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Coexpression cluster:C2684

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Full id: C2684_adrenal_occipital_parietal_temporal_amygdala_hippocampus_putamen



Phase1 CAGE Peaks

Hg19::chr2:210288760..210288849,+p1@MAP2
Hg19::chr2:213403485..213403534,-p3@ERBB4
Hg19::chr2:213403573..213403584,-p11@ERBB4
Hg19::chr2:213403690..213403704,-p6@ERBB4


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


GO IDGO nameFDR corrected p-value
GO:0007026negative regulation of microtubule depolymerization0.0295010355120949
GO:0031114regulation of microtubule depolymerization0.0295010355120949
GO:0007019microtubule depolymerization0.0295010355120949
GO:0031111negative regulation of microtubule polymerization or depolymerization0.0295010355120949
GO:0031110regulation of microtubule polymerization or depolymerization0.0295010355120949
GO:0031109microtubule polymerization or depolymerization0.0295010355120949
GO:0051261protein depolymerization0.0359437983519393
GO:0051129negative regulation of cellular component organization and biogenesis0.0359437983519393
GO:0051128regulation of cellular component organization and biogenesis0.0463264455314587
GO:0000226microtubule cytoskeleton organization and biogenesis0.0463264455314587
GO:0051248negative regulation of protein metabolic process0.0463264455314587
GO:0046982protein heterodimerization activity0.0463264455314587
GO:0004714transmembrane receptor protein tyrosine kinase activity0.0463264455314587



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 organism7.10e-65114
neural tube1.77e-5056
neural rod1.77e-5056
future spinal cord1.77e-5056
neural keel1.77e-5056
regional part of nervous system1.97e-4753
regional part of brain1.97e-4753
central nervous system3.17e-4681
neural plate3.23e-4482
presumptive neural plate3.23e-4482
regional part of forebrain1.83e-4341
forebrain1.83e-4341
anterior neural tube1.83e-4341
future forebrain1.83e-4341
nervous system2.63e-4389
neurectoderm2.57e-4286
brain6.46e-4068
future brain6.46e-4068
telencephalon1.05e-3634
brain grey matter1.25e-3634
gray matter1.25e-3634
pre-chordal neural plate4.87e-3661
cerebral hemisphere7.11e-3532
regional part of telencephalon1.13e-3432
ecto-epithelium3.32e-34104
structure with developmental contribution from neural crest3.73e-30132
ectoderm-derived structure2.47e-29171
ectoderm2.47e-29171
presumptive ectoderm2.47e-29171
cerebral cortex1.26e-2725
pallium1.26e-2725
regional part of cerebral cortex1.85e-2622
neocortex2.95e-2420
organ system subdivision5.37e-21223
anatomical cluster1.51e-19373
anatomical conduit4.61e-16240
tube8.85e-16192
multi-tissue structure8.51e-14342
organ part1.26e-12218
multi-cellular organism5.55e-11656
basal ganglion1.82e-109
nuclear complex of neuraxis1.82e-109
aggregate regional part of brain1.82e-109
collection of basal ganglia1.82e-109
cerebral subcortex1.82e-109
neural nucleus2.42e-109
nucleus of brain2.42e-109
epithelium3.09e-10306
cell layer7.11e-10309
organ1.05e-09503
posterior neural tube8.52e-0915
chordal neural plate8.52e-0915
temporal lobe1.04e-086
embryo1.15e-08592
telencephalic nucleus1.82e-087
developing anatomical structure2.16e-08581
anatomical system2.93e-08624
anatomical group3.57e-08625
gyrus3.84e-086
diencephalon4.73e-087
future diencephalon4.73e-087
parietal lobe3.46e-075
occipital lobe4.04e-075
brainstem5.03e-076
segmental subdivision of nervous system5.69e-0713
limbic system7.10e-075


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
SUZ12#23512337.58683568329723.12785741999833e-050.000632101975787936



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.