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|full_id=C1969_neuroectodermal_neuroblastoma_occipital_Neural_colon_carcinoid_parietal
|full_id=C1969_neuroectodermal_neuroblastoma_occipital_Neural_colon_carcinoid_parietal
|id=C1969
|id=C1969
|ontology_enrichment_celltype=CL:0000047!2.31e-07!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!6.09e-39!115;UBERON:0001017!1.21e-34!82;UBERON:0005743!2.24e-32!86;UBERON:0001049!2.16e-31!57;UBERON:0005068!2.16e-31!57;UBERON:0006241!2.16e-31!57;UBERON:0007135!2.16e-31!57;UBERON:0002616!7.57e-31!59;UBERON:0000073!8.23e-30!94;UBERON:0001016!8.23e-30!94;UBERON:0002780!3.46e-27!41;UBERON:0001890!3.46e-27!41;UBERON:0006240!3.46e-27!41;UBERON:0003080!4.86e-26!42;UBERON:0000955!5.95e-26!69;UBERON:0006238!5.95e-26!69;UBERON:0001893!3.22e-24!34;UBERON:0002020!4.10e-24!34;UBERON:0003528!4.10e-24!34;UBERON:0002791!1.62e-23!33;UBERON:0001869!4.17e-23!32;UBERON:0002346!8.33e-23!90;UBERON:0003075!3.66e-20!86;UBERON:0007284!3.66e-20!86;UBERON:0000956!8.88e-19!25;UBERON:0000203!8.88e-19!25;UBERON:0002619!1.55e-18!22;UBERON:0001950!4.38e-17!20;UBERON:0003056!3.31e-15!61;UBERON:0000924!1.48e-14!173;UBERON:0006601!1.48e-14!173;UBERON:0004121!9.70e-13!169;UBERON:0000153!2.69e-12!129;UBERON:0007811!2.69e-12!129;UBERON:0000033!7.76e-12!123;UBERON:0001871!1.67e-07!7;UBERON:0002420!3.79e-07!9;UBERON:0007245!3.79e-07!9;UBERON:0010009!3.79e-07!9;UBERON:0010011!3.79e-07!9;UBERON:0000454!3.79e-07!9;UBERON:0002308!8.67e-07!9;UBERON:0000125!8.67e-07!9;UBERON:0003076!9.63e-07!15;UBERON:0003057!9.63e-07!15
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Revision as of 14:18, 21 May 2012


Full id: C1969_neuroectodermal_neuroblastoma_occipital_Neural_colon_carcinoid_parietal



Phase1 CAGE Peaks

Hg19::chr6:131571466..131571487,+p9@AKAP7
Hg19::chr6:131571516..131571534,+p10@AKAP7
Hg19::chr6:131571535..131571595,+p2@AKAP7
Hg19::chr6:131571628..131571652,+p7@AKAP7
Hg19::chr6:131571662..131571673,+p13@AKAP7


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>


Cell Type
Ontology termp-valuen
neuronal stem cell2.31e-078
Uber Anatomy
Ontology termp-valuen
adult organism6.09e-39115
central nervous system1.21e-3482
neural tube2.16e-3157
neural rod2.16e-3157
future spinal cord2.16e-3157
neural keel2.16e-3157
regional part of brain7.57e-3159
regional part of nervous system8.23e-3094
nervous system8.23e-3094
regional part of forebrain3.46e-2741
forebrain3.46e-2741
future forebrain3.46e-2741
anterior neural tube4.86e-2642
brain5.95e-2669
future brain5.95e-2669
telencephalon3.22e-2434
gray matter4.10e-2434
brain grey matter4.10e-2434
regional part of telencephalon1.62e-2333
cerebral hemisphere4.17e-2332
neurectoderm8.33e-2390
neural plate3.66e-2086
presumptive neural plate3.66e-2086
cerebral cortex8.88e-1925
pallium8.88e-1925
regional part of cerebral cortex1.55e-1822
neocortex4.38e-1720
pre-chordal neural plate3.31e-1561
ectoderm1.48e-14173
presumptive ectoderm1.48e-14173
ectoderm-derived structure9.70e-13169
anterior region of body2.69e-12129
craniocervical region2.69e-12129
head7.76e-12123
temporal lobe1.67e-077
basal ganglion3.79e-079
nuclear complex of neuraxis3.79e-079
aggregate regional part of brain3.79e-079
collection of basal ganglia3.79e-079
cerebral subcortex3.79e-079
nucleus of brain8.67e-079
neural nucleus8.67e-079
posterior neural tube9.63e-0715
chordal neural plate9.63e-0715


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.