:2150461..2150472,+	p5@BC104421
Hg19::chr11:2160324..2160330,+	p17@BC017277
Hg19::chr11:2160680..2160696,-	p59@IGF2
Hg19::chr1:2066627..2066640,+	p19@PRKCZ

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
1.2723518646306e-05	0.00805398730311171	3	312	Diabetes pathways (Reactome):REACT_15380

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:0005055	laminin receptor activity	0.0172190497820848
GO:0004700	atypical protein kinase C activity	0.0172190497820848
GO:0006349	genetic imprinting	0.0229553539426068
GO:0018445	prothoracicotrophic hormone activity	0.0229553539426068
GO:0005159	insulin-like growth factor receptor binding	0.0245899540279904
GO:0004697	protein kinase C activity	0.0245899540279904
GO:0001565	phorbol ester receptor activity	0.0245899540279904
GO:0008286	insulin receptor signaling pathway	0.0389942395441504
GO:0005184	neuropeptide hormone activity	0.0389942395441504
GO:0005843	cytosolic small ribosomal subunit (sensu Eukaryota)	0.0389942395441504
GO:0007165	signal transduction	0.0409608036317618
GO:0007154	cell communication	0.0474708623037988
GO:0008305	integrin complex	0.0482976234877922
GO:0019992	diacylglycerol binding	0.0482976234877922
GO:0040029	regulation of gene expression, epigenetic	0.0496531872163847

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
multi-tissue structure	2.61e-14	347
endoderm-derived structure	2.84e-13	169
endoderm	2.84e-13	169
presumptive endoderm	2.84e-13	169
mesenchyme	4.09e-13	238
entire embryonic mesenchyme	4.09e-13	238
subdivision of digestive tract	9.27e-13	129
endodermal part of digestive tract	9.27e-13	129
mixed endoderm/mesoderm-derived structure	2.51e-11	130
digestive system	1.13e-10	155
digestive tract	1.13e-10	155
primitive gut	1.13e-10	155
multi-cellular organism	2.52e-10	659
organ part	3.13e-10	219
foregut	1.22e-09	98
extraembryonic membrane	3.10e-09	14
membranous layer	3.10e-09	14
organ component layer	9.61e-09	57
organ segment	3.81e-08	97
trunk	3.91e-08	216
compound organ	5.69e-08	69
embryo	6.28e-08	612
extraembryonic structure	9.22e-08	24
upper respiratory tract	1.16e-07	19
immaterial anatomical entity	1.80e-07	126
larynx	2.01e-07	9
subdivision of trunk	2.25e-07	113
abdominal segment of trunk	3.29e-07	61
abdomen	3.29e-07	61
trunk region element	3.89e-07	107
primordium	4.68e-07	168
organism subdivision	8.58e-07	365

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)
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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

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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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