Personal tools

Coexpression cluster:C381

From FANTOM5_SSTAR

Revision as of 14:41, 21 May 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C381_Endothelial_Renal_Hepatic_Lymphatic_Fibroblast_squamous_esophagus



Phase1 CAGE Peaks

Hg19::chr10:50153703..50153720,+p7@WDFY4
Hg19::chr10:50153735..50153750,+p6@WDFY4
Hg19::chr11:19138741..19138756,+p2@ZDHHC13
Hg19::chr12:105863636..105863650,+p@chr12:105863636..105863650
+
Hg19::chr12:105863654..105863682,+p@chr12:105863654..105863682
+
Hg19::chr12:105863705..105863718,+p@chr12:105863705..105863718
+
Hg19::chr12:118112251..118112272,-p12@KSR2
Hg19::chr12:96830430..96830450,+p@chr12:96830430..96830450
+
Hg19::chr13:32835894..32835907,+p@chr13:32835894..32835907
+
Hg19::chr13:32835912..32835936,+p@chr13:32835912..32835936
+
Hg19::chr13:32838801..32838818,+p9@FRY
Hg19::chr13:32838839..32838850,+p20@FRY
Hg19::chr15:39423060..39423066,+p@chr15:39423060..39423066
+
Hg19::chr15:39542867..39542890,+p1@C15orf54
Hg19::chr18:33046982..33046991,-p@chr18:33046982..33046991
-
Hg19::chr18:33047039..33047063,-p@chr18:33047039..33047063
-
Hg19::chr18:33047076..33047099,-p@chr18:33047076..33047099
-
Hg19::chr18:33047117..33047138,-p@chr18:33047117..33047138
-
Hg19::chr18:33047157..33047168,-p@chr18:33047157..33047168
-
Hg19::chr2:216713591..216713606,-p@chr2:216713591..216713606
-
Hg19::chr2:56216687..56216727,-p1@MIR216A
Hg19::chr2:56216738..56216739,-p@chr2:56216738..56216739
-
Hg19::chr4:11545590..11545602,+p@chr4:11545590..11545602
+
Hg19::chr5:71853090..71853107,+p@chr5:71853090..71853107
+
Hg19::chr5:95920642..95920681,+p1@ENST00000513158
Hg19::chr7:106720036..106720059,-p@chr7:106720036..106720059
-
Hg19::chr7:139741594..139741615,-p5@PARP12
Hg19::chrX:15518894..15518905,+p2@BMX


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><br>


Uber Anatomy
Ontology termp-valuen
circulatory system4.83e-29113
cardiovascular system5.23e-29110
splanchnic layer of lateral plate mesoderm9.91e-2584
vessel1.02e-2469
blood vessel6.93e-2460
epithelial tube open at both ends6.93e-2460
blood vasculature6.93e-2460
vascular cord6.93e-2460
vasculature1.72e-2379
vascular system1.72e-2379
epithelial tube7.91e-18118
artery1.46e-1742
arterial blood vessel1.46e-1742
arterial system1.46e-1742
endothelium1.95e-1318
blood vessel endothelium1.95e-1318
cardiovascular system endothelium1.95e-1318
systemic artery2.77e-1333
systemic arterial system2.77e-1333
anatomical conduit1.13e-11241
tube3.49e-11194
anatomical cluster8.27e-11286
aorta4.81e-1021
aortic system4.81e-1021
simple squamous epithelium6.36e-1022
unilaminar epithelium6.67e-09138
lateral plate mesoderm7.97e-09216
squamous epithelium2.45e-0825
endothelial tube1.69e-079
arterial system endothelium1.69e-079
endothelium of artery1.69e-079
cell layer5.32e-07312


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.