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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C1021_Small_Bronchial_Tracheal_Mallassezderived_Gingival_Sebocyte_squamous
|full_id=C1021_Small_Bronchial_Tracheal_Mallassezderived_Gingival_Sebocyte_squamous
|gostat_on_coexpression_clusters=GO:0043542!endothelial cell migration!0.0262720383888429!6273$GO:0004143!diacylglycerol kinase activity!0.0262720383888429!1606$GO:0005509!calcium ion binding!0.0262720383888429!1606;6273$GO:0007205!protein kinase C activation!0.0262720383888429!1606$GO:0019992!diacylglycerol binding!0.0322487025371141!1606$GO:0032147!activation of protein kinase activity!0.0322487025371141!1606$GO:0007200!G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)!0.0347404066847027!1606$GO:0048015!phosphoinositide-mediated signaling!0.0368975161749926!1606$GO:0045860!positive regulation of protein kinase activity!0.0368975161749926!1606$GO:0033674!positive regulation of kinase activity!0.0368975161749926!1606$GO:0051347!positive regulation of transferase activity!0.0368975161749926!1606$GO:0016477!cell migration!0.0434492764139489!6273$GO:0045859!regulation of protein kinase activity!0.0434492764139489!1606$GO:0043549!regulation of kinase activity!0.0434492764139489!1606$GO:0051338!regulation of transferase activity!0.0434492764139489!1606$GO:0043085!positive regulation of catalytic activity!0.0434492764139489!1606$GO:0019932!second-messenger-mediated signaling!0.0434492764139489!1606
|gostat_on_coexpression_clusters=GO:0043542!endothelial cell migration!0.0262720383888429!6273$GO:0004143!diacylglycerol kinase activity!0.0262720383888429!1606$GO:0005509!calcium ion binding!0.0262720383888429!1606;6273$GO:0007205!protein kinase C activation!0.0262720383888429!1606$GO:0019992!diacylglycerol binding!0.0322487025371141!1606$GO:0032147!activation of protein kinase activity!0.0322487025371141!1606$GO:0007200!G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)!0.0347404066847027!1606$GO:0048015!phosphoinositide-mediated signaling!0.0368975161749926!1606$GO:0045860!positive regulation of protein kinase activity!0.0368975161749926!1606$GO:0033674!positive regulation of kinase activity!0.0368975161749926!1606$GO:0051347!positive regulation of transferase activity!0.0368975161749926!1606$GO:0016477!cell migration!0.0434492764139489!6273$GO:0045859!regulation of protein kinase activity!0.0434492764139489!1606$GO:0043549!regulation of kinase activity!0.0434492764139489!1606$GO:0051338!regulation of transferase activity!0.0434492764139489!1606$GO:0043085!positive regulation of catalytic activity!0.0434492764139489!1606$GO:0019932!second-messenger-mediated signaling!0.0434492764139489!1606

Revision as of 13:26, 12 September 2012


Full id: C1021_Small_Bronchial_Tracheal_Mallassezderived_Gingival_Sebocyte_squamous



Phase1 CAGE Peaks

Hg19::chr12:56332022..56332030,+p17@DGKA
Hg19::chr1:153537328..153537329,-p5@S100A2
Hg19::chr1:183133608..183133625,-p@chr1:183133608..183133625
-
Hg19::chr1:209827500..209827512,-p@chr1:209827500..209827512
-
Hg19::chr1:209827520..209827532,-p@chr1:209827520..209827532
-
Hg19::chr8:29526932..29526947,-p@chr8:29526932..29526947
-
Hg19::chr8:49783129..49783154,+p@chr8:49783129..49783154
+
Hg19::chr9:21683189..21683195,+p@chr9:21683189..21683195
+


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 IDGO nameFDR corrected p-value
GO:0043542endothelial cell migration0.0262720383888429
GO:0004143diacylglycerol kinase activity0.0262720383888429
GO:0005509calcium ion binding0.0262720383888429
GO:0007205protein kinase C activation0.0262720383888429
GO:0019992diacylglycerol binding0.0322487025371141
GO:0032147activation of protein kinase activity0.0322487025371141
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0347404066847027
GO:0048015phosphoinositide-mediated signaling0.0368975161749926
GO:0045860positive regulation of protein kinase activity0.0368975161749926
GO:0033674positive regulation of kinase activity0.0368975161749926
GO:0051347positive regulation of transferase activity0.0368975161749926
GO:0016477cell migration0.0434492764139489
GO:0045859regulation of protein kinase activity0.0434492764139489
GO:0043549regulation of kinase activity0.0434492764139489
GO:0051338regulation of transferase activity0.0434492764139489
GO:0043085positive regulation of catalytic activity0.0434492764139489
GO:0019932second-messenger-mediated signaling0.0434492764139489



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 cell3.01e-21254
endo-epithelial cell1.01e-1543
squamous epithelial cell6.16e-1562
endodermal cell4.63e-1159
animal cell5.37e-11679
eukaryotic cell5.37e-11679
embryonic cell3.61e-10248
respiratory epithelial cell1.56e-0913
Uber Anatomy
Ontology termp-valuen
anatomical group1.32e-09626
anatomical system1.76e-09625
female organism3.64e-0941
mesoderm5.79e-08448
mesoderm-derived structure5.79e-08448
presumptive mesoderm5.79e-08448
multi-cellular organism8.55e-08659
female reproductive organ1.61e-0737
female reproductive system1.61e-0737
germ layer5.85e-07604
embryonic tissue5.85e-07604
presumptive structure5.85e-07604
epiblast (generic)5.85e-07604
embryonic structure7.67e-07605
developing anatomical structure7.67e-07605
Disease
Ontology termp-valuen
squamous cell carcinoma1.04e-0914
female reproductive organ cancer4.55e-0727


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CEBPB#105154.981967266140510.001250523778793020.00840542237954462
STAT3#677456.57466562322140.0003394465772418640.00345059967690899
TCF7L2#693445.385088281568670.003825814635011350.0188785379005882



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.