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Coexpression cluster:C4842

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Full id: C4842_Small_amniotic_salivary_oral_Gingival_Amniotic_chorionic



Phase1 CAGE Peaks

Hg19::chrX:107641254..107641280,-p@chrX:107641254..107641280
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Hg19::chrX:107641284..107641300,-p@chrX:107641284..107641300
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Hg19::chrX:107641318..107641327,-p@chrX:107641318..107641327
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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>


Uber Anatomy
Ontology termp-valuen
mouth mucosa2.65e-1113
mouth4.59e-1129
stomodeum4.59e-1129
extraembryonic membrane2.52e-1014
membranous layer2.52e-1014
oral opening1.51e-0822
endothelial tube1.96e-089
arterial system endothelium1.96e-089
endothelium of artery1.96e-089
head1.99e-0856
orifice3.76e-0836
respiratory system6.55e-0874
mucosa6.62e-0820
endoderm-derived structure7.60e-08160
endoderm7.60e-08160
presumptive endoderm7.60e-08160
organ component layer1.10e-0766
chorion1.34e-077
subdivision of head2.14e-0749
blood vessel endothelium3.66e-0718
endothelium3.66e-0718
cardiovascular system endothelium3.66e-0718
surface structure3.87e-0799
anterior region of body4.73e-0762
craniocervical region4.73e-0762
gingiva5.38e-078
Disease
Ontology termp-valuen
squamous cell carcinoma6.64e-0814


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
BATF#10538324.35780179230366.91705216281876e-050.00110257938161268
BCL11A#53335328.36945510360714.37778126761649e-050.000779957519291365
CEBPB#105137.971147625824820.001974187055288560.0115904278974243
EBF1#187938.9064668465690.00141523283560980.0091981767451772
EP300#203336.77394172622320.003216880500103790.016866699259518
FOS#235338.99795530889440.001372499272417130.00902773973497749
GATA2#2624312.7449317335540.0004829527704283790.00439441578591824
JUN#3725312.51282919233630.0005103313992726250.00446685392294952
JUND#372736.994663941871030.002921845042734990.0157833130453191
MEF2A#4205318.74323090964410.0001518243905622470.00195564720349414
MEF2C#4208341.31135449262411.41744912101957e-050.000340941890258321
NR3C1#2908314.9730233311730.0002978331194675480.00310681114303549
STAT3#6774310.51946499715420.0008589184530415310.00646333196319652



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.