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Coexpression cluster:C2071

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Full id: C2071_Dendritic_Endothelial_Renal_Hepatic_immature_Lymphatic_brain



Phase1 CAGE Peaks

Hg19::chr10:72238517..72238595,+p1@KIAA1274
Hg19::chr10:72238698..72238712,+p4@KIAA1274
Hg19::chr10:72238717..72238746,+p2@KIAA1274
Hg19::chr10:72238747..72238760,+p3@KIAA1274


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
adult organism2.42e-25115
neurectoderm2.58e-2390
regional part of nervous system4.11e-2394
nervous system4.11e-2394
neural tube9.13e-2357
neural rod9.13e-2357
future spinal cord9.13e-2357
neural keel9.13e-2357
neural plate1.27e-2286
presumptive neural plate1.27e-2286
central nervous system4.04e-2282
regional part of brain1.14e-1959
brain2.21e-1869
future brain2.21e-1869
regional part of forebrain2.78e-1641
forebrain2.78e-1641
future forebrain2.78e-1641
anterior neural tube4.00e-1642
pre-chordal neural plate5.01e-1661
telencephalon2.28e-1434
gray matter3.23e-1434
brain grey matter3.23e-1434
regional part of telencephalon6.58e-1433
cerebral hemisphere2.98e-1332
tube2.80e-12194
anterior region of body4.39e-12129
craniocervical region4.39e-12129
head5.25e-12123
endothelium5.93e-1218
blood vessel endothelium5.93e-1218
cardiovascular system endothelium5.93e-1218
ectoderm1.07e-11173
presumptive ectoderm1.07e-11173
anatomical conduit2.33e-11241
ectoderm-derived structure4.50e-11169
simple squamous epithelium4.45e-1022
cerebral cortex7.63e-1025
pallium7.63e-1025
anatomical cluster1.27e-09286
regional part of cerebral cortex4.85e-0922
squamous epithelium6.25e-0925
cell layer2.96e-08312
neocortex3.55e-0820
posterior neural tube6.48e-0815
chordal neural plate6.48e-0815
epithelium8.09e-08309
segmental subdivision of nervous system8.71e-0713


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
EBF1#187948.9064668465690.00015887907472010.00199317377593904
EGR1#195844.988179094810140.001615011500076050.0101242608677337
MYC#460945.22228187160940.001344309395272740.00885458683986436
PBX3#5090421.91451268674414.33289161192893e-060.000135892752870344
ZBTB7A#5134147.35190930787590.000342223540015990.0034582955293401
ZNF263#1012748.221841637010680.0002187871180958320.00248045026344014



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.