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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0007023!3.18e-55!115;UBERON:0001049!2.82e-21!57;UBERON:0005068!2.82e-21!57;UBERON:0006241!2.82e-21!57;UBERON:0007135!2.82e-21!57;UBERON:0001017!1.23e-20!82;UBERON:0005743!9.94e-20!86;UBERON:0000073!9.29e-18!94;UBERON:0001016!9.29e-18!94;UBERON:0000955!1.16e-16!69;UBERON:0006238!1.16e-16!69;UBERON:0003080!1.57e-16!42;UBERON:0002780!3.32e-16!41;UBERON:0001890!3.32e-16!41;UBERON:0006240!3.32e-16!41;UBERON:0002616!6.20e-16!59;UBERON:0001893!8.15e-14!34;UBERON:0002020!9.65e-14!34;UBERON:0003528!9.65e-14!34;UBERON:0002791!2.40e-13!33;UBERON:0003075!2.58e-13!86;UBERON:0007284!2.58e-13!86;UBERON:0001869!4.51e-13!32;UBERON:0002619!1.09e-12!22;UBERON:0001950!6.59e-12!20;UBERON:0002346!1.68e-11!90;UBERON:0004111!7.24e-11!241;UBERON:0000956!1.90e-10!25;UBERON:0000203!1.90e-10!25;UBERON:0000025!5.36e-10!194;UBERON:0000477!1.49e-09!286;UBERON:0003056!1.13e-07!61
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}}
}}

Revision as of 18:44, 8 August 2012


Full id: C2934_heart_left_Mast_Whole_skeletal_tongue_neuroblastoma



Phase1 CAGE Peaks

Hg19::chr9:100263912..100263988,+p1@TMOD1
Hg19::chr9:100263992..100264003,+p2@TMOD1
Hg19::chr9:100264007..100264012,+p5@TMOD1
Hg19::chr9:100264015..100264024,+p3@TMOD1


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
adult organism3.18e-55115
neural tube2.82e-2157
neural rod2.82e-2157
future spinal cord2.82e-2157
neural keel2.82e-2157
central nervous system1.23e-2082
regional part of nervous system9.29e-1894
nervous system9.29e-1894
brain1.16e-1669
future brain1.16e-1669
anterior neural tube1.57e-1642
regional part of forebrain3.32e-1641
forebrain3.32e-1641
future forebrain3.32e-1641
regional part of brain6.20e-1659
telencephalon8.15e-1434
gray matter9.65e-1434
brain grey matter9.65e-1434
regional part of telencephalon2.40e-1333
neural plate2.58e-1386
presumptive neural plate2.58e-1386
cerebral hemisphere4.51e-1332
regional part of cerebral cortex1.09e-1222
neocortex6.59e-1220
neurectoderm1.68e-1190
anatomical conduit7.24e-11241
cerebral cortex1.90e-1025
pallium1.90e-1025
tube5.36e-10194
anatomical cluster1.49e-09286
pre-chordal neural plate1.13e-0761


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.