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|full_id=C4637_Smooth_leiomyoma_mesenchymal_Iris_glioblastoma_Lens_Ciliary
|full_id=C4637_Smooth_leiomyoma_mesenchymal_Iris_glioblastoma_Lens_Ciliary
|id=C4637
|id=C4637
|ontology_enrichment_celltype=CL:0000055!6.57e-37!180;CL:0000680!5.13e-30!57;CL:0000056!5.13e-30!57;CL:0000355!5.13e-30!57;CL:0000183!1.03e-28!59;CL:0000187!2.97e-28!54;CL:0000393!3.54e-26!60;CL:0000211!3.54e-26!60;CL:0000192!5.49e-23!42;CL:0000514!5.49e-23!42;CL:0000359!1.50e-18!32;CL:0000222!7.03e-16!119;CL:0002494!1.56e-10!16;CL:0000057!3.69e-09!75;CL:0000220!1.63e-08!246;CL:0002321!4.11e-08!248;CL:0002539!8.67e-08!10
|ontology_enrichment_disease=DOID:2394!8.11e-08!14
|ontology_enrichment_uberon=UBERON:0001134!2.99e-29!61;UBERON:0002036!2.99e-29!61;UBERON:0003082!2.99e-29!61;UBERON:0002385!3.66e-29!63;UBERON:0001015!3.66e-29!63;UBERON:0000383!3.66e-29!63;UBERON:0000914!3.78e-29!83;UBERON:0002329!3.78e-29!83;UBERON:0003077!3.78e-29!83;UBERON:0003059!3.78e-29!83;UBERON:0007282!3.78e-29!83;UBERON:0009618!3.78e-29!83;UBERON:0007285!3.78e-29!83;UBERON:0004290!1.03e-28!70;UBERON:0004872!1.43e-25!84;UBERON:0000486!8.87e-24!82;UBERON:0002049!1.09e-21!79;UBERON:0007798!1.09e-21!79;UBERON:0005256!1.79e-21!143;UBERON:0004535!2.17e-19!110;UBERON:0001637!6.84e-19!42;UBERON:0003509!6.84e-19!42;UBERON:0004572!6.84e-19!42;UBERON:0001009!9.45e-19!113;UBERON:0003914!1.03e-18!118;UBERON:0001981!1.07e-17!60;UBERON:0007500!1.07e-17!60;UBERON:0004537!1.07e-17!60;UBERON:0006965!1.07e-17!60;UBERON:0000490!5.47e-17!138;UBERON:0004573!8.96e-17!33;UBERON:0004571!8.96e-17!33;UBERON:0000119!9.22e-17!312;UBERON:0000055!5.60e-16!69;UBERON:0000483!1.11e-15!309;UBERON:0000468!3.27e-15!659;UBERON:0000481!1.10e-14!347;UBERON:0000475!2.11e-14!365;UBERON:0000922!7.20e-13!612;UBERON:0002050!9.86e-13!605;UBERON:0005423!9.86e-13!605;UBERON:0000923!2.09e-12!604;UBERON:0005291!2.09e-12!604;UBERON:0006598!2.09e-12!604;UBERON:0002532!2.09e-12!604;UBERON:0000477!2.48e-12!286;UBERON:0000467!2.52e-12!625;UBERON:0002100!3.36e-12!216;UBERON:0000480!4.02e-12!626;UBERON:0000948!4.22e-11!24;UBERON:0005498!4.22e-11!24;UBERON:0004140!4.22e-11!24;UBERON:0009881!4.22e-11!24;UBERON:0004141!4.22e-11!24;UBERON:0003084!4.22e-11!24;UBERON:0007005!4.22e-11!24;UBERON:0004139!4.22e-11!24;UBERON:0004291!4.22e-11!24;UBERON:0004111!1.04e-10!241;UBERON:0000479!2.27e-10!787;UBERON:0000025!3.77e-10!194;UBERON:0007100!9.21e-10!27;UBERON:0000947!9.34e-10!21;UBERON:0010191!9.34e-10!21;UBERON:0001135!3.83e-09!15;UBERON:0003104!1.17e-08!238;UBERON:0009142!1.17e-08!238;UBERON:0000926!4.03e-08!448;UBERON:0004120!4.03e-08!448;UBERON:0006603!4.03e-08!448;UBERON:0004237!8.67e-08!10;UBERON:0004695!8.67e-08!10;UBERON:0002111!8.67e-08!10;UBERON:0004178!8.67e-08!10;UBERON:0003103!2.92e-07!69
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Revision as of 14:51, 21 May 2012


