Coexpression cluster:C2351

Full id: C2351_Small_Keratinocyte_Bronchial_Sebocyte_mesothelioma_salivary_Tracheal

Phase1 CAGE Peaks

Hg19::chr15:83953373..83953386,-	p2@BNC1
Hg19::chr15:83953397..83953425,-	p1@BNC1
Hg19::chr15:83953474..83953483,-	p3@BNC1
Hg19::chr15:83953694..83953708,-	p4@BNC1

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
embryonic cell	3.11e-27	250
squamous epithelial cell	1.64e-22	63
mesodermal cell	2.12e-21	121
epithelial cell	2.23e-14	253
animal cell	7.28e-13	679
eukaryotic cell	7.28e-13	679
lining cell	6.43e-11	58
barrier cell	6.43e-11	58
muscle precursor cell	2.63e-10	58
myoblast	2.63e-10	58
multi-potent skeletal muscle stem cell	2.63e-10	58
somatic cell	1.21e-09	588
mesothelial cell	1.31e-09	19
muscle cell	1.75e-09	55
endo-epithelial cell	1.77e-09	42
contractile cell	3.21e-09	59
fibroblast	1.34e-08	76
electrically responsive cell	3.12e-08	61
electrically active cell	3.12e-08	61
respiratory epithelial cell	1.15e-07	13
epithelial cell of nephron	1.96e-07	15
smooth muscle cell	3.53e-07	43
smooth muscle myoblast	3.53e-07	43
vascular associated smooth muscle cell	3.82e-07	32
native cell	4.70e-07	722
non-terminally differentiated cell	9.99e-07	106

Uber Anatomy

Ontology term	p-value	n
organism subdivision	3.24e-16	264
multilaminar epithelium	1.70e-14	83
surface structure	1.92e-14	99
epithelial vesicle	3.37e-13	78
cell layer	1.41e-11	309
epithelium	1.48e-11	306
somite	2.63e-11	71
presomitic mesoderm	2.63e-11	71
presumptive segmental plate	2.63e-11	71
dermomyotome	2.63e-11	71
trunk paraxial mesoderm	2.63e-11	71
unilaminar epithelium	3.50e-11	148
paraxial mesoderm	6.44e-11	72
presumptive paraxial mesoderm	6.44e-11	72
dense mesenchyme tissue	1.53e-10	73
epithelial tube	3.73e-10	117
trunk mesenchyme	1.52e-09	122
skeletal muscle tissue	1.66e-09	62
striated muscle tissue	1.66e-09	62
myotome	1.66e-09	62
trunk	4.55e-09	199
mesenchyme	5.25e-09	160
entire embryonic mesenchyme	5.25e-09	160
muscle tissue	8.89e-09	64
musculature	8.89e-09	64
musculature of body	8.89e-09	64
epithelial tube open at both ends	9.74e-09	59
blood vessel	9.74e-09	59
blood vasculature	9.74e-09	59
vascular cord	9.74e-09	59
multi-tissue structure	1.70e-08	342
artery	3.42e-08	42
arterial blood vessel	3.42e-08	42
arterial system	3.42e-08	42
head	4.11e-08	56
vasculature	4.70e-08	78
vascular system	4.70e-08	78
excretory tube	7.32e-08	16
kidney epithelium	7.32e-08	16
mouth	1.14e-07	29
stomodeum	1.14e-07	29
vessel	1.28e-07	68
anterior region of body	1.37e-07	62
craniocervical region	1.37e-07	62
nephron epithelium	1.96e-07	15
renal tubule	1.96e-07	15
nephron tubule	1.96e-07	15
nephron	1.96e-07	15
uriniferous tubule	1.96e-07	15
nephrogenic mesenchyme	1.96e-07	15
subdivision of head	1.97e-07	49
splanchnic layer of lateral plate mesoderm	4.59e-07	83
skin of body	7.06e-07	41

Disease

Ontology term	p-value	n
squamous cell carcinoma	3.74e-07	14

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.