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Coexpression cluster:C4618

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Full id: C4618_rectum_skeletal_Fibroblast_aorta_skin_throat_pleomorphic



Phase1 CAGE Peaks

Hg19::chr6:56112246..56112267,-p2@COL21A1
Hg19::chr6:56112289..56112311,-p4@COL21A1
Hg19::chr6:56112323..56112385,-p1@COL21A1


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism7.71e-37115
regional part of brain4.09e-2859
neural tube8.46e-2757
neural rod8.46e-2757
future spinal cord8.46e-2757
neural keel8.46e-2757
neurectoderm5.19e-2690
neural plate1.47e-2586
presumptive neural plate1.47e-2586
central nervous system8.43e-2582
regional part of nervous system3.33e-2394
nervous system3.33e-2394
brain4.74e-2369
future brain4.74e-2369
anterior region of body1.01e-22129
craniocervical region1.01e-22129
head3.20e-22123
anterior neural tube1.19e-1942
regional part of forebrain3.19e-1941
forebrain3.19e-1941
future forebrain3.19e-1941
ectoderm4.12e-19173
presumptive ectoderm4.12e-19173
pre-chordal neural plate7.52e-1961
ectoderm-derived structure1.65e-18169
organism subdivision7.85e-17365
multi-tissue structure3.27e-16347
gray matter1.45e-1534
brain grey matter1.45e-1534
telencephalon1.50e-1534
regional part of telencephalon3.58e-1533
cerebral hemisphere2.02e-1432
multi-cellular organism1.41e-13659
cell layer1.10e-11312
cerebral cortex1.76e-1125
pallium1.76e-1125
regional part of cerebral cortex1.77e-1122
epithelium2.41e-11309
embryo5.88e-11612
anatomical cluster6.87e-11286
neocortex2.27e-1020
embryonic structure2.13e-09605
developing anatomical structure2.13e-09605
organ4.52e-09511
germ layer4.81e-09604
embryonic tissue4.81e-09604
presumptive structure4.81e-09604
epiblast (generic)4.81e-09604
posterior neural tube2.62e-0815
chordal neural plate2.62e-0815
anatomical conduit4.40e-08241
anatomical system6.81e-08625
organ part7.24e-08219
anatomical group9.34e-08626


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.