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|ontology_enrichment_disease=DOID:162!2.25e-09!235;DOID:14566!5.11e-09!239;DOID:0050687!3.70e-07!143
|ontology_enrichment_disease=DOID:162!2.25e-09!235;DOID:14566!5.11e-09!239;DOID:0050687!3.70e-07!143
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|ontology_enrichment_uberon=UBERON:0007023!1.31e-29!115;UBERON:0000073!5.88e-16!94;UBERON:0001016!5.88e-16!94;UBERON:0001049!1.10e-15!57;UBERON:0005068!1.10e-15!57;UBERON:0006241!1.10e-15!57;UBERON:0007135!1.10e-15!57;UBERON:0005743!2.23e-15!86;UBERON:0001017!2.79e-15!82;UBERON:0003080!9.45e-13!42;UBERON:0002780!1.45e-12!41;UBERON:0001890!1.45e-12!41;UBERON:0006240!1.45e-12!41;UBERON:0000955!1.60e-12!69;UBERON:0006238!1.60e-12!69;UBERON:0002616!1.99e-12!59;UBERON:0003075!3.78e-10!86;UBERON:0007284!3.78e-10!86;UBERON:0002346!5.08e-10!90;UBERON:0000924!1.15e-09!173;UBERON:0006601!1.15e-09!173;UBERON:0004121!1.19e-09!169;UBERON:0002020!1.87e-09!34;UBERON:0003528!1.87e-09!34;UBERON:0000033!8.76e-09!123;UBERON:0001893!1.04e-08!34;UBERON:0002791!1.45e-08!33;UBERON:0000153!2.04e-08!129;UBERON:0007811!2.04e-08!129;UBERON:0001869!4.59e-08!32;UBERON:0003056!6.51e-07!61
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}}
}}

Revision as of 18:44, 8 August 2012


Full id: C2931_Mast_malignant_pituitary_occipital_pineal_cerebellum_small



Phase1 CAGE Peaks

Hg19::chr8:92082244..92082289,-p1@uc003yet.2
Hg19::chr8:92082301..92082316,-p3@uc003yet.2
Hg19::chr8:92082319..92082348,-p2@uc003yet.2
Hg19::chr8:92082349..92082360,-p2@ENST00000522817


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
adult organism1.31e-29115
regional part of nervous system5.88e-1694
nervous system5.88e-1694
neural tube1.10e-1557
neural rod1.10e-1557
future spinal cord1.10e-1557
neural keel1.10e-1557
central nervous system2.79e-1582
anterior neural tube9.45e-1342
regional part of forebrain1.45e-1241
forebrain1.45e-1241
future forebrain1.45e-1241
brain1.60e-1269
future brain1.60e-1269
regional part of brain1.99e-1259
neural plate3.78e-1086
presumptive neural plate3.78e-1086
neurectoderm5.08e-1090
ectoderm1.15e-09173
presumptive ectoderm1.15e-09173
ectoderm-derived structure1.19e-09169
gray matter1.87e-0934
brain grey matter1.87e-0934
head8.76e-09123
telencephalon1.04e-0834
regional part of telencephalon1.45e-0833
anterior region of body2.04e-08129
craniocervical region2.04e-08129
cerebral hemisphere4.59e-0832
pre-chordal neural plate6.51e-0761
Disease
Ontology termp-valuen
cancer2.25e-09235
disease of cellular proliferation5.11e-09239
cell type cancer3.70e-07143


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.