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Difference between revisions of "Coexpression cluster:C3723"

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|ontology_enrichment_disease=
 
|ontology_enrichment_disease=
 
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|ontology_enrichment_uberon=UBERON:0001049!1.35e-28!57;UBERON:0005068!1.35e-28!57;UBERON:0006241!1.35e-28!57;UBERON:0007135!1.35e-28!57;UBERON:0002616!1.50e-24!59;UBERON:0001017!8.72e-23!82;UBERON:0005743!1.43e-22!86;UBERON:0003080!2.23e-22!42;UBERON:0002780!5.01e-22!41;UBERON:0001890!5.01e-22!41;UBERON:0006240!5.01e-22!41;UBERON:0007023!1.04e-21!115;UBERON:0003075!2.55e-21!86;UBERON:0007284!2.55e-21!86;UBERON:0000073!6.43e-21!94;UBERON:0001016!6.43e-21!94;UBERON:0000955!1.40e-20!69;UBERON:0006238!1.40e-20!69;UBERON:0002346!6.64e-20!90;UBERON:0002020!3.65e-18!34;UBERON:0003528!3.65e-18!34;UBERON:0001893!4.98e-18!34;UBERON:0002791!1.77e-17!33;UBERON:0001869!7.01e-17!32;UBERON:0003056!8.64e-16!61;UBERON:0002371!1.48e-13!80;UBERON:0002619!2.06e-13!22;UBERON:0000956!5.69e-13!25;UBERON:0000203!5.69e-13!25;UBERON:0001950!3.26e-12!20;UBERON:0001474!1.92e-11!86;UBERON:0002390!6.30e-11!102;UBERON:0003061!6.30e-11!102;UBERON:0004765!8.34e-10!101;UBERON:0001434!8.34e-10!101;UBERON:0002193!1.04e-09!112;UBERON:0000025!2.43e-09!194;UBERON:0000033!3.11e-09!123;UBERON:0002405!6.97e-09!115;UBERON:0000153!1.50e-08!129;UBERON:0007811!1.50e-08!129;UBERON:0003076!2.11e-07!15;UBERON:0003057!2.11e-07!15;UBERON:0004121!3.60e-07!169;UBERON:0000924!8.37e-07!173;UBERON:0006601!8.37e-07!173;UBERON:0002308!9.98e-07!9;UBERON:0000125!9.98e-07!9
 +
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}}
 
}}

Revision as of 10:24, 8 August 2012


Full id: C3723_nonsmall_globus_spinal_medulla_thalamus_pineal_brain



Phase1 CAGE Peaks

  Short description
Hg19::chr18:47013532..47013544,- p3@C18orf32
Hg19::chr18:47013564..47013585,- p2@C18orf32
Hg19::chr18:47013586..47013633,- p1@C18orf32


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


Uber Anatomy
Ontology termp-valuen
neural tube1.35e-2857
neural rod1.35e-2857
future spinal cord1.35e-2857
neural keel1.35e-2857
regional part of brain1.50e-2459
central nervous system8.72e-2382
anterior neural tube2.23e-2242
regional part of forebrain5.01e-2241
forebrain5.01e-2241
future forebrain5.01e-2241
adult organism1.04e-21115
neural plate2.55e-2186
presumptive neural plate2.55e-2186
regional part of nervous system6.43e-2194
nervous system6.43e-2194
brain1.40e-2069
future brain1.40e-2069
neurectoderm6.64e-2090
gray matter3.65e-1834
brain grey matter3.65e-1834
telencephalon4.98e-1834
regional part of telencephalon1.77e-1733
cerebral hemisphere7.01e-1732
pre-chordal neural plate8.64e-1661
bone marrow1.48e-1380
regional part of cerebral cortex2.06e-1322
cerebral cortex5.69e-1325
pallium5.69e-1325
neocortex3.26e-1220
bone element1.92e-1186
hematopoietic system6.30e-11102
blood island6.30e-11102
skeletal element8.34e-10101
skeletal system8.34e-10101
hemolymphoid system1.04e-09112
tube2.43e-09194
head3.11e-09123
immune system6.97e-09115
anterior region of body1.50e-08129
craniocervical region1.50e-08129
posterior neural tube2.11e-0715
chordal neural plate2.11e-0715
ectoderm-derived structure3.60e-07169
ectoderm8.37e-07173
presumptive ectoderm8.37e-07173
nucleus of brain9.98e-079
neural nucleus9.98e-079


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.