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|ontology_enrichment_disease=DOID:0050687!7.88e-16!143;DOID:305!3.09e-14!106;DOID:162!2.14e-13!235;DOID:14566!1.11e-12!239
|ontology_enrichment_disease=DOID:0050687!7.88e-16!143;DOID:305!3.09e-14!106;DOID:162!2.14e-13!235;DOID:14566!1.11e-12!239
|ontology_enrichment_uberon=UBERON:0001017!4.29e-29!82;UBERON:0000073!1.13e-27!94;UBERON:0001016!1.13e-27!94;UBERON:0005743!1.53e-27!86;UBERON:0001049!9.13e-27!57;UBERON:0005068!9.13e-27!57;UBERON:0006241!9.13e-27!57;UBERON:0007135!9.13e-27!57;UBERON:0000955!1.14e-23!69;UBERON:0006238!1.14e-23!69;UBERON:0002780!2.45e-21!41;UBERON:0001890!2.45e-21!41;UBERON:0006240!2.45e-21!41;UBERON:0002616!9.16e-21!59;UBERON:0003080!2.16e-20!42;UBERON:0001893!1.11e-19!34;UBERON:0002020!1.27e-19!34;UBERON:0003528!1.27e-19!34;UBERON:0002791!6.53e-19!33;UBERON:0001869!8.45e-19!32;UBERON:0002346!4.19e-18!90;UBERON:0003075!9.91e-18!86;UBERON:0007284!9.91e-18!86;UBERON:0002619!1.54e-16!22;UBERON:0001950!4.37e-15!20;UBERON:0007023!1.42e-14!115;UBERON:0000924!2.48e-13!173;UBERON:0006601!2.48e-13!173;UBERON:0000956!2.74e-13!25;UBERON:0000203!2.74e-13!25;UBERON:0004121!7.00e-13!169;UBERON:0000153!1.99e-12!129;UBERON:0007811!1.99e-12!129;UBERON:0003056!2.75e-12!61;UBERON:0000033!3.03e-11!123;UBERON:0002420!4.12e-08!9;UBERON:0007245!4.12e-08!9;UBERON:0010009!4.12e-08!9;UBERON:0010011!4.12e-08!9;UBERON:0000454!4.12e-08!9;UBERON:0002308!5.24e-08!9;UBERON:0000125!5.24e-08!9;UBERON:0003076!1.53e-07!15;UBERON:0003057!1.53e-07!15
|ontology_enrichment_uberon=UBERON:0001017!4.29e-29!82;UBERON:0000073!1.13e-27!94;UBERON:0001016!1.13e-27!94;UBERON:0005743!1.53e-27!86;UBERON:0001049!9.13e-27!57;UBERON:0005068!9.13e-27!57;UBERON:0006241!9.13e-27!57;UBERON:0007135!9.13e-27!57;UBERON:0000955!1.14e-23!69;UBERON:0006238!1.14e-23!69;UBERON:0002780!2.45e-21!41;UBERON:0001890!2.45e-21!41;UBERON:0006240!2.45e-21!41;UBERON:0002616!9.16e-21!59;UBERON:0003080!2.16e-20!42;UBERON:0001893!1.11e-19!34;UBERON:0002020!1.27e-19!34;UBERON:0003528!1.27e-19!34;UBERON:0002791!6.53e-19!33;UBERON:0001869!8.45e-19!32;UBERON:0002346!4.19e-18!90;UBERON:0003075!9.91e-18!86;UBERON:0007284!9.91e-18!86;UBERON:0002619!1.54e-16!22;UBERON:0001950!4.37e-15!20;UBERON:0007023!1.42e-14!115;UBERON:0000924!2.48e-13!173;UBERON:0006601!2.48e-13!173;UBERON:0000956!2.74e-13!25;UBERON:0000203!2.74e-13!25;UBERON:0004121!7.00e-13!169;UBERON:0000153!1.99e-12!129;UBERON:0007811!1.99e-12!129;UBERON:0003056!2.75e-12!61;UBERON:0000033!3.03e-11!123;UBERON:0002420!4.12e-08!9;UBERON:0007245!4.12e-08!9;UBERON:0010009!4.12e-08!9;UBERON:0010011!4.12e-08!9;UBERON:0000454!4.12e-08!9;UBERON:0002308!5.24e-08!9;UBERON:0000125!5.24e-08!9;UBERON:0003076!1.53e-07!15;UBERON:0003057!1.53e-07!15
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}}
}}

Revision as of 17:20, 8 August 2012


Full id: C1482_caudate_anaplastic_putamen_thalamus_small_diencephalon_nucleus



Phase1 CAGE Peaks

Hg19::chr20:60795296..60795309,-p2@HRH3
Hg19::chr20:60795316..60795323,-p3@HRH3
Hg19::chr20:60795326..60795340,-p1@HRH3
Hg19::chr2:242089628..242089643,-p5@PASK
Hg19::chr3:58810185..58810229,+p1@ENST00000463703
p1@ENST00000482372
p1@uc003dku.1
Hg19::chr4:72102152..72102166,+p16@SLC4A4


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


GO IDGO nameFDR corrected p-value
GO:0008510sodium:bicarbonate symporter activity0.0323188318986822
GO:0004969histamine receptor activity0.0475105037576734
GO:0015106bicarbonate transmembrane transporter activity0.0475105037576734
GO:0005452inorganic anion exchanger activity0.0475105037576734
GO:0015380anion exchanger activity0.0475105037576734
GO:0015301anion:anion antiporter activity0.0475105037576734
GO:0015108chloride transmembrane transporter activity0.0475105037576734
GO:0015296anion:cation symporter activity0.0475105037576734
GO:0007269neurotransmitter secretion0.0475105037576734
GO:0005887integral to plasma membrane0.0475105037576734
GO:0031226intrinsic to plasma membrane0.0475105037576734
GO:0045055regulated secretory pathway0.0475105037576734



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
central nervous system4.29e-2982
regional part of nervous system1.13e-2794
nervous system1.13e-2794
neural tube9.13e-2757
neural rod9.13e-2757
future spinal cord9.13e-2757
neural keel9.13e-2757
brain1.14e-2369
future brain1.14e-2369
regional part of forebrain2.45e-2141
forebrain2.45e-2141
future forebrain2.45e-2141
regional part of brain9.16e-2159
anterior neural tube2.16e-2042
telencephalon1.11e-1934
gray matter1.27e-1934
brain grey matter1.27e-1934
regional part of telencephalon6.53e-1933
cerebral hemisphere8.45e-1932
neurectoderm4.19e-1890
neural plate9.91e-1886
presumptive neural plate9.91e-1886
regional part of cerebral cortex1.54e-1622
neocortex4.37e-1520
adult organism1.42e-14115
ectoderm2.48e-13173
presumptive ectoderm2.48e-13173
cerebral cortex2.74e-1325
pallium2.74e-1325
ectoderm-derived structure7.00e-13169
anterior region of body1.99e-12129
craniocervical region1.99e-12129
pre-chordal neural plate2.75e-1261
head3.03e-11123
basal ganglion4.12e-089
nuclear complex of neuraxis4.12e-089
aggregate regional part of brain4.12e-089
collection of basal ganglia4.12e-089
cerebral subcortex4.12e-089
nucleus of brain5.24e-089
neural nucleus5.24e-089
posterior neural tube1.53e-0715
chordal neural plate1.53e-0715
Disease
Ontology termp-valuen
cell type cancer7.88e-16143
carcinoma3.09e-14106
cancer2.14e-13235
disease of cellular proliferation1.11e-12239


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.