Coexpression cluster:C4677

Full id: C4677_lung_mesothelioma_Renal_liposarcoma_pharyngeal_Nucleus_Endothelial

Phase1 CAGE Peaks

Hg19::chr7:27153185..27153215,+	p1@ENST00000522193
Hg19::chr7:27153226..27153257,+	p2@ENST00000522193
Hg19::chr7:27153269..27153285,+	p3@ENST00000522193

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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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>cell_data<br>uberon_data<br><br>

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Cell Type

Ontology term	p-value	n
mesodermal cell	1.74e-26	119
squamous epithelial cell	6.70e-14	62
lining cell	1.21e-13	57
barrier cell	1.21e-13	57
muscle cell	9.61e-13	54
contractile cell	1.42e-12	59
muscle precursor cell	1.73e-12	57
myoblast	1.73e-12	57
multi-potent skeletal muscle stem cell	1.73e-12	57
endothelial cell of vascular tree	3.01e-11	24
smooth muscle cell	1.67e-10	42
smooth muscle myoblast	1.67e-10	42
meso-epithelial cell	4.53e-10	44
endothelial cell	1.01e-09	35
electrically responsive cell	1.12e-09	60
electrically active cell	1.12e-09	60
blood vessel endothelial cell	1.48e-09	18
embryonic blood vessel endothelial progenitor cell	1.48e-09	18
embryonic cell	3.31e-09	248
vascular associated smooth muscle cell	3.01e-07	32
epithelial cell	5.40e-07	254

Uber Anatomy

Ontology term	p-value	n
trunk	5.12e-22	216
mesenchyme	3.42e-21	238
entire embryonic mesenchyme	3.42e-21	238
vessel	6.20e-21	69
epithelial tube	2.60e-20	118
blood vessel	1.97e-18	60
epithelial tube open at both ends	1.97e-18	60
blood vasculature	1.97e-18	60
vascular cord	1.97e-18	60
unilaminar epithelium	2.44e-18	138
trunk mesenchyme	7.13e-17	143
vasculature	9.77e-16	79
vascular system	9.77e-16	79
mesoderm	1.16e-14	448
mesoderm-derived structure	1.16e-14	448
presumptive mesoderm	1.16e-14	448
splanchnic layer of lateral plate mesoderm	1.27e-14	84
trunk region element	5.37e-14	107
muscle tissue	2.37e-13	63
musculature	2.37e-13	63
musculature of body	2.37e-13	63
anatomical conduit	8.35e-13	241
skeletal muscle tissue	1.00e-12	61
striated muscle tissue	1.00e-12	61
myotome	1.00e-12	61
artery	1.79e-12	42
arterial blood vessel	1.79e-12	42
arterial system	1.79e-12	42
intermediate mesoderm	4.77e-12	37
subdivision of trunk	1.79e-11	113
immaterial anatomical entity	2.33e-11	126
subdivision of digestive tract	5.86e-11	129
endodermal part of digestive tract	5.86e-11	129
anatomical space	9.41e-11	104
body cavity precursor	1.09e-10	63
dermomyotome	3.47e-10	70
multi-tissue structure	3.68e-10	347
renal system	9.63e-10	45
anatomical cluster	9.94e-10	286
epithelium	1.46e-09	309
endothelium	1.48e-09	18
blood vessel endothelium	1.48e-09	18
cardiovascular system endothelium	1.48e-09	18
systemic artery	1.93e-09	33
systemic arterial system	1.93e-09	33
urinary system structure	3.20e-09	44
anatomical cavity	3.92e-09	70
cell layer	4.93e-09	312
tube	6.16e-09	194
simple squamous epithelium	9.39e-09	22
circulatory system	1.33e-08	113
abdominal segment of trunk	1.44e-08	61
abdomen	1.44e-08	61
aorta	1.83e-08	21
aortic system	1.83e-08	21
cardiovascular system	1.95e-08	110
digestive system	2.66e-08	155
digestive tract	2.66e-08	155
primitive gut	2.66e-08	155
cavitated compound organ	2.70e-08	32
abdomen element	4.15e-08	55
abdominal segment element	4.15e-08	55
reproductive structure	7.39e-08	59
reproductive system	7.39e-08	59
multilaminar epithelium	9.29e-08	82
mixed endoderm/mesoderm-derived structure	1.11e-07	130
endoderm-derived structure	2.04e-07	169
endoderm	2.04e-07	169
presumptive endoderm	2.04e-07	169
squamous epithelium	3.04e-07	25
organism subdivision	4.62e-07	365
gastrointestinal system	5.33e-07	35
mesonephros	7.29e-07	18
pronephros	7.29e-07	18
nephrogenic cord	7.29e-07	18
pronephric mesoderm	7.29e-07	18
rostral part of nephrogenic cord	7.29e-07	18
presumptive pronephric mesoderm	7.29e-07	18

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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This analysis result is provided for C0 - C305 clusters.