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Coexpression cluster:C1546

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Full id: C1546_medial_parietal_occipital_Adipocyte_Neurons_temporal_duodenum



Phase1 CAGE Peaks

Hg19::chr8:80567244..80567265,+p6@STMN2
Hg19::chr8:80577112..80577148,+p@chr8:80577112..80577148
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Hg19::chr8:80577185..80577204,+p@chr8:80577185..80577204
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Hg19::chr8:80577511..80577528,+p@chr8:80577511..80577528
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Hg19::chr8:80577550..80577567,+p@chr8:80577550..80577567
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Hg19::chr8:80577672..80577679,+p@chr8:80577672..80577679
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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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
neural tube6.32e-5257
neural rod6.32e-5257
future spinal cord6.32e-5257
neural keel6.32e-5257
central nervous system3.22e-4882
regional part of nervous system3.47e-4594
nervous system3.47e-4594
regional part of brain9.66e-4559
brain4.29e-4169
future brain4.29e-4169
gray matter1.17e-3934
brain grey matter1.17e-3934
regional part of forebrain1.54e-3941
forebrain1.54e-3941
future forebrain1.54e-3941
telencephalon5.05e-3934
anterior neural tube2.66e-3842
regional part of telencephalon7.75e-3833
cerebral hemisphere2.63e-3732
neural plate8.34e-3786
presumptive neural plate8.34e-3786
neurectoderm2.42e-3490
regional part of cerebral cortex9.52e-3222
cerebral cortex2.58e-2925
pallium2.58e-2925
neocortex5.25e-2920
adult organism6.36e-26115
ectoderm-derived structure1.27e-25169
pre-chordal neural plate4.65e-2561
ectoderm1.63e-24173
presumptive ectoderm1.63e-24173
head4.06e-21123
anterior region of body2.45e-19129
craniocervical region2.45e-19129
organism subdivision1.63e-15365
posterior neural tube2.82e-1415
chordal neural plate2.82e-1415
organ part6.48e-13219
temporal lobe4.53e-127
basal ganglion1.09e-119
nuclear complex of neuraxis1.09e-119
aggregate regional part of brain1.09e-119
collection of basal ganglia1.09e-119
cerebral subcortex1.09e-119
nucleus of brain1.18e-119
neural nucleus1.18e-119
segmental subdivision of hindbrain6.95e-1112
hindbrain6.95e-1112
presumptive hindbrain6.95e-1112
segmental subdivision of nervous system7.74e-1013
gyrus2.23e-096
telencephalic nucleus4.95e-097
brainstem2.71e-088
parietal lobe2.97e-085
occipital lobe3.28e-085
tube3.31e-08194
multi-cellular organism4.16e-08659
limbic system4.20e-085
regional part of metencephalon1.20e-079
metencephalon1.20e-079
future metencephalon1.20e-079
epithelium1.44e-07309
cell layer2.56e-07312


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.