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Coexpression cluster:C4436: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.62e-38!115;UBERON:0005743!4.10e-29!86;UBERON:0001017!6.96e-29!82;UBERON:0001049!1.51e-26!57;UBERON:0005068!1.51e-26!57;UBERON:0006241!1.51e-26!57;UBERON:0007135!1.51e-26!57;UBERON:0000073!3.38e-26!94;UBERON:0001016!3.38e-26!94;UBERON:0000955!7.34e-24!69;UBERON:0006238!7.34e-24!69;UBERON:0003080!7.47e-24!42;UBERON:0002346!1.23e-23!90;UBERON:0002780!1.23e-23!41;UBERON:0001890!1.23e-23!41;UBERON:0006240!1.23e-23!41;UBERON:0003075!1.87e-23!86;UBERON:0007284!1.87e-23!86;UBERON:0002616!4.25e-22!59;UBERON:0001893!7.32e-21!34;UBERON:0002020!9.79e-21!34;UBERON:0003528!9.79e-21!34;UBERON:0002791!3.47e-20!33;UBERON:0001869!9.07e-20!32;UBERON:0000153!2.73e-19!129;UBERON:0007811!2.73e-19!129;UBERON:0003056!3.23e-19!61;UBERON:0000033!7.42e-19!123;UBERON:0000924!2.72e-16!173;UBERON:0006601!2.72e-16!173;UBERON:0000956!4.33e-16!25;UBERON:0000203!4.33e-16!25;UBERON:0004121!6.77e-16!169;UBERON:0002619!8.25e-16!22;UBERON:0000025!6.30e-15!194;UBERON:0004111!6.53e-15!241;UBERON:0001950!1.35e-14!20;UBERON:0000477!1.41e-13!286;UBERON:0000468!6.57e-12!659;UBERON:0000119!1.23e-11!312;UBERON:0000475!1.24e-11!365;UBERON:0000483!2.54e-11!309;UBERON:0000481!3.48e-09!347;UBERON:0000922!4.13e-09!612;UBERON:0000064!6.24e-09!219;UBERON:0000467!3.98e-08!625;UBERON:0000480!6.11e-08!626;UBERON:0000062!8.56e-08!511;UBERON:0002050!1.12e-07!605;UBERON:0005423!1.12e-07!605;UBERON:0000923!1.80e-07!604;UBERON:0005291!1.80e-07!604;UBERON:0006598!1.80e-07!604;UBERON:0002532!1.80e-07!604
|ontology_enrichment_uberon=UBERON:0007023!1.62e-38!115;UBERON:0005743!4.10e-29!86;UBERON:0001017!6.96e-29!82;UBERON:0001049!1.51e-26!57;UBERON:0005068!1.51e-26!57;UBERON:0006241!1.51e-26!57;UBERON:0007135!1.51e-26!57;UBERON:0000073!3.38e-26!94;UBERON:0001016!3.38e-26!94;UBERON:0000955!7.34e-24!69;UBERON:0006238!7.34e-24!69;UBERON:0003080!7.47e-24!42;UBERON:0002346!1.23e-23!90;UBERON:0002780!1.23e-23!41;UBERON:0001890!1.23e-23!41;UBERON:0006240!1.23e-23!41;UBERON:0003075!1.87e-23!86;UBERON:0007284!1.87e-23!86;UBERON:0002616!4.25e-22!59;UBERON:0001893!7.32e-21!34;UBERON:0002020!9.79e-21!34;UBERON:0003528!9.79e-21!34;UBERON:0002791!3.47e-20!33;UBERON:0001869!9.07e-20!32;UBERON:0000153!2.73e-19!129;UBERON:0007811!2.73e-19!129;UBERON:0003056!3.23e-19!61;UBERON:0000033!7.42e-19!123;UBERON:0000924!2.72e-16!173;UBERON:0006601!2.72e-16!173;UBERON:0000956!4.33e-16!25;UBERON:0000203!4.33e-16!25;UBERON:0004121!6.77e-16!169;UBERON:0002619!8.25e-16!22;UBERON:0000025!6.30e-15!194;UBERON:0004111!6.53e-15!241;UBERON:0001950!1.35e-14!20;UBERON:0000477!1.41e-13!286;UBERON:0000468!6.57e-12!659;UBERON:0000119!1.23e-11!312;UBERON:0000475!1.24e-11!365;UBERON:0000483!2.54e-11!309;UBERON:0000481!3.48e-09!347;UBERON:0000922!4.13e-09!612;UBERON:0000064!6.24e-09!219;UBERON:0000467!3.98e-08!625;UBERON:0000480!6.11e-08!626;UBERON:0000062!8.56e-08!511;UBERON:0002050!1.12e-07!605;UBERON:0005423!1.12e-07!605;UBERON:0000923!1.80e-07!604;UBERON:0005291!1.80e-07!604;UBERON:0006598!1.80e-07!604;UBERON:0002532!1.80e-07!604
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}}
}}

Revision as of 20:01, 8 August 2012


Full id: C4436_epididymis_migratory_Mast_breast_duodenum_temporal_parietal



Phase1 CAGE Peaks

Hg19::chr4:83483094..83483165,-p1@TMEM150C
Hg19::chr4:83483360..83483386,-p4@TMEM150C
Hg19::chr4:83483395..83483420,-p2@TMEM150C


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
adult organism1.62e-38115
central nervous system6.96e-2982
neural tube1.51e-2657
neural rod1.51e-2657
future spinal cord1.51e-2657
neural keel1.51e-2657
regional part of nervous system3.38e-2694
nervous system3.38e-2694
brain7.34e-2469
future brain7.34e-2469
anterior neural tube7.47e-2442
neurectoderm1.23e-2390
regional part of forebrain1.23e-2341
forebrain1.23e-2341
future forebrain1.23e-2341
neural plate1.87e-2386
presumptive neural plate1.87e-2386
regional part of brain4.25e-2259
telencephalon7.32e-2134
gray matter9.79e-2134
brain grey matter9.79e-2134
regional part of telencephalon3.47e-2033
cerebral hemisphere9.07e-2032
anterior region of body2.73e-19129
craniocervical region2.73e-19129
pre-chordal neural plate3.23e-1961
head7.42e-19123
ectoderm2.72e-16173
presumptive ectoderm2.72e-16173
cerebral cortex4.33e-1625
pallium4.33e-1625
ectoderm-derived structure6.77e-16169
regional part of cerebral cortex8.25e-1622
tube6.30e-15194
anatomical conduit6.53e-15241
neocortex1.35e-1420
anatomical cluster1.41e-13286
multi-cellular organism6.57e-12659
cell layer1.23e-11312
organism subdivision1.24e-11365
epithelium2.54e-11309
multi-tissue structure3.48e-09347
embryo4.13e-09612
organ part6.24e-09219
anatomical system3.98e-08625
anatomical group6.11e-08626
organ8.56e-08511
embryonic structure1.12e-07605
developing anatomical structure1.12e-07605
germ layer1.80e-07604
embryonic tissue1.80e-07604
presumptive structure1.80e-07604
epiblast (generic)1.80e-07604


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.

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