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Coexpression cluster:C4086: Difference between revisions

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|full_id=C4086_Smooth_Mesothelial_seminal_Fibroblast_Alveolar_Melanocyte_Preadipocyte
|full_id=C4086_Smooth_Mesothelial_seminal_Fibroblast_Alveolar_Melanocyte_Preadipocyte
|id=C4086
|id=C4086
|ontology_enrichment_celltype=CL:0000359!6.50e-15!32;CL:0000192!5.33e-13!42;CL:0000514!5.33e-13!42;CL:0000183!1.86e-12!59;CL:0000187!3.07e-12!54;CL:0000680!5.80e-12!57;CL:0000056!5.80e-12!57;CL:0000355!5.80e-12!57;CL:0000222!1.84e-10!119;CL:0000393!4.73e-10!60;CL:0000211!4.73e-10!60;CL:0002539!6.96e-08!10;CL:0002321!1.21e-07!248;CL:0000220!1.65e-07!246
|ontology_enrichment_celltype=CL:0000359!8.12e-35!32;CL:0000192!1.68e-25!43;CL:0000514!1.68e-25!43;CL:0002596!2.74e-20!2;CL:0002589!9.60e-20!2;CL:0000187!1.40e-19!55;CL:0000680!1.76e-18!58;CL:0000056!1.76e-18!58;CL:0000355!1.76e-18!58;CL:0000183!3.86e-18!59;CL:0000393!1.72e-17!61;CL:0000211!1.72e-17!61;CL:0002539!6.91e-16!10;CL:0002568!1.33e-10!1;CL:0000222!1.38e-09!121;CL:0000055!3.88e-09!106;CL:0002595!6.87e-09!5
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001637!3.86e-14!42;UBERON:0003509!3.86e-14!42;UBERON:0004572!3.86e-14!42;UBERON:0004573!1.74e-13!33;UBERON:0004571!1.74e-13!33;UBERON:0001134!2.93e-11!61;UBERON:0002036!2.93e-11!61;UBERON:0003082!2.93e-11!61;UBERON:0002385!1.39e-10!63;UBERON:0001015!1.39e-10!63;UBERON:0000383!1.39e-10!63;UBERON:0001981!9.69e-10!60;UBERON:0007500!9.69e-10!60;UBERON:0004537!9.69e-10!60;UBERON:0006965!9.69e-10!60;UBERON:0002100!4.05e-09!216;UBERON:0002049!5.20e-09!79;UBERON:0007798!5.20e-09!79;UBERON:0000055!1.03e-08!69;UBERON:0004290!1.46e-08!70;UBERON:0003104!2.07e-08!238;UBERON:0009142!2.07e-08!238;UBERON:0000914!2.76e-08!83;UBERON:0002329!2.76e-08!83;UBERON:0003077!2.76e-08!83;UBERON:0003059!2.76e-08!83;UBERON:0007282!2.76e-08!83;UBERON:0009618!2.76e-08!83;UBERON:0007285!2.76e-08!83;UBERON:0003914!3.95e-08!118;UBERON:0004237!6.96e-08!10;UBERON:0004695!6.96e-08!10;UBERON:0002111!6.96e-08!10;UBERON:0004178!6.96e-08!10;UBERON:0005256!3.09e-07!143;UBERON:0000475!5.86e-07!365
|ontology_enrichment_uberon=UBERON:0004573!1.33e-33!33;UBERON:0004571!1.33e-33!33;UBERON:0001637!4.22e-31!42;UBERON:0003509!4.22e-31!42;UBERON:0004572!4.22e-31!42;UBERON:0007500!1.29e-21!59;UBERON:0001981!1.29e-21!59;UBERON:0004537!1.29e-21!59;UBERON:0006965!1.29e-21!59;UBERON:0005396!2.74e-20!2;UBERON:0001529!9.60e-20!2;UBERON:0007204!9.60e-20!2;UBERON:0000055!1.65e-18!68;UBERON:0001134!3.50e-17!62;UBERON:0002036!3.50e-17!62;UBERON:0003082!3.50e-17!62;UBERON:0002385!1.36e-16!64;UBERON:0001015!1.36e-16!64;UBERON:0000383!1.36e-16!64;UBERON:0007503!6.31e-16!78;UBERON:0002049!6.78e-16!78;UBERON:0007798!6.78e-16!78;UBERON:0004237!6.91e-16!10;UBERON:0004695!6.91e-16!10;UBERON:0002111!6.91e-16!10;UBERON:0004178!6.91e-16!10;UBERON:0004872!7.99e-15!83;UBERON:0002329!8.62e-15!71;UBERON:0003059!8.62e-15!71;UBERON:0007282!8.62e-15!71;UBERON:0004290!8.62e-15!71;UBERON:0009618!8.62e-15!71;UBERON:0003077!1.46e-14!72;UBERON:0007285!1.46e-14!72;UBERON:0007524!2.44e-14!73;UBERON:0003914!7.16e-14!117;UBERON:0000486!2.09e-12!83;UBERON:0000947!2.02e-11!21;UBERON:0010191!2.02e-11!21;UBERON:0003104!4.46e-11!160;UBERON:0009142!4.46e-11!160;UBERON:0004535!7.83e-11!109;UBERON:0001135!1.17e-10!15;UBERON:0001009!1.72e-10!112;UBERON:0005256!1.72e-09!122;UBERON:0003834!6.87e-09!5;UBERON:0001533!6.87e-09!5;UBERON:0002100!1.99e-08!199;UBERON:0000025!1.68e-07!192;UBERON:0003081!6.06e-07!203
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}}
}}

