Personal tools

Coexpression cluster:C301

From FANTOM5_SSTAR

Revision as of 17:38, 18 May 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C301_Smooth_mesenchymal_Endothelial_Hepatic_basal_hepatic_chorionic



Phase1 CAGE Peaks

Hg19::chr7:100770328..100770393,+p1@SERPINE1
Hg19::chr7:100770399..100770412,+p6@SERPINE1
Hg19::chr7:100770418..100770430,+p8@SERPINE1
Hg19::chr7:100770437..100770464,+p3@SERPINE1
Hg19::chr7:100770466..100770499,+p2@SERPINE1
Hg19::chr7:100771725..100771774,+p7@SERPINE1
Hg19::chr7:100771785..100771826,+p5@SERPINE1
Hg19::chr7:100771827..100771882,+p4@SERPINE1
Hg19::chr7:100771879..100771926,-p@chr7:100771879..100771926
-
Hg19::chr7:100771891..100771905,+p11@SERPINE1
Hg19::chr7:100773698..100773743,+p@chr7:100773698..100773743
+
Hg19::chr7:100773764..100773799,-p@chr7:100773764..100773799
-
Hg19::chr7:100773780..100773795,+p@chr7:100773780..100773795
+
Hg19::chr7:100773800..100773832,+p@chr7:100773800..100773832
+
Hg19::chr7:100773840..100773860,+p@chr7:100773840..100773860
+
Hg19::chr7:100773872..100773904,-p@chr7:100773872..100773904
-
Hg19::chr7:100773914..100773948,-p@chr7:100773914..100773948
-
Hg19::chr7:100775170..100775232,+p2@BX649164
Hg19::chr7:100775178..100775193,-p@chr7:100775178..100775193
-
Hg19::chr7:100775233..100775309,+p1@BX649164
Hg19::chr7:100775264..100775282,-p@chr7:100775264..100775282
-
Hg19::chr7:100776967..100777011,+p@chr7:100776967..100777011
+
Hg19::chr7:100777001..100777050,-p@chr7:100777001..100777050
-
Hg19::chr7:100777029..100777041,+p@chr7:100777029..100777041
+
Hg19::chr7:100777064..100777089,+p@chr7:100777064..100777089
+
Hg19::chr7:100780263..100780339,+p9@SERPINE1
Hg19::chr7:100780319..100780345,-p@chr7:100780319..100780345
-
Hg19::chr7:100780695..100780710,+p@chr7:100780695..100780710
+
Hg19::chr7:100780724..100780737,+p@chr7:100780724..100780737
+
Hg19::chr7:100781004..100781031,+p@chr7:100781004..100781031
+
Hg19::chr7:100781252..100781342,+p@chr7:100781252..100781342
+
Hg19::chr7:100781348..100781402,+p@chr7:100781348..100781402
+
Hg19::chr7:100781477..100781548,+p@chr7:100781477..100781548
+
Hg19::chr7:100781537..100781588,-p@chr7:100781537..100781588
-
Hg19::chr7:100781614..100781656,+p@chr7:100781614..100781656
+
Hg19::chr7:100781695..100781730,+p@chr7:100781695..100781730
+
Hg19::chr7:100781793..100781808,+p@chr7:100781793..100781808
+
Hg19::chr7:100781864..100781880,+p@chr7:100781864..100781880
+
Hg19::chr7:100781903..100781920,+p@chr7:100781903..100781920
+
Hg19::chr7:100781986..100782007,+p@chr7:100781986..100782007
+
Hg19::chr7:100782368..100782400,+p@chr7:100782368..100782400
+


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:0002020protease binding0.00302770348690518
GO:0008243plasminogen activator activity0.00302770348690518
GO:0042730fibrinolysis0.00302770348690518
GO:0030195negative regulation of blood coagulation0.00302770348690518
GO:0030193regulation of blood coagulation0.00302770348690518
GO:0050819negative regulation of coagulation0.00302770348690518
GO:0050818regulation of coagulation0.00302770348690518
GO:0045765regulation of angiogenesis0.00629194630872483
GO:0007596blood coagulation0.01171243190987
GO:0050817coagulation0.01171243190987
GO:0007599hemostasis0.01171243190987
GO:0050878regulation of body fluid levels0.01171243190987
GO:0001525angiogenesis0.01171243190987
GO:0042060wound healing0.01171243190987
GO:0048514blood vessel morphogenesis0.01171243190987
GO:0048646anatomical structure formation0.01171243190987
GO:0001568blood vessel development0.01171243190987
GO:0001944vasculature development0.01171243190987
GO:0004867serine-type endopeptidase inhibitor activity0.01171243190987
GO:0004866endopeptidase inhibitor activity0.0166902154715648
GO:0030414protease inhibitor activity0.0167785234899329
GO:0019899enzyme binding0.0183640538197232
GO:0004252serine-type endopeptidase activity0.0191781979021086
GO:0009887organ morphogenesis0.0192069939950547
GO:0008236serine-type peptidase activity0.0192069939950547
GO:0017171serine hydrolase activity0.0192069939950547
GO:0004857enzyme inhibitor activity0.0196730640919973
GO:0009611response to wounding0.0200112277337639
GO:0009605response to external stimulus0.028913263255338
GO:0004175endopeptidase activity0.0354556693747792
GO:0065008regulation of biological quality0.0407213910506945
GO:0009653anatomical structure morphogenesis0.0433399196397033
GO:0048513organ development0.0455154244672083
GO:0048519negative regulation of biological process0.0455154244672083
GO:0006950response to stress0.0455154244672083
GO:0008233peptidase activity0.0455154244672083



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

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C301&oldid=1702918"