Coexpression cluster:C363

Full id: C363_Mallassezderived_Gingival_Keratinocyte_Mammary_Prostate_Small_Urothelial

Phase1 CAGE Peaks

Hg19::chr18:21452899..21452910,+	p2@LAMA3
Hg19::chr18:21452964..21452993,+	p1@LAMA3
Hg19::chr18:21461943..21461955,+	p@chr18:21461943..21461955 +
Hg19::chr18:21464760..21464772,+	p2@X77598
Hg19::chr18:21474288..21474320,-	p@chr18:21474288..21474320 -
Hg19::chr18:21474914..21474939,+	p@chr18:21474914..21474939 +
Hg19::chr18:21474947..21474966,+	p@chr18:21474947..21474966 +
Hg19::chr18:21478695..21478707,+	p9@LAMA3
Hg19::chr18:21478968..21478985,-	p@chr18:21478968..21478985 -
Hg19::chr18:21478996..21479008,-	p@chr18:21478996..21479008 -
Hg19::chr18:21479321..21479334,+	p@chr18:21479321..21479334 +
Hg19::chr18:21479368..21479399,-	p@chr18:21479368..21479399 -
Hg19::chr18:21479408..21479415,-	p@chr18:21479408..21479415 -
Hg19::chr18:21481109..21481120,+	p@chr18:21481109..21481120 +
Hg19::chr18:21481125..21481150,+	p@chr18:21481125..21481150 +
Hg19::chr18:21481209..21481225,+	p@chr18:21481209..21481225 +
Hg19::chr18:21483933..21483967,-	p@chr18:21483933..21483967 -
Hg19::chr18:21483996..21484010,+	p@chr18:21483996..21484010 +
Hg19::chr18:21484533..21484572,+	p@chr18:21484533..21484572 +
Hg19::chr18:21484604..21484624,+	p@chr18:21484604..21484624 +
Hg19::chr18:21485515..21485536,-	p@chr18:21485515..21485536 -
Hg19::chr18:21485558..21485596,-	p@chr18:21485558..21485596 -
Hg19::chr18:21487576..21487588,-	p@chr18:21487576..21487588 -
Hg19::chr18:21487788..21487807,+	p@chr18:21487788..21487807 +
Hg19::chr18:21487848..21487862,-	p@chr18:21487848..21487862 -
Hg19::chr18:21494675..21494689,+	p@chr18:21494675..21494689 +
Hg19::chr18:21500893..21500904,+	p@chr18:21500893..21500904 +
Hg19::chr18:21508639..21508652,+	p@chr18:21508639..21508652 +
Hg19::chr18:21529811..21529823,+	p@chr18:21529811..21529823 +
Hg19::chr18:21531667..21531694,+	p@chr18:21531667..21531694 +
Hg19::chr3:129513704..129513729,-	p12@TMCC1

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0045995	regulation of embryonic development	0.00988889675790024
GO:0005606	laminin-1 complex	0.00988889675790024
GO:0043256	laminin complex	0.00988889675790024
GO:0005605	basal lamina	0.0182777618173525
GO:0030334	regulation of cell migration	0.0182777618173525
GO:0030155	regulation of cell adhesion	0.0182777618173525
GO:0051270	regulation of cell motility	0.0182777618173525
GO:0040012	regulation of locomotion	0.0182777618173525
GO:0040011	locomotion	0.0182777618173525
GO:0005604	basement membrane	0.0182777618173525
GO:0044420	extracellular matrix part	0.0277102104427011
GO:0008544	epidermis development	0.0277102104427011
GO:0007398	ectoderm development	0.0277102104427011
GO:0016477	cell migration	0.0363450637728375
GO:0009790	embryonic development	0.0363450637728375
GO:0050793	regulation of developmental process	0.0363450637728375
GO:0009888	tissue development	0.0441633001453489
GO:0051674	localization of cell	0.0495626658089424
GO:0006928	cell motility	0.0495626658089424

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>disease_data<br>

---

Cell Type

Ontology term	p-value	n
epithelial cell	7.46e-20	254
endo-epithelial cell	9.24e-19	43
endodermal cell	2.94e-12	59
epithelial cell of alimentary canal	3.33e-09	21
general ecto-epithelial cell	1.99e-07	13
respiratory epithelial cell	2.98e-07	13

Uber Anatomy

Ontology term	p-value	n
endoderm-derived structure	1.20e-13	169
endoderm	1.20e-13	169
presumptive endoderm	1.20e-13	169
organ	1.15e-12	511
respiratory system	1.84e-09	72
anatomical system	2.05e-09	625
digestive system	2.38e-09	155
digestive tract	2.38e-09	155
primitive gut	2.38e-09	155
multi-cellular organism	2.99e-09	659
anatomical group	3.24e-09	626
anatomical space	8.48e-09	104
orifice	1.54e-08	35
reproductive structure	2.68e-08	59
reproductive system	2.68e-08	59
mixed endoderm/mesoderm-derived structure	3.44e-08	130
organ component layer	4.50e-08	57
renal system	6.76e-08	45
subdivision of digestive tract	8.61e-08	129
endodermal part of digestive tract	8.61e-08	129
urinary system structure	1.37e-07	44
extraembryonic membrane	2.00e-07	14
membranous layer	2.00e-07	14
embryo	2.34e-07	612
internal genitalia	2.80e-07	25
embryonic structure	2.91e-07	605
developing anatomical structure	2.91e-07	605
germ layer	4.79e-07	604
embryonic tissue	4.79e-07	604
presumptive structure	4.79e-07	604
epiblast (generic)	4.79e-07	604
reproductive organ	8.34e-07	48
organ part	8.99e-07	219

Disease

Ontology term	p-value	n
carcinoma	2.43e-12	106
squamous cell carcinoma	1.41e-08	14
cell type cancer	6.06e-07	143

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

---

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

---

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

---

This analysis result is provided for C0 - C305 clusters.