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Coexpression cluster:C977

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Full id: C977_hippocampus_medulla_locus_heart_thalamus_parietal_occipital



Phase1 CAGE Peaks

Hg19::chr10:30593748..30593775,-p@chr10:30593748..30593775
-
Hg19::chr14:102551297..102551343,-p2@HSP90AA1
Hg19::chr1:10436736..10436761,+p@chr1:10436736..10436761
+
Hg19::chr2:115488494..115488498,+p@chr2:115488494..115488498
+
Hg19::chr4:114180981..114181005,+p@chr4:114180981..114181005
+
Hg19::chr4:83551544..83551586,-p@chr4:83551544..83551586
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Hg19::chr8:26486642..26486674,+p@chr8:26486642..26486674
+
Hg19::chr8:26486701..26486754,+p@chr8:26486701..26486754
+


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
nervous system1.62e-4089
neural tube2.38e-4056
neural rod2.38e-4056
future spinal cord2.38e-4056
neural keel2.38e-4056
central nervous system8.77e-3981
regional part of nervous system1.54e-3753
regional part of brain1.54e-3753
brain2.16e-3468
future brain2.16e-3468
neurectoderm5.50e-3486
regional part of forebrain7.16e-3341
forebrain7.16e-3341
anterior neural tube7.16e-3341
future forebrain7.16e-3341
neural plate2.19e-3182
presumptive neural plate2.19e-3182
adult organism2.50e-28114
brain grey matter5.38e-2734
gray matter5.38e-2734
telencephalon9.73e-2734
regional part of telencephalon4.12e-2532
cerebral hemisphere5.15e-2532
ecto-epithelium1.02e-23104
pre-chordal neural plate4.72e-2361
ectoderm-derived structure2.83e-22171
ectoderm2.83e-22171
presumptive ectoderm2.83e-22171
regional part of cerebral cortex4.79e-2122
structure with developmental contribution from neural crest2.74e-20132
neocortex4.40e-1920
cerebral cortex5.22e-1925
pallium5.22e-1925
organ system subdivision4.31e-14223
neural nucleus1.68e-099
nucleus of brain1.68e-099
basal ganglion1.73e-099
nuclear complex of neuraxis1.73e-099
aggregate regional part of brain1.73e-099
collection of basal ganglia1.73e-099
cerebral subcortex1.73e-099
posterior neural tube9.77e-0915
chordal neural plate9.77e-0915
telencephalic nucleus1.20e-077
diencephalon1.57e-077
future diencephalon1.57e-077
temporal lobe2.44e-076
tube3.53e-07192
segmental subdivision of nervous system4.05e-0713
anatomical cluster4.49e-07373
brainstem7.15e-076


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)

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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.