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|full_id=C1861_astrocytoma_Astrocyte_Ciliary_adrenal_Neural_ductal_temporal
|full_id=C1861_astrocytoma_Astrocyte_Ciliary_adrenal_Neural_ductal_temporal
|id=C1861
|id=C1861
|ontology_enrichment_celltype=CL:0000128!9.07e-12!7;CL:0000126!9.07e-12!7;CL:0000127!9.07e-12!7;CL:0002453!9.07e-12!7;CL:0000221!3.11e-10!71;CL:0002319!8.62e-10!25;CL:0000133!8.76e-08!59;CL:0000055!2.58e-07!180
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000922!3.19e-09!612;UBERON:0000073!4.45e-09!94;UBERON:0001016!4.45e-09!94;UBERON:0002050!9.04e-09!605;UBERON:0005423!9.04e-09!605;UBERON:0007625!1.10e-08!11;UBERON:0005743!1.44e-08!86;UBERON:0000923!2.48e-08!604;UBERON:0005291!2.48e-08!604;UBERON:0006598!2.48e-08!604;UBERON:0002532!2.48e-08!604;UBERON:0000468!2.61e-08!659;UBERON:0000119!5.13e-08!312;UBERON:0000483!1.83e-07!309;UBERON:0000033!2.03e-07!123;UBERON:0000467!2.71e-07!625;UBERON:0000480!3.14e-07!626;UBERON:0003075!3.20e-07!86;UBERON:0007284!3.20e-07!86;UBERON:0000153!3.87e-07!129;UBERON:0007811!3.87e-07!129;UBERON:0004121!4.04e-07!169;UBERON:0001708!4.60e-07!4;UBERON:0001704!4.60e-07!4;UBERON:0000481!6.36e-07!347
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Revision as of 14:16, 21 May 2012


Full id: C1861_astrocytoma_Astrocyte_Ciliary_adrenal_Neural_ductal_temporal



Phase1 CAGE Peaks

Hg19::chr1:98518880..98518891,+p@chr1:98518880..98518891
+
Hg19::chr1:98518907..98518920,+p@chr1:98518907..98518920
+
Hg19::chr4:169553961..169553972,+p@chr4:169553961..169553972
+
Hg19::chr4:169553987..169553999,+p@chr4:169553987..169553999
+
Hg19::chr9:127025189..127025200,+p1@ENST00000437461


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
oligodendrocyte9.07e-127
macroglial cell9.07e-127
astrocyte9.07e-127
oligodendrocyte precursor cell9.07e-127
ectodermal cell3.11e-1071
neural cell8.62e-1025
neurectodermal cell8.76e-0859
non-terminally differentiated cell2.58e-07180
Uber Anatomy
Ontology termp-valuen
embryo3.19e-09612
regional part of nervous system4.45e-0994
nervous system4.45e-0994
embryonic structure9.04e-09605
developing anatomical structure9.04e-09605
pigment epithelium of eye1.10e-0811
germ layer2.48e-08604
embryonic tissue2.48e-08604
presumptive structure2.48e-08604
epiblast (generic)2.48e-08604
multi-cellular organism2.61e-08659
cell layer5.13e-08312
epithelium1.83e-07309
head2.03e-07123
anatomical system2.71e-07625
anatomical group3.14e-07626
neural plate3.20e-0786
presumptive neural plate3.20e-0786
anterior region of body3.87e-07129
craniocervical region3.87e-07129
ectoderm-derived structure4.04e-07169
jaw skeleton4.60e-074
multi-tissue structure6.36e-07347


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.