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|full_id=C2226_putamen_diencephalon_nucleus_brain_temporal_insula_caudate
|full_id=C2226_putamen_diencephalon_nucleus_brain_temporal_insula_caudate
|id=C2226
|id=C2226
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!4.91e-60!82;UBERON:0005743!9.14e-59!86;UBERON:0001049!4.85e-57!57;UBERON:0005068!4.85e-57!57;UBERON:0006241!4.85e-57!57;UBERON:0007135!4.85e-57!57;UBERON:0000955!4.21e-56!69;UBERON:0006238!4.21e-56!69;UBERON:0000073!8.10e-54!94;UBERON:0001016!8.10e-54!94;UBERON:0002616!1.18e-49!59;UBERON:0001893!3.55e-49!34;UBERON:0002020!3.75e-48!34;UBERON:0003528!3.75e-48!34;UBERON:0002780!3.91e-48!41;UBERON:0001890!3.91e-48!41;UBERON:0006240!3.91e-48!41;UBERON:0002791!2.65e-47!33;UBERON:0003080!9.88e-47!42;UBERON:0001869!3.27e-46!32;UBERON:0003075!4.98e-46!86;UBERON:0007284!4.98e-46!86;UBERON:0002346!3.18e-45!90;UBERON:0003056!8.27e-35!61;UBERON:0000956!9.53e-34!25;UBERON:0000203!9.53e-34!25;UBERON:0002619!9.53e-33!22;UBERON:0001950!2.24e-29!20;UBERON:0000924!4.65e-29!173;UBERON:0006601!4.65e-29!173;UBERON:0004121!5.70e-29!169;UBERON:0000033!6.68e-29!123;UBERON:0000153!8.10e-27!129;UBERON:0007811!8.10e-27!129;UBERON:0007023!4.35e-24!115;UBERON:0002420!7.76e-17!9;UBERON:0007245!7.76e-17!9;UBERON:0010009!7.76e-17!9;UBERON:0010011!7.76e-17!9;UBERON:0000454!7.76e-17!9;UBERON:0002308!9.55e-16!9;UBERON:0000125!9.55e-16!9;UBERON:0009663!1.65e-13!7;UBERON:0000025!2.58e-12!194;UBERON:0000200!3.35e-12!6;UBERON:0001871!1.31e-11!7;UBERON:0003076!2.03e-11!15;UBERON:0003057!2.03e-11!15;UBERON:0000064!6.89e-11!219;UBERON:0000349!3.03e-10!5;UBERON:0000483!3.39e-10!309;UBERON:0001872!6.12e-10!5;UBERON:0004733!6.14e-10!12;UBERON:0002028!6.14e-10!12;UBERON:0007277!6.14e-10!12;UBERON:0000119!6.22e-10!312;UBERON:0004732!4.97e-09!13;UBERON:0000369!5.15e-09!4;UBERON:0002435!5.15e-09!4;UBERON:0000204!5.15e-09!4;UBERON:0010082!5.15e-09!4;UBERON:0000475!5.86e-09!365;UBERON:0002680!1.64e-08!9;UBERON:0001895!1.64e-08!9;UBERON:0010092!1.64e-08!9;UBERON:0004111!2.94e-08!241;UBERON:0005383!4.08e-07!3;UBERON:0005382!4.08e-07!3;UBERON:0002298!8.18e-07!8
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Revision as of 14:21, 21 May 2012


Full id: C2226_putamen_diencephalon_nucleus_brain_temporal_insula_caudate



Phase1 CAGE Peaks

Hg19::chr12:58027138..58027159,-p8@B4GALNT1
Hg19::chr1:33359673..33359704,-p@chr1:33359673..33359704
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Hg19::chr1:33359734..33359745,-p@chr1:33359734..33359745
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Hg19::chr1:33360078..33360094,-p@chr1:33360078..33360094
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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
central nervous system4.91e-6082
neural tube4.85e-5757
neural rod4.85e-5757
future spinal cord4.85e-5757
neural keel4.85e-5757
brain4.21e-5669
future brain4.21e-5669
regional part of nervous system8.10e-5494
nervous system8.10e-5494
regional part of brain1.18e-4959
telencephalon3.55e-4934
gray matter3.75e-4834
brain grey matter3.75e-4834
regional part of forebrain3.91e-4841
forebrain3.91e-4841
future forebrain3.91e-4841
regional part of telencephalon2.65e-4733
anterior neural tube9.88e-4742
cerebral hemisphere3.27e-4632
neural plate4.98e-4686
presumptive neural plate4.98e-4686
neurectoderm3.18e-4590
pre-chordal neural plate8.27e-3561
cerebral cortex9.53e-3425
pallium9.53e-3425
regional part of cerebral cortex9.53e-3322
neocortex2.24e-2920
ectoderm4.65e-29173
presumptive ectoderm4.65e-29173
ectoderm-derived structure5.70e-29169
head6.68e-29123
anterior region of body8.10e-27129
craniocervical region8.10e-27129
adult organism4.35e-24115
basal ganglion7.76e-179
nuclear complex of neuraxis7.76e-179
aggregate regional part of brain7.76e-179
collection of basal ganglia7.76e-179
cerebral subcortex7.76e-179
nucleus of brain9.55e-169
neural nucleus9.55e-169
telencephalic nucleus1.65e-137
tube2.58e-12194
gyrus3.35e-126
temporal lobe1.31e-117
posterior neural tube2.03e-1115
chordal neural plate2.03e-1115
organ part6.89e-11219
limbic system3.03e-105
epithelium3.39e-10309
parietal lobe6.12e-105
segmental subdivision of hindbrain6.14e-1012
hindbrain6.14e-1012
presumptive hindbrain6.14e-1012
cell layer6.22e-10312
segmental subdivision of nervous system4.97e-0913
corpus striatum5.15e-094
striatum5.15e-094
ventral part of telencephalon5.15e-094
future corpus striatum5.15e-094
organism subdivision5.86e-09365
regional part of metencephalon1.64e-089
metencephalon1.64e-089
future metencephalon1.64e-089
anatomical conduit2.94e-08241
caudate-putamen4.08e-073
dorsal striatum4.08e-073
brainstem8.18e-078


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.