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Coexpression cluster:C1527: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004872!1.39e-27!84;UBERON:0001981!4.99e-25!60;UBERON:0007500!4.99e-25!60;UBERON:0004537!4.99e-25!60;UBERON:0006965!4.99e-25!60;UBERON:0002049!5.27e-25!79;UBERON:0007798!5.27e-25!79;UBERON:0003914!3.51e-23!118;UBERON:0000119!7.63e-23!312;UBERON:0000483!9.38e-23!309;UBERON:0001637!3.52e-22!42;UBERON:0003509!3.52e-22!42;UBERON:0004572!3.52e-22!42;UBERON:0000055!1.52e-21!69;UBERON:0000468!4.14e-21!659;UBERON:0000477!4.76e-21!286;UBERON:0004111!3.65e-20!241;UBERON:0000025!5.46e-20!194;UBERON:0004535!1.22e-19!110;UBERON:0000475!2.65e-19!365;UBERON:0001009!3.73e-19!113;UBERON:0000467!1.78e-18!625;UBERON:0000480!3.77e-18!626;UBERON:0000481!5.94e-18!347;UBERON:0004573!8.35e-18!33;UBERON:0004571!8.35e-18!33;UBERON:0000914!2.92e-16!83;UBERON:0002329!2.92e-16!83;UBERON:0003077!2.92e-16!83;UBERON:0003059!2.92e-16!83;UBERON:0007282!2.92e-16!83;UBERON:0009618!2.92e-16!83;UBERON:0007285!2.92e-16!83;UBERON:0004290!5.09e-16!70;UBERON:0002385!6.48e-16!63;UBERON:0001015!6.48e-16!63;UBERON:0000383!6.48e-16!63;UBERON:0000922!6.60e-16!612;UBERON:0005256!7.94e-16!143;UBERON:0001134!1.69e-15!61;UBERON:0002036!1.69e-15!61;UBERON:0003082!1.69e-15!61;UBERON:0000490!1.43e-14!138;UBERON:0002050!1.99e-14!605;UBERON:0005423!1.99e-14!605;UBERON:0000923!4.02e-14!604;UBERON:0005291!4.02e-14!604;UBERON:0006598!4.02e-14!604;UBERON:0002532!4.02e-14!604;UBERON:0000486!1.86e-13!82;UBERON:0000947!1.39e-11!21;UBERON:0010191!1.39e-11!21;UBERON:0004121!1.43e-10!169;UBERON:0000924!5.72e-10!173;UBERON:0006601!5.72e-10!173;UBERON:0002100!2.36e-09!216;UBERON:0000948!4.93e-09!24;UBERON:0005498!4.93e-09!24;UBERON:0004140!4.93e-09!24;UBERON:0009881!4.93e-09!24;UBERON:0004141!4.93e-09!24;UBERON:0003084!4.93e-09!24;UBERON:0007005!4.93e-09!24;UBERON:0004139!4.93e-09!24;UBERON:0004291!4.93e-09!24;UBERON:0003104!2.40e-08!238;UBERON:0009142!2.40e-08!238;UBERON:0007100!3.82e-08!27;UBERON:0003103!7.64e-08!69;UBERON:0000064!9.03e-08!219;UBERON:0000033!1.25e-07!123;UBERON:0001135!2.94e-07!15;UBERON:0000153!4.65e-07!129;UBERON:0007811!4.65e-07!129;UBERON:0003075!7.76e-07!86;UBERON:0007284!7.76e-07!86;UBERON:0004237!8.79e-07!10;UBERON:0004695!8.79e-07!10;UBERON:0002111!8.79e-07!10;UBERON:0004178!8.79e-07!10
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}}
}}

Revision as of 17:23, 8 August 2012


Full id: C1527_glioblastoma_Lens_mesothelioma_mesenchymal_granulosa_Ciliary_Smooth



Phase1 CAGE Peaks

Hg19::chr5:146889496..146889529,-p2@DPYSL3
Hg19::chr5:146889532..146889549,-p6@DPYSL3
Hg19::chr5:146889596..146889607,-p13@DPYSL3
Hg19::chr5:146889619..146889639,-p3@DPYSL3
Hg19::chr5:146889643..146889652,-p11@DPYSL3
Hg19::chr5:146889655..146889679,-p4@DPYSL3


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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
splanchnic layer of lateral plate mesoderm1.39e-2784
blood vessel4.99e-2560
epithelial tube open at both ends4.99e-2560
blood vasculature4.99e-2560
vascular cord4.99e-2560
vasculature5.27e-2579
vascular system5.27e-2579
epithelial tube3.51e-23118
cell layer7.63e-23312
epithelium9.38e-23309
artery3.52e-2242
arterial blood vessel3.52e-2242
arterial system3.52e-2242
vessel1.52e-2169
multi-cellular organism4.14e-21659
anatomical cluster4.76e-21286
anatomical conduit3.65e-20241
tube5.46e-20194
cardiovascular system1.22e-19110
organism subdivision2.65e-19365
circulatory system3.73e-19113
anatomical system1.78e-18625
anatomical group3.77e-18626
multi-tissue structure5.94e-18347
systemic artery8.35e-1833
systemic arterial system8.35e-1833
somite2.92e-1683
paraxial mesoderm2.92e-1683
presomitic mesoderm2.92e-1683
presumptive segmental plate2.92e-1683
trunk paraxial mesoderm2.92e-1683
presumptive paraxial mesoderm2.92e-1683
dermomyotome5.09e-1670
muscle tissue6.48e-1663
musculature6.48e-1663
musculature of body6.48e-1663
embryo6.60e-16612
trunk mesenchyme7.94e-16143
skeletal muscle tissue1.69e-1561
striated muscle tissue1.69e-1561
myotome1.69e-1561
unilaminar epithelium1.43e-14138
embryonic structure1.99e-14605
developing anatomical structure1.99e-14605
germ layer4.02e-14604
embryonic tissue4.02e-14604
presumptive structure4.02e-14604
epiblast (generic)4.02e-14604
multilaminar epithelium1.86e-1382
aorta1.39e-1121
aortic system1.39e-1121
ectoderm-derived structure1.43e-10169
ectoderm5.72e-10173
presumptive ectoderm5.72e-10173
trunk2.36e-09216
heart4.93e-0924
primitive heart tube4.93e-0924
primary heart field4.93e-0924
anterior lateral plate mesoderm4.93e-0924
heart tube4.93e-0924
heart primordium4.93e-0924
cardiac mesoderm4.93e-0924
cardiogenic plate4.93e-0924
heart rudiment4.93e-0924
mesenchyme2.40e-08238
entire embryonic mesenchyme2.40e-08238
primary circulatory organ3.82e-0827
compound organ7.64e-0869
organ part9.03e-08219
head1.25e-07123
smooth muscle tissue2.94e-0715
anterior region of body4.65e-07129
craniocervical region4.65e-07129
neural plate7.76e-0786


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.

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