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Coexpression cluster:C4389

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Full id: C4389_small_neuroblastoma_nonsmall_heart_cerebellum_medulloblastoma_temporal



Phase1 CAGE Peaks

Hg19::chr4:163084988..163084999,-p5@FSTL5
Hg19::chr5:16179713..16179724,-p4@MARCH11
Hg19::chr5:16179727..16179759,-p2@MARCH11


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
regional part of nervous system6.37e-4894
nervous system6.37e-4894
central nervous system4.44e-4382
neural tube1.43e-4257
neural rod1.43e-4257
future spinal cord1.43e-4257
neural keel1.43e-4257
brain4.33e-3969
future brain4.33e-3969
regional part of brain3.60e-3859
regional part of forebrain1.26e-3341
forebrain1.26e-3341
future forebrain1.26e-3341
neural plate6.46e-3386
presumptive neural plate6.46e-3386
anterior neural tube1.22e-3242
neurectoderm1.38e-3290
gray matter8.86e-3034
brain grey matter8.86e-3034
telencephalon1.31e-2934
cerebral hemisphere2.67e-2932
regional part of telencephalon7.45e-2833
regional part of cerebral cortex2.63e-2722
neocortex4.01e-2720
pre-chordal neural plate6.23e-2761
adult organism6.21e-26115
head1.88e-25123
ectoderm5.12e-25173
presumptive ectoderm5.12e-25173
ectoderm-derived structure7.90e-25169
anterior region of body1.14e-23129
craniocervical region1.14e-23129
cerebral cortex1.57e-2325
pallium1.57e-2325
temporal lobe7.28e-137
segmental subdivision of nervous system1.03e-1213
segmental subdivision of hindbrain5.05e-1112
hindbrain5.05e-1112
presumptive hindbrain5.05e-1112
posterior neural tube7.77e-1115
chordal neural plate7.77e-1115
gyrus1.32e-096
tube3.23e-09194
regional part of metencephalon7.27e-099
metencephalon7.27e-099
future metencephalon7.27e-099
occipital lobe9.62e-085
basal ganglion1.02e-079
nuclear complex of neuraxis1.02e-079
aggregate regional part of brain1.02e-079
collection of basal ganglia1.02e-079
cerebral subcortex1.02e-079
nucleus of brain1.06e-079
neural nucleus1.06e-079
middle temporal gyrus1.49e-073
parietal lobe2.07e-075
organ part2.71e-07219
pons2.86e-073
limbic system4.08e-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


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.