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|full_id=C608_Smooth_mesenchymal_hepatic_Olfactory_Ewing_basal_Fibroblast
|full_id=C608_Smooth_mesenchymal_hepatic_Olfactory_Ewing_basal_Fibroblast
|id=C608
|id=C608
|ontology_enrichment_celltype=CL:0000055!7.97e-38!180;CL:0000222!1.90e-29!119;CL:0000057!1.24e-20!75;CL:0000220!1.56e-19!246;CL:0002321!2.05e-19!248;CL:0000183!2.19e-18!59;CL:0000680!2.69e-17!57;CL:0000056!2.69e-17!57;CL:0000355!2.69e-17!57;CL:0000187!6.11e-17!54;CL:0000393!2.03e-15!60;CL:0000211!2.03e-15!60;CL:0000192!6.90e-14!42;CL:0000514!6.90e-14!42;CL:0000213!1.60e-11!57;CL:0000215!1.60e-11!57;CL:0000359!1.66e-11!32;CL:0000548!1.87e-10!679;CL:0000004!1.87e-10!679;CL:0000255!1.87e-10!679;CL:0000144!4.81e-10!625;CL:0000012!9.92e-10!682;CL:0002371!4.39e-08!591;CL:0002078!1.08e-07!44;CL:0002620!3.23e-07!23
|ontology_enrichment_disease=DOID:2394!3.57e-07!14
|ontology_enrichment_uberon=UBERON:0002049!4.05e-21!79;UBERON:0007798!4.05e-21!79;UBERON:0004872!5.33e-19!84;UBERON:0000914!3.11e-18!83;UBERON:0002329!3.11e-18!83;UBERON:0003077!3.11e-18!83;UBERON:0003059!3.11e-18!83;UBERON:0007282!3.11e-18!83;UBERON:0009618!3.11e-18!83;UBERON:0007285!3.11e-18!83;UBERON:0000055!7.87e-18!69;UBERON:0003914!1.06e-17!118;UBERON:0004290!1.47e-17!70;UBERON:0005256!2.12e-17!143;UBERON:0001981!5.89e-17!60;UBERON:0007500!5.89e-17!60;UBERON:0004537!5.89e-17!60;UBERON:0006965!5.89e-17!60;UBERON:0000486!9.50e-17!82;UBERON:0001134!2.39e-16!61;UBERON:0002036!2.39e-16!61;UBERON:0003082!2.39e-16!61;UBERON:0002100!3.84e-16!216;UBERON:0002385!7.46e-16!63;UBERON:0001015!7.46e-16!63;UBERON:0000383!7.46e-16!63;UBERON:0004535!1.56e-15!110;UBERON:0001637!2.05e-15!42;UBERON:0003509!2.05e-15!42;UBERON:0004572!2.05e-15!42;UBERON:0000490!3.29e-15!138;UBERON:0001009!4.82e-15!113;UBERON:0000475!2.30e-14!365;UBERON:0000119!4.50e-12!312;UBERON:0003104!4.92e-12!238;UBERON:0009142!4.92e-12!238;UBERON:0004573!6.98e-12!33;UBERON:0004571!6.98e-12!33;UBERON:0000481!8.21e-12!347;UBERON:0000483!1.63e-11!309;UBERON:0000468!2.99e-11!659;UBERON:0000477!3.24e-10!286;UBERON:0000467!1.88e-08!625;UBERON:0000480!3.24e-08!626;UBERON:0000947!1.12e-07!21;UBERON:0010191!1.12e-07!21;UBERON:0004111!2.01e-07!241;UBERON:0003102!7.67e-07!95
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Revision as of 14:55, 21 May 2012


Full id: C608_Smooth_mesenchymal_hepatic_Olfactory_Ewing_basal_Fibroblast



Phase1 CAGE Peaks

Hg19::chr8:23155120..23155153,-p@chr8:23155120..23155153
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Hg19::chr8:23155270..23155284,-p@chr8:23155270..23155284
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Hg19::chr8:23155299..23155339,-p@chr8:23155299..23155339
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Hg19::chr8:23156379..23156401,-p@chr8:23156379..23156401
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Hg19::chr8:23156447..23156464,-p@chr8:23156447..23156464
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Hg19::chr8:23159569..23159589,-p@chr8:23159569..23159589
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Hg19::chr8:23159605..23159623,-p@chr8:23159605..23159623
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Hg19::chr8:23159627..23159644,-p@chr8:23159627..23159644
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Hg19::chr8:23160831..23160851,-p@chr8:23160831..23160851
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Hg19::chr8:23160879..23160895,-p@chr8:23160879..23160895
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Hg19::chr8:23160901..23160919,-p@chr8:23160901..23160919
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Hg19::chr8:23167261..23167303,-p@chr8:23167261..23167303
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Hg19::chr8:23198609..23198642,-p4@LOXL2
Hg19::chr8:23217696..23217708,-p@chr8:23217696..23217708
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Hg19::chr8:23261625..23261641,-p1@LOXL2


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
vasculature4.05e-2179
vascular system4.05e-2179
splanchnic layer of lateral plate mesoderm5.33e-1984
somite3.11e-1883
paraxial mesoderm3.11e-1883
presomitic mesoderm3.11e-1883
presumptive segmental plate3.11e-1883
trunk paraxial mesoderm3.11e-1883
presumptive paraxial mesoderm3.11e-1883
vessel7.87e-1869
epithelial tube1.06e-17118
dermomyotome1.47e-1770
trunk mesenchyme2.12e-17143
blood vessel5.89e-1760
epithelial tube open at both ends5.89e-1760
blood vasculature5.89e-1760
vascular cord5.89e-1760
multilaminar epithelium9.50e-1782
skeletal muscle tissue2.39e-1661
striated muscle tissue2.39e-1661
myotome2.39e-1661
trunk3.84e-16216
muscle tissue7.46e-1663
musculature7.46e-1663
musculature of body7.46e-1663
cardiovascular system1.56e-15110
artery2.05e-1542
arterial blood vessel2.05e-1542
arterial system2.05e-1542
unilaminar epithelium3.29e-15138
circulatory system4.82e-15113
organism subdivision2.30e-14365
cell layer4.50e-12312
mesenchyme4.92e-12238
entire embryonic mesenchyme4.92e-12238
systemic artery6.98e-1233
systemic arterial system6.98e-1233
multi-tissue structure8.21e-12347
epithelium1.63e-11309
multi-cellular organism2.99e-11659
anatomical cluster3.24e-10286
anatomical system1.88e-08625
anatomical group3.24e-08626
aorta1.12e-0721
aortic system1.12e-0721
anatomical conduit2.01e-07241
surface structure7.67e-0795
Disease
Ontology termp-valuen
ovarian cancer3.57e-0714


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.