Coexpression cluster:C4626

Full id: C4626_salivary_amniotic_choriocarcinoma_Keratinocyte_maxillary_cervical_esophagus

Phase1 CAGE Peaks

	Short description
Hg19::chr6:7541814..7541825,+	p7@DSP
Hg19::chr6:7541832..7541844,+	p3@DSP
Hg19::chr6:7541845..7541878,+	p2@DSP

Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data

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No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data

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No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data

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Cell Type

Ontology term	p-value	n
epithelial cell	2.60e-35	254
endodermal cell	2.40e-18	59
endo-epithelial cell	3.60e-16	43
epithelial cell of alimentary canal	5.88e-09	21
respiratory epithelial cell	8.51e-07	13

Uber Anatomy

Ontology term	p-value	n
endoderm-derived structure	1.07e-21	169
endoderm	1.07e-21	169
presumptive endoderm	1.07e-21	169
digestive system	4.01e-17	155
digestive tract	4.01e-17	155
primitive gut	4.01e-17	155
subdivision of digestive tract	9.13e-16	129
endodermal part of digestive tract	9.13e-16	129
organ	1.55e-15	511
mixed endoderm/mesoderm-derived structure	3.76e-15	130
multi-cellular organism	1.57e-14	659
immaterial anatomical entity	9.00e-14	126
organ part	8.97e-13	219
foregut	1.05e-12	98
organism subdivision	3.43e-12	365
multi-tissue structure	5.15e-12	347
respiratory system	6.18e-12	72
anatomical space	9.04e-12	104
anatomical system	6.00e-11	625
subdivision of trunk	9.79e-11	113
anatomical group	1.02e-10	626
primordium	1.40e-10	168
mesenchyme	5.35e-10	238
entire embryonic mesenchyme	5.35e-10	238
endo-epithelium	1.50e-09	82
respiratory tract	6.73e-09	53
trunk region element	2.38e-08	107
anatomical cavity	6.27e-08	70
embryo	1.52e-07	612
organ component layer	2.70e-07	57
extraembryonic membrane	4.89e-07	14
membranous layer	4.89e-07	14
respiratory primordium	6.63e-07	38
endoderm of foregut	6.63e-07	38

Disease

Ontology term	p-value	n
carcinoma	6.76e-22	106
cell type cancer	3.13e-14	143
adenocarcinoma	3.43e-07	25

Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data

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No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data

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This analysis result is provided for C0 - C305 clusters.