Full id: C4637_Smooth_leiomyoma_mesenchymal_Iris_glioblastoma_Lens_Ciliary



Phase1 CAGE Peaks

Hg19::chr7:102553382..102553397,+p3@LRRC17
Hg19::chr7:102553430..102553456,+p1@LRRC17
Hg19::chr7:102553470..102553487,+p2@LRRC17


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
skeletal muscle tissue2.99e-2961
striated muscle tissue2.99e-2961
myotome2.99e-2961
muscle tissue3.66e-2963
musculature3.66e-2963
musculature of body3.66e-2963
somite3.78e-2983
paraxial mesoderm3.78e-2983
presomitic mesoderm3.78e-2983
presumptive segmental plate3.78e-2983
trunk paraxial mesoderm3.78e-2983
presumptive paraxial mesoderm3.78e-2983
dermomyotome1.03e-2870
splanchnic layer of lateral plate mesoderm1.43e-2584
multilaminar epithelium8.87e-2482
vasculature1.09e-2179
vascular system1.09e-2179
trunk mesenchyme1.79e-21143
cardiovascular system2.17e-19110
artery6.84e-1942
arterial blood vessel6.84e-1942
arterial system6.84e-1942
circulatory system9.45e-19113
epithelial tube1.03e-18118
blood vessel1.07e-1760
epithelial tube open at both ends1.07e-1760
blood vasculature1.07e-1760
vascular cord1.07e-1760
unilaminar epithelium5.47e-17138
systemic artery8.96e-1733
systemic arterial system8.96e-1733
cell layer9.22e-17312
vessel5.60e-1669
epithelium1.11e-15309
multi-cellular organism3.27e-15659
multi-tissue structure1.10e-14347
organism subdivision2.11e-14365
embryo7.20e-13612
embryonic structure9.86e-13605
developing anatomical structure9.86e-13605
germ layer2.09e-12604
embryonic tissue2.09e-12604
presumptive structure2.09e-12604
epiblast (generic)2.09e-12604
anatomical cluster2.48e-12286
anatomical system2.52e-12625
trunk3.36e-12216
anatomical group4.02e-12626
heart4.22e-1124
primitive heart tube4.22e-1124
primary heart field4.22e-1124
anterior lateral plate mesoderm4.22e-1124
heart tube4.22e-1124
heart primordium4.22e-1124
cardiac mesoderm4.22e-1124
cardiogenic plate4.22e-1124
heart rudiment4.22e-1124
anatomical conduit1.04e-10241
tissue2.27e-10787
tube3.77e-10194
primary circulatory organ9.21e-1027
aorta9.34e-1021
aortic system9.34e-1021
smooth muscle tissue3.83e-0915
mesenchyme1.17e-08238
entire embryonic mesenchyme1.17e-08238
mesoderm4.03e-08448
mesoderm-derived structure4.03e-08448
presumptive mesoderm4.03e-08448
blood vessel smooth muscle8.67e-0810
arterial system smooth muscle8.67e-0810
artery smooth muscle tissue8.67e-0810
aorta smooth muscle tissue8.67e-0810
compound organ2.92e-0769
Disease
Ontology termp-valuen
ovarian cancer8.11e-0814


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.