Revision as of 15:40, 19 October 2012


Full id: C4086_Smooth_Mesothelial_seminal_Fibroblast_Alveolar_Melanocyte_Preadipocyte



Phase1 CAGE Peaks

Hg19::chr22:18105870..18105871,-p@chr22:18105870..18105871
-
Hg19::chr7:27163592..27163605,-p@chr7:27163592..27163605
-
Hg19::chr8:90556171..90556173,+p@chr8:90556171..90556173
+


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
systemic artery1.33e-3333
systemic arterial system1.33e-3333
artery4.22e-3142
arterial blood vessel4.22e-3142
arterial system4.22e-3142
epithelial tube open at both ends1.29e-2159
blood vessel1.29e-2159
blood vasculature1.29e-2159
vascular cord1.29e-2159
carotid artery segment2.74e-202
brachiocephalic artery9.60e-202
brachiocephalic vasculature9.60e-202
vessel1.65e-1868
skeletal muscle tissue3.50e-1762
striated muscle tissue3.50e-1762
myotome3.50e-1762
muscle tissue1.36e-1664
musculature1.36e-1664
musculature of body1.36e-1664
epithelial vesicle6.31e-1678
vasculature6.78e-1678
vascular system6.78e-1678
blood vessel smooth muscle6.91e-1610
arterial system smooth muscle6.91e-1610
artery smooth muscle tissue6.91e-1610
aorta smooth muscle tissue6.91e-1610
splanchnic layer of lateral plate mesoderm7.99e-1583
somite8.62e-1571
presomitic mesoderm8.62e-1571
presumptive segmental plate8.62e-1571
dermomyotome8.62e-1571
trunk paraxial mesoderm8.62e-1571
paraxial mesoderm1.46e-1472
presumptive paraxial mesoderm1.46e-1472
dense mesenchyme tissue2.44e-1473
epithelial tube7.16e-14117
multilaminar epithelium2.09e-1283
aorta2.02e-1121
aortic system2.02e-1121
mesenchyme4.46e-11160
entire embryonic mesenchyme4.46e-11160
cardiovascular system7.83e-11109
smooth muscle tissue1.17e-1015
circulatory system1.72e-10112
trunk mesenchyme1.72e-09122
thoracic segment blood vessel6.87e-095
subclavian artery6.87e-095
trunk1.99e-08199
tube1.68e-07192
lateral plate mesoderm6.06e-07203


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.