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|full_id=C4004_Alveolar_Smooth_Renal_Tracheal_Keratinocyte_Bronchial_Esophageal
|full_id=C4004_Alveolar_Smooth_Renal_Tracheal_Keratinocyte_Bronchial_Esophageal
|id=C4004
|id=C4004
|ontology_enrichment_celltype=CL:0000012!2.59e-45!682;CL:0000548!3.98e-45!679;CL:0000004!3.98e-45!679;CL:0000255!3.98e-45!679;CL:0000003!2.49e-31!722;CL:0000144!6.50e-31!625;CL:0002371!3.96e-28!591;CL:0000055!2.28e-21!180;CL:0000063!1.13e-18!578;CL:0002321!1.63e-17!248;CL:0000220!2.76e-17!246;CL:0000066!4.47e-17!254;CL:0000222!1.14e-14!119;CL:0000183!1.17e-11!59;CL:0000680!2.88e-11!57;CL:0000056!2.88e-11!57;CL:0000355!2.88e-11!57;CL:0000187!2.00e-10!54;CL:0000192!2.87e-10!42;CL:0000514!2.87e-10!42;CL:0000359!5.64e-10!32;CL:0000393!1.23e-09!60;CL:0000211!1.23e-09!60;CL:0000057!1.27e-07!75;CL:1000497!7.15e-07!18;CL:0002518!7.15e-07!18
|ontology_enrichment_disease=DOID:14566!6.34e-07!239
|ontology_enrichment_uberon=UBERON:0001637!2.26e-12!42;UBERON:0003509!2.26e-12!42;UBERON:0004572!2.26e-12!42;UBERON:0002049!1.09e-11!79;UBERON:0007798!1.09e-11!79;UBERON:0000486!2.05e-11!82;UBERON:0003914!2.63e-11!118;UBERON:0000055!1.02e-10!69;UBERON:0004290!1.44e-10!70;UBERON:0001981!1.66e-10!60;UBERON:0007500!1.66e-10!60;UBERON:0004537!1.66e-10!60;UBERON:0006965!1.66e-10!60;UBERON:0000914!5.17e-10!83;UBERON:0002329!5.17e-10!83;UBERON:0003077!5.17e-10!83;UBERON:0003059!5.17e-10!83;UBERON:0007282!5.17e-10!83;UBERON:0009618!5.17e-10!83;UBERON:0007285!5.17e-10!83;UBERON:0000490!8.68e-10!138;UBERON:0005256!9.25e-10!143;UBERON:0002100!1.73e-09!216;UBERON:0004872!4.42e-09!84;UBERON:0004573!1.03e-08!33;UBERON:0004571!1.03e-08!33;UBERON:0001134!1.24e-08!61;UBERON:0002036!1.24e-08!61;UBERON:0003082!1.24e-08!61;UBERON:0003104!1.83e-08!238;UBERON:0009142!1.83e-08!238;UBERON:0002385!1.37e-07!63;UBERON:0001015!1.37e-07!63;UBERON:0000383!1.37e-07!63
}}
}}

Revision as of 14:43, 21 May 2012


Full id: C4004_Alveolar_Smooth_Renal_Tracheal_Keratinocyte_Bronchial_Esophageal



Phase1 CAGE Peaks

Hg19::chr1:8938709..8938720,-p3@ENO1
Hg19::chr1:8938736..8938756,-p1@ENO1
Hg19::chr1:8938766..8938774,-p2@ENO1


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
artery2.26e-1242
arterial blood vessel2.26e-1242
arterial system2.26e-1242
vasculature1.09e-1179
vascular system1.09e-1179
multilaminar epithelium2.05e-1182
epithelial tube2.63e-11118
vessel1.02e-1069
dermomyotome1.44e-1070
blood vessel1.66e-1060
epithelial tube open at both ends1.66e-1060
blood vasculature1.66e-1060
vascular cord1.66e-1060
somite5.17e-1083
paraxial mesoderm5.17e-1083
presomitic mesoderm5.17e-1083
presumptive segmental plate5.17e-1083
trunk paraxial mesoderm5.17e-1083
presumptive paraxial mesoderm5.17e-1083
unilaminar epithelium8.68e-10138
trunk mesenchyme9.25e-10143
trunk1.73e-09216
splanchnic layer of lateral plate mesoderm4.42e-0984
systemic artery1.03e-0833
systemic arterial system1.03e-0833
skeletal muscle tissue1.24e-0861
striated muscle tissue1.24e-0861
myotome1.24e-0861
mesenchyme1.83e-08238
entire embryonic mesenchyme1.83e-08238
muscle tissue1.37e-0763
musculature1.37e-0763
musculature of body1.37e-0763
Disease
Ontology termp-valuen
disease of cellular proliferation6.34e-07239


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.