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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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}}
}}

Revision as of 18:46, 8 August 2012


Full id: C2983_Melanocyte_astrocytoma_melanoma_Macrophage_Monocytederived_Dendritic_substantia



Phase1 CAGE Peaks

Hg19::chr10:118719680..118719720,-p10@KIAA1598
Hg19::chr10:118719724..118719735,-p14@KIAA1598
Hg19::chr10:118719743..118719755,-p13@KIAA1598


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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
central nervous system9.24e-2482
neural tube1.09e-2357
neural rod1.09e-2357
future spinal cord1.09e-2357
neural keel1.09e-2357
gray matter4.96e-2234
brain grey matter4.96e-2234
telencephalon5.35e-2234
regional part of forebrain7.53e-2241
forebrain7.53e-2241
future forebrain7.53e-2241
regional part of nervous system1.99e-2194
nervous system1.99e-2194
regional part of telencephalon2.44e-2133
anterior neural tube6.19e-2142
cerebral hemisphere2.43e-2032
brain8.86e-2069
future brain8.86e-2069
regional part of brain4.11e-1959
adult organism3.57e-17115
neurectoderm1.20e-1690
cerebral cortex1.44e-1525
pallium1.44e-1525
regional part of cerebral cortex2.27e-1522
neural plate2.43e-1586
presumptive neural plate2.43e-1586
neocortex7.46e-1420
pre-chordal neural plate2.46e-1361
ectoderm1.10e-11173
presumptive ectoderm1.10e-11173
ectoderm-derived structure1.10e-10169
head2.26e-10123
anterior region of body2.94e-10129
craniocervical region2.94e-10129
organ1.66e-08511
basal ganglion5.16e-089
nuclear complex of neuraxis5.16e-089
aggregate regional part of brain5.16e-089
collection of basal ganglia5.16e-089
cerebral subcortex5.16e-089
nucleus of brain5.34e-089
neural nucleus5.34e-089
bone marrow4.87e-0780


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.

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