Coexpression cluster:C1040

Full id: C1040_smooth_aorta_heart_bladder_uterus_penis_cervix

Phase1 CAGE Peaks

Hg19::chr14:94443066..94443092,-	p2@ASB2
Hg19::chr2:218843537..218843559,-	p4@TNS1
Hg19::chr2:218843565..218843592,-	p8@TNS1
Hg19::chr2:218843623..218843635,-	p11@TNS1
Hg19::chr4:119809984..119810024,+	p2@SYNPO2
Hg19::chr4:119810034..119810045,+	p8@SYNPO2
Hg19::chr9:70971821..70971841,+	p2@PGM5
Hg19::chrX:11683221..11683257,-	p3@ARHGAP6

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:0004614	phosphoglucomutase activity	0.0234374204859477
GO:0004252	serine-type endopeptidase activity	0.0234374204859477
GO:0008236	serine-type peptidase activity	0.0234374204859477
GO:0017171	serine hydrolase activity	0.0234374204859477
GO:0030054	cell junction	0.0234374204859477
GO:0003779	actin binding	0.0234374204859477
GO:0005913	cell-cell adherens junction	0.0237632929688061
GO:0008092	cytoskeletal protein binding	0.0254837298998518
GO:0044267	cellular protein metabolic process	0.0254837298998518
GO:0044260	cellular macromolecule metabolic process	0.0254837298998518
GO:0005100	Rho GTPase activator activity	0.0254837298998518
GO:0005884	actin filament	0.0254837298998518
GO:0019538	protein metabolic process	0.0254837298998518
GO:0016868	intramolecular transferase activity, phosphotransferases	0.0264162701651135
GO:0030041	actin filament polymerization	0.0264162701651135
GO:0004289	subtilase activity	0.0272350536668043
GO:0004175	endopeptidase activity	0.0272350536668043
GO:0005070	SH3/SH2 adaptor activity	0.0347587692753149
GO:0005912	adherens junction	0.0362788179553529
GO:0060090	molecular adaptor activity	0.0370633375511242
GO:0008154	actin polymerization and/or depolymerization	0.0370633375511242
GO:0016866	intramolecular transferase activity	0.0394222340296126
GO:0008233	peptidase activity	0.0465675100398205
GO:0030674	protein binding, bridging	0.0475019981986934
GO:0006508	proteolysis	0.0475019981986934
GO:0051258	protein polymerization	0.0475019981986934

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
adult organism	3.34e-55	114
neural tube	6.78e-19	56
neural rod	6.78e-19	56
future spinal cord	6.78e-19	56
neural keel	6.78e-19	56
neural plate	6.21e-17	82
presumptive neural plate	6.21e-17	82
regional part of nervous system	6.66e-17	53
regional part of brain	6.66e-17	53
anatomical cluster	1.41e-16	373
neurectoderm	2.12e-15	86
central nervous system	7.32e-15	81
multi-tissue structure	1.42e-14	342
structure with developmental contribution from neural crest	1.70e-14	132
brain	2.75e-14	68
future brain	2.75e-14	68
organ system subdivision	1.47e-13	223
telencephalon	5.61e-13	34
regional part of forebrain	1.29e-12	41
forebrain	1.29e-12	41
anterior neural tube	1.29e-12	41
future forebrain	1.29e-12	41
brain grey matter	1.55e-12	34
gray matter	1.55e-12	34
nervous system	1.58e-12	89
cerebral hemisphere	7.70e-12	32
regional part of telencephalon	1.25e-11	32
anatomical conduit	3.36e-11	240
ecto-epithelium	6.97e-11	104
pre-chordal neural plate	2.75e-10	61
cerebral cortex	4.78e-10	25
pallium	4.78e-10	25
multi-cellular organism	1.94e-09	656
organ	2.07e-09	503
tube	4.96e-09	192
epithelium	7.43e-09	306
regional part of cerebral cortex	1.07e-08	22
neocortex	1.26e-08	20
cell layer	1.61e-08	309
posterior neural tube	9.46e-08	15
chordal neural plate	9.46e-08	15
anatomical system	1.36e-07	624
ectoderm-derived structure	1.56e-07	171
ectoderm	1.56e-07	171
presumptive ectoderm	1.56e-07	171
anatomical group	1.66e-07	625
embryo	1.94e-07	592
organ part	3.54e-07	218
developing anatomical structure	5.88e-07	581

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
CTBP2#1488	3	23.518875127248	0.000213570629447747	0.00246166018859875

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.