Coexpression cluster:C1700

Full id: C1700_heart_adipose_mature_breast_left_smooth_vagina

Phase1 CAGE Peaks

Hg19::chr13:113633620..113633695,+	p2@MCF2L
Hg19::chr1:112903200..112903261,-	p1@ENST00000427290
Hg19::chr4:54518619..54518649,-	p5@LNX1
Hg19::chr8:38586068..38586128,+	p3@TACC1
Hg19::chr9:124062100..124062115,+	p2@GSN

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:0051014	actin filament severing	0.0340117855475839
GO:0005737	cytoplasm	0.0340117855475839
GO:0051693	actin filament capping	0.0340117855475839
GO:0051016	barbed-end actin filament capping	0.0340117855475839
GO:0030835	negative regulation of actin filament depolymerization	0.0340117855475839
GO:0030834	regulation of actin filament depolymerization	0.0340117855475839
GO:0030042	actin filament depolymerization	0.0340117855475839
GO:0030041	actin filament polymerization	0.036177181378452
GO:0008064	regulation of actin polymerization and/or depolymerization	0.036177181378452
GO:0051261	protein depolymerization	0.036177181378452
GO:0030832	regulation of actin filament length	0.036177181378452
GO:0032535	regulation of cellular component size	0.036177181378452
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.036177181378452
GO:0051129	negative regulation of cellular component organization and biogenesis	0.036177181378452
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.036177181378452
GO:0033043	regulation of organelle organization and biogenesis	0.036177181378452
GO:0008154	actin polymerization and/or depolymerization	0.0370810211729326

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><br>

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Cell Type

Ontology term	p-value	n
fat cell	2.81e-07	15

Uber Anatomy

Ontology term	p-value	n
adult organism	2.75e-44	115
anatomical conduit	3.21e-23	241
anatomical cluster	8.75e-22	286
neural tube	1.65e-21	57
neural rod	1.65e-21	57
future spinal cord	1.65e-21	57
neural keel	1.65e-21	57
regional part of brain	6.41e-20	59
multi-cellular organism	1.03e-19	659
organism subdivision	3.13e-18	365
tube	4.35e-18	194
neural plate	5.23e-18	86
presumptive neural plate	5.23e-18	86
multi-tissue structure	1.35e-17	347
anterior neural tube	6.54e-17	42
regional part of forebrain	2.92e-16	41
forebrain	2.92e-16	41
future forebrain	2.92e-16	41
neurectoderm	4.10e-16	90
anatomical system	5.13e-16	625
brain	1.04e-15	69
future brain	1.04e-15	69
anatomical group	1.14e-15	626
organ	3.75e-15	511
cell layer	1.25e-14	312
epithelium	1.50e-14	309
anterior region of body	3.60e-14	129
craniocervical region	3.60e-14	129
head	7.27e-14	123
central nervous system	1.12e-13	82
gray matter	2.44e-13	34
brain grey matter	2.44e-13	34
telencephalon	3.03e-13	34
regional part of telencephalon	7.19e-13	33
cerebral hemisphere	2.89e-12	32
pre-chordal neural plate	4.13e-12	61
embryo	1.14e-11	612
organ part	1.19e-11	219
regional part of nervous system	1.81e-11	94
nervous system	1.81e-11	94
embryonic structure	3.17e-11	605
developing anatomical structure	3.17e-11	605
germ layer	6.64e-11	604
embryonic tissue	6.64e-11	604
presumptive structure	6.64e-11	604
epiblast (generic)	6.64e-11	604
ectoderm-derived structure	4.86e-10	169
regional part of cerebral cortex	9.21e-10	22
cerebral cortex	3.31e-09	25
pallium	3.31e-09	25
ectoderm	3.39e-09	173
presumptive ectoderm	3.39e-09	173
neocortex	7.28e-09	20
compound organ	1.11e-07	69

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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This analysis result is provided for C0 - C305 clusters.