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|full_id=C1630_Smooth_Fibroblast_mesenchymal_Chondrocyte_Nucleus_Anulus_Preadipocyte
|full_id=C1630_Smooth_Fibroblast_mesenchymal_Chondrocyte_Nucleus_Anulus_Preadipocyte
|id=C1630
|id=C1630
|ontology_enrichment_celltype=CL:0000055!4.01e-37!180;CL:0000057!1.54e-22!75;CL:0000183!8.13e-21!59;CL:0000680!3.01e-20!57;CL:0000056!3.01e-20!57;CL:0000355!3.01e-20!57;CL:0000187!1.12e-19!54;CL:0000192!6.17e-17!42;CL:0000514!6.17e-17!42;CL:0000393!7.23e-16!60;CL:0000211!7.23e-16!60;CL:0000359!1.65e-13!32;CL:0002620!6.02e-12!23;CL:0000222!2.52e-11!119;CL:0000048!3.29e-08!430;CL:0000723!1.03e-07!436;CL:0000034!3.92e-07!444
|ontology_enrichment_disease=DOID:2394!1.14e-07!14
|ontology_enrichment_uberon=UBERON:0000914!4.42e-23!83;UBERON:0002329!4.42e-23!83;UBERON:0003077!4.42e-23!83;UBERON:0003059!4.42e-23!83;UBERON:0007282!4.42e-23!83;UBERON:0009618!4.42e-23!83;UBERON:0007285!4.42e-23!83;UBERON:0004290!1.04e-21!70;UBERON:0000486!1.80e-19!82;UBERON:0001134!1.33e-18!61;UBERON:0002036!1.33e-18!61;UBERON:0003082!1.33e-18!61;UBERON:0002385!6.92e-18!63;UBERON:0001015!6.92e-18!63;UBERON:0000383!6.92e-18!63;UBERON:0005256!7.03e-16!143;UBERON:0001637!9.23e-14!42;UBERON:0003509!9.23e-14!42;UBERON:0004572!9.23e-14!42;UBERON:0004573!3.07e-13!33;UBERON:0004571!3.07e-13!33;UBERON:0004872!4.07e-13!84;UBERON:0000475!9.73e-13!365;UBERON:0001981!1.06e-11!60;UBERON:0007500!1.06e-11!60;UBERON:0004537!1.06e-11!60;UBERON:0006965!1.06e-11!60;UBERON:0003102!1.41e-11!95;UBERON:0002100!2.93e-11!216;UBERON:0004535!4.59e-11!110;UBERON:0002049!7.52e-11!79;UBERON:0007798!7.52e-11!79;UBERON:0001009!1.40e-10!113;UBERON:0002199!3.69e-10!45;UBERON:0002416!3.69e-10!45;UBERON:0000055!4.38e-10!69;UBERON:0003914!2.22e-09!118;UBERON:0000119!9.75e-09!312;UBERON:0000490!1.44e-08!138;UBERON:0002097!1.72e-08!40;UBERON:0000483!3.95e-08!309;UBERON:0000947!2.35e-07!21;UBERON:0010191!2.35e-07!21;UBERON:0000481!3.33e-07!347;UBERON:0000948!6.00e-07!24;UBERON:0005498!6.00e-07!24;UBERON:0004140!6.00e-07!24;UBERON:0009881!6.00e-07!24;UBERON:0004141!6.00e-07!24;UBERON:0003084!6.00e-07!24;UBERON:0007005!6.00e-07!24;UBERON:0004139!6.00e-07!24;UBERON:0004291!6.00e-07!24;UBERON:0003104!6.56e-07!238;UBERON:0009142!6.56e-07!238
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Revision as of 14:13, 21 May 2012


Full id: C1630_Smooth_Fibroblast_mesenchymal_Chondrocyte_Nucleus_Anulus_Preadipocyte



Phase1 CAGE Peaks

Hg19::chr11:27723059..27723067,-p11@BDNF
Hg19::chr2:33359778..33359791,+p6@LTBP1
Hg19::chr5:121401479..121401501,-p@chr5:121401479..121401501
-
Hg19::chr6:170606374..170606376,-p@chr6:170606374..170606376
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Hg19::chr8:42032969..42033000,-p@chr8:42032969..42033000
-


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
somite4.42e-2383
paraxial mesoderm4.42e-2383
presomitic mesoderm4.42e-2383
presumptive segmental plate4.42e-2383
trunk paraxial mesoderm4.42e-2383
presumptive paraxial mesoderm4.42e-2383
dermomyotome1.04e-2170
multilaminar epithelium1.80e-1982
skeletal muscle tissue1.33e-1861
striated muscle tissue1.33e-1861
myotome1.33e-1861
muscle tissue6.92e-1863
musculature6.92e-1863
musculature of body6.92e-1863
trunk mesenchyme7.03e-16143
artery9.23e-1442
arterial blood vessel9.23e-1442
arterial system9.23e-1442
systemic artery3.07e-1333
systemic arterial system3.07e-1333
splanchnic layer of lateral plate mesoderm4.07e-1384
organism subdivision9.73e-13365
blood vessel1.06e-1160
epithelial tube open at both ends1.06e-1160
blood vasculature1.06e-1160
vascular cord1.06e-1160
surface structure1.41e-1195
trunk2.93e-11216
cardiovascular system4.59e-11110
vasculature7.52e-1179
vascular system7.52e-1179
circulatory system1.40e-10113
integument3.69e-1045
integumental system3.69e-1045
vessel4.38e-1069
epithelial tube2.22e-09118
cell layer9.75e-09312
unilaminar epithelium1.44e-08138
skin of body1.72e-0840
epithelium3.95e-08309
aorta2.35e-0721
aortic system2.35e-0721
multi-tissue structure3.33e-07347
heart6.00e-0724
primitive heart tube6.00e-0724
primary heart field6.00e-0724
anterior lateral plate mesoderm6.00e-0724
heart tube6.00e-0724
heart primordium6.00e-0724
cardiac mesoderm6.00e-0724
cardiogenic plate6.00e-0724
heart rudiment6.00e-0724
mesenchyme6.56e-07238
entire embryonic mesenchyme6.56e-07238
Disease
Ontology termp-valuen
ovarian cancer1.14e-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.