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Coexpression cluster:C1541

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Full id: C1541_amniotic_Amniotic_MCF7_Placental_chorionic_oral_acantholytic



Phase1 CAGE Peaks

Hg19::chr8:102504507..102504532,-p@chr8:102504507..102504532
-
Hg19::chr8:102504651..102504683,+p1@GRHL2
Hg19::chr8:102504690..102504704,+p3@GRHL2
Hg19::chr8:102504932..102504952,+p4@GRHL2
Hg19::chr8:102504979..102505010,+p2@GRHL2
Hg19::chr8:102681493..102681497,+p@chr8:102681493..102681497
+


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


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>


Cell Type
Ontology termp-valuen
epithelial cell2.87e-20254
endo-epithelial cell1.82e-1843
endodermal cell9.70e-1559
epithelial cell of alimentary canal3.90e-0921
respiratory epithelial cell1.11e-0813
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure8.82e-25169
endoderm8.82e-25169
presumptive endoderm8.82e-25169
digestive system1.90e-18155
digestive tract1.90e-18155
primitive gut1.90e-18155
subdivision of digestive tract1.30e-15129
endodermal part of digestive tract1.30e-15129
mixed endoderm/mesoderm-derived structure5.85e-15130
anatomical space3.02e-13104
respiratory system8.09e-1372
immaterial anatomical entity1.40e-12126
extraembryonic membrane1.88e-1114
membranous layer1.88e-1114
endo-epithelium1.59e-1082
orifice2.57e-0935
foregut2.66e-0998
chorion9.73e-097
respiratory tract2.65e-0853
epithelial bud3.29e-0837
mucosa3.34e-0812
reproductive structure4.12e-0859
reproductive system4.12e-0859
thoracic segment organ4.76e-0835
thoracic cavity element1.08e-0734
thoracic cavity1.08e-0734
oral opening1.21e-0721
reproductive organ1.92e-0748
internal genitalia2.95e-0725
trunk region element3.00e-07107
anatomical cavity4.82e-0770
organ6.48e-07511
thoracic segment of trunk6.62e-0752
organ component layer9.76e-0757
Disease
Ontology termp-valuen
carcinoma1.63e-15106
squamous cell carcinoma2.34e-1414
cell type cancer8.04e-11143
adenocarcinoma2.12e-0925


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.