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|full_id=C3006_acute_neuroblastoma_kidney_occipital_parietal_postcentral_paracentral
|full_id=C3006_acute_neuroblastoma_kidney_occipital_parietal_postcentral_paracentral
|id=C3006
|id=C3006
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!1.56e-66!57;UBERON:0005068!1.56e-66!57;UBERON:0006241!1.56e-66!57;UBERON:0007135!1.56e-66!57;UBERON:0007023!8.10e-62!115;UBERON:0002616!1.10e-55!59;UBERON:0002780!2.13e-55!41;UBERON:0001890!2.13e-55!41;UBERON:0006240!2.13e-55!41;UBERON:0001017!1.69e-54!82;UBERON:0003080!8.77e-54!42;UBERON:0000955!1.29e-53!69;UBERON:0006238!1.29e-53!69;UBERON:0005743!2.11e-53!86;UBERON:0000073!7.74e-53!94;UBERON:0001016!7.74e-53!94;UBERON:0002346!8.00e-49!90;UBERON:0002020!3.40e-46!34;UBERON:0003528!3.40e-46!34;UBERON:0001893!6.72e-46!34;UBERON:0003075!7.50e-46!86;UBERON:0007284!7.50e-46!86;UBERON:0002791!3.73e-44!33;UBERON:0001869!8.97e-44!32;UBERON:0002619!9.54e-39!22;UBERON:0003056!5.35e-37!61;UBERON:0001950!1.41e-35!20;UBERON:0000956!2.61e-33!25;UBERON:0000203!2.61e-33!25;UBERON:0000153!4.96e-33!129;UBERON:0007811!4.96e-33!129;UBERON:0000033!2.41e-30!123;UBERON:0000924!2.90e-28!173;UBERON:0006601!2.90e-28!173;UBERON:0004121!5.33e-26!169;UBERON:0002420!3.24e-14!9;UBERON:0007245!3.24e-14!9;UBERON:0010009!3.24e-14!9;UBERON:0010011!3.24e-14!9;UBERON:0000454!3.24e-14!9;UBERON:0002308!3.68e-14!9;UBERON:0000125!3.68e-14!9;UBERON:0001871!5.83e-14!7;UBERON:0003076!1.29e-13!15;UBERON:0003057!1.29e-13!15;UBERON:0000025!4.44e-13!194;UBERON:0000200!1.07e-11!6;UBERON:0009663!3.22e-11!7;UBERON:0004111!8.64e-11!241;UBERON:0001894!1.13e-10!7;UBERON:0006222!1.13e-10!7;UBERON:0000064!4.54e-10!219;UBERON:0000477!5.58e-10!286;UBERON:0002298!5.80e-10!8;UBERON:0002021!6.41e-10!5;UBERON:0004733!6.81e-10!12;UBERON:0002028!6.81e-10!12;UBERON:0007277!6.81e-10!12;UBERON:0001872!7.25e-10!5;UBERON:0000349!2.43e-09!5;UBERON:0004732!5.67e-09!13;UBERON:0000475!2.50e-08!365;UBERON:0000922!6.78e-08!612;UBERON:0000481!1.32e-07!347;UBERON:0000369!1.69e-07!4;UBERON:0002435!1.69e-07!4;UBERON:0000204!1.69e-07!4;UBERON:0010082!1.69e-07!4;UBERON:0000483!1.95e-07!309;UBERON:0000119!3.27e-07!312;UBERON:0003296!9.11e-07!4;UBERON:0010133!9.11e-07!4
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Revision as of 14:31, 21 May 2012


Full id: C3006_acute_neuroblastoma_kidney_occipital_parietal_postcentral_paracentral



Phase1 CAGE Peaks

Hg19::chr10:23983671..23983704,+p9@KIAA1217
Hg19::chr10:23983752..23983767,+p19@KIAA1217
Hg19::chr10:23983950..23983961,+p22@KIAA1217


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
neural tube1.56e-6657
neural rod1.56e-6657
future spinal cord1.56e-6657
neural keel1.56e-6657
adult organism8.10e-62115
regional part of brain1.10e-5559
regional part of forebrain2.13e-5541
forebrain2.13e-5541
future forebrain2.13e-5541
central nervous system1.69e-5482
anterior neural tube8.77e-5442
brain1.29e-5369
future brain1.29e-5369
regional part of nervous system7.74e-5394
nervous system7.74e-5394
neurectoderm8.00e-4990
gray matter3.40e-4634
brain grey matter3.40e-4634
telencephalon6.72e-4634
neural plate7.50e-4686
presumptive neural plate7.50e-4686
regional part of telencephalon3.73e-4433
cerebral hemisphere8.97e-4432
regional part of cerebral cortex9.54e-3922
pre-chordal neural plate5.35e-3761
neocortex1.41e-3520
cerebral cortex2.61e-3325
pallium2.61e-3325
anterior region of body4.96e-33129
craniocervical region4.96e-33129
head2.41e-30123
ectoderm2.90e-28173
presumptive ectoderm2.90e-28173
ectoderm-derived structure5.33e-26169
basal ganglion3.24e-149
nuclear complex of neuraxis3.24e-149
aggregate regional part of brain3.24e-149
collection of basal ganglia3.24e-149
cerebral subcortex3.24e-149
nucleus of brain3.68e-149
neural nucleus3.68e-149
temporal lobe5.83e-147
posterior neural tube1.29e-1315
chordal neural plate1.29e-1315
tube4.44e-13194
gyrus1.07e-116
telencephalic nucleus3.22e-117
anatomical conduit8.64e-11241
diencephalon1.13e-107
future diencephalon1.13e-107
organ part4.54e-10219
anatomical cluster5.58e-10286
brainstem5.80e-108
occipital lobe6.41e-105
segmental subdivision of hindbrain6.81e-1012
hindbrain6.81e-1012
presumptive hindbrain6.81e-1012
parietal lobe7.25e-105
limbic system2.43e-095
segmental subdivision of nervous system5.67e-0913
organism subdivision2.50e-08365
embryo6.78e-08612
multi-tissue structure1.32e-07347
corpus striatum1.69e-074
striatum1.69e-074
ventral part of telencephalon1.69e-074
future corpus striatum1.69e-074
epithelium1.95e-07309
cell layer3.27e-07312
gland of diencephalon9.11e-074
neuroendocrine gland9.11e-074


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.