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Coexpression cluster:C2863

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Full id: C2863_neuroepithelioma_breast_neuroblastoma_merkel_epididymis_neuroectodermal_Trabecular



Phase1 CAGE Peaks

Hg19::chr6:50786547..50786564,+p3@TFAP2B
Hg19::chr6:50786571..50786590,+p2@TFAP2B
Hg19::chr6:50786591..50786614,+p1@TFAP2B
Hg19::chr6:50786631..50786635,+p11@TFAP2B


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
segmental subdivision of hindbrain1.31e-1912
hindbrain1.31e-1912
presumptive hindbrain1.31e-1912
posterior neural tube5.48e-1815
chordal neural plate5.48e-1815
segmental subdivision of nervous system6.73e-1813
regional part of metencephalon3.33e-149
metencephalon3.33e-149
future metencephalon3.33e-149
nephron tubule epithelium1.87e-1310
brainstem1.47e-126
ectoderm-derived structure5.86e-11171
ectoderm5.86e-11171
presumptive ectoderm5.86e-11171
excretory tube4.48e-1016
kidney epithelium4.48e-1016
kidney1.36e-0926
kidney mesenchyme1.36e-0926
upper urinary tract1.36e-0926
kidney rudiment1.36e-0926
kidney field1.36e-0926
cavitated compound organ6.06e-0931
cerebellum6.76e-096
rhombic lip6.76e-096
subdivision of head6.87e-0949
nephron epithelium1.90e-0815
renal tubule1.90e-0815
nephron tubule1.90e-0815
nephron1.90e-0815
uriniferous tubule1.90e-0815
nephrogenic mesenchyme1.90e-0815
ecto-epithelium5.33e-08104
renal cortex tubule6.26e-083
region of nephron tubule6.26e-083
proximal tubule6.26e-083
male genital duct1.45e-073
internal male genitalia1.45e-073
blood-cerebrospinal fluid barrier2.46e-073
head2.88e-0756
medulla oblongata3.96e-073
myelencephalon3.96e-073
future myelencephalon3.96e-073
pons4.41e-073


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
EP300#203346.77394172622320.0004748459821442640.00435212281958445
GATA2#2624412.7449317335543.78864877853583e-050.000724295606409489
REST#597849.650028716128020.0001152825614219170.00157509097754364
YY1#752844.911170749853860.00171871838055440.0107049874133302



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.