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|ontology_enrichment_celltype=CL:0000791!1.49e-07!18;CL:0000789!1.49e-07!18;CL:0002420!1.49e-07!18;CL:0002419!1.49e-07!18;CL:0000790!1.49e-07!18;CL:0000084!1.73e-07!25;CL:0000827!1.73e-07!25
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|ontology_enrichment_uberon=UBERON:0000073!1.02e-34!94;UBERON:0001016!1.02e-34!94;UBERON:0005743!7.85e-33!86;UBERON:0001017!2.78e-32!82;UBERON:0007023!1.95e-31!115;UBERON:0001049!4.66e-30!57;UBERON:0005068!4.66e-30!57;UBERON:0006241!4.66e-30!57;UBERON:0007135!4.66e-30!57;UBERON:0000955!1.75e-27!69;UBERON:0006238!1.75e-27!69;UBERON:0002616!1.18e-24!59;UBERON:0003080!2.04e-23!42;UBERON:0003075!5.15e-23!86;UBERON:0007284!5.15e-23!86;UBERON:0002780!5.52e-23!41;UBERON:0001890!5.52e-23!41;UBERON:0006240!5.52e-23!41;UBERON:0002346!2.03e-21!90;UBERON:0001893!3.47e-20!34;UBERON:0002020!3.70e-20!34;UBERON:0003528!3.70e-20!34;UBERON:0002791!1.73e-19!33;UBERON:0001869!3.20e-19!32;UBERON:0003056!4.83e-19!61;UBERON:0004121!7.03e-19!169;UBERON:0000924!4.71e-18!173;UBERON:0006601!4.71e-18!173;UBERON:0000153!1.67e-17!129;UBERON:0007811!1.67e-17!129;UBERON:0000033!2.19e-16!123;UBERON:0002619!1.90e-15!22;UBERON:0000956!2.40e-15!25;UBERON:0000203!2.40e-15!25;UBERON:0001950!3.02e-14!20;UBERON:0000064!5.95e-08!219;UBERON:0003076!8.53e-08!15;UBERON:0003057!8.53e-08!15;UBERON:0004732!9.88e-07!13
 
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Revision as of 05:39, 21 May 2012


Full id: C3679_occipital_cord_postcentral_NK_paracentral_parietal_temporal



Phase1 CAGE Peaks

  Short description
Hg19::chr17:74236414..74236423,- p5@RNF157
Hg19::chr17:74236512..74236556,- p2@RNF157
Hg19::chr17:74236559..74236626,- p1@RNF157


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
mature alpha-beta T cell1.49e-0718
alpha-beta T cell1.49e-0718
immature T cell1.49e-0718
mature T cell1.49e-0718
immature alpha-beta T cell1.49e-0718
T cell1.73e-0725
pro-T cell1.73e-0725
Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.02e-3494
nervous system1.02e-3494
central nervous system2.78e-3282
adult organism1.95e-31115
neural tube4.66e-3057
neural rod4.66e-3057
future spinal cord4.66e-3057
neural keel4.66e-3057
brain1.75e-2769
future brain1.75e-2769
regional part of brain1.18e-2459
anterior neural tube2.04e-2342
neural plate5.15e-2386
presumptive neural plate5.15e-2386
regional part of forebrain5.52e-2341
forebrain5.52e-2341
future forebrain5.52e-2341
neurectoderm2.03e-2190
telencephalon3.47e-2034
gray matter3.70e-2034
brain grey matter3.70e-2034
regional part of telencephalon1.73e-1933
cerebral hemisphere3.20e-1932
pre-chordal neural plate4.83e-1961
ectoderm-derived structure7.03e-19169
ectoderm4.71e-18173
presumptive ectoderm4.71e-18173
anterior region of body1.67e-17129
craniocervical region1.67e-17129
head2.19e-16123
regional part of cerebral cortex1.90e-1522
cerebral cortex2.40e-1525
pallium2.40e-1525
neocortex3.02e-1420
organ part5.95e-08219
posterior neural tube8.53e-0815
chordal neural plate8.53e-0815
segmental subdivision of nervous system9.88e-0713


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.