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Coexpression cluster:C1682

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Full id: C1682_schwannoma_Fibroblast_hepatoblastoma_Wilms_adrenal_Aortic_meningioma



Phase1 CAGE Peaks

Hg19::chr12:66218836..66218888,+p1@HMGA2
Hg19::chr12:66218904..66218913,+p11@HMGA2
Hg19::chr12:66218923..66218934,+p14@HMGA2
Hg19::chr12:66357214..66357233,+p13@HMGA2
Hg19::chr12:66358080..66358094,+p15@HMGA2


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
multilaminar epithelium3.79e-2282
somite4.10e-2283
paraxial mesoderm4.10e-2283
presomitic mesoderm4.10e-2283
presumptive segmental plate4.10e-2283
trunk paraxial mesoderm4.10e-2283
presumptive paraxial mesoderm4.10e-2283
trunk mesenchyme6.94e-21143
dermomyotome2.00e-1970
unilaminar epithelium6.08e-19138
skeletal muscle tissue1.84e-1761
striated muscle tissue1.84e-1761
myotome1.84e-1761
muscle tissue1.51e-1663
musculature1.51e-1663
musculature of body1.51e-1663
vasculature2.84e-1679
vascular system2.84e-1679
epithelial tube2.34e-15118
trunk2.60e-15216
artery2.53e-1442
arterial blood vessel2.53e-1442
arterial system2.53e-1442
mesenchyme4.16e-14238
entire embryonic mesenchyme4.16e-14238
blood vessel4.06e-1360
epithelial tube open at both ends4.06e-1360
blood vasculature4.06e-1360
vascular cord4.06e-1360
splanchnic layer of lateral plate mesoderm1.40e-1284
vessel1.74e-1269
cell layer2.44e-12312
multi-tissue structure4.57e-12347
epithelium8.76e-12309
systemic artery2.73e-1133
systemic arterial system2.73e-1133
organism subdivision3.71e-11365
cardiovascular system3.26e-10110
multi-cellular organism6.42e-10659
circulatory system2.64e-09113
surface structure5.33e-0995
embryo1.18e-08612
anatomical system4.01e-08625
anatomical group6.45e-08626
aorta1.52e-0721
aortic system1.52e-0721
embryonic structure1.60e-07605
developing anatomical structure1.60e-07605
germ layer1.64e-07604
embryonic tissue1.64e-07604
presumptive structure1.64e-07604
epiblast (generic)1.64e-07604
mesoderm2.21e-07448
mesoderm-derived structure2.21e-07448
presumptive mesoderm2.21e-07448
subdivision of head3.39e-0748


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
CTCF#1066444.288205098460020.005152015588243280.0239249157857065
JUNB#3726318.36637959589270.0003316319811700890.00337773673507148
TCF7L2#693436.462105937882410.006930108755689190.0293156315904015
TFAP2C#702236.485537165916130.006858951517940.029055813968611
ZZZ3#260093143.647927461147.21371177912933e-073.21550509816683e-05



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.