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Coexpression cluster:C2219: Difference between revisions

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|full_id=C2219_Smooth_Mesenchymal_Pericytes_mesenchymal_Melanocyte_Preadipocyte_Monocytederived
|full_id=C2219_Smooth_Mesenchymal_Pericytes_mesenchymal_Melanocyte_Preadipocyte_Monocytederived
|id=C2219
|id=C2219
|ontology_enrichment_celltype=CL:0000055!1.02e-36!180;CL:0002371!1.29e-31!591;CL:0000144!3.72e-31!625;CL:0000548!2.09e-29!679;CL:0000004!2.09e-29!679;CL:0000255!2.09e-29!679;CL:0000012!1.06e-28!682;CL:0000222!4.14e-26!119;CL:0000183!2.46e-22!59;CL:0000680!2.66e-22!57;CL:0000056!2.66e-22!57;CL:0000355!2.66e-22!57;CL:0000187!1.56e-20!54;CL:0000220!1.87e-20!246;CL:0002321!6.18e-20!248;CL:0000192!1.46e-19!42;CL:0000514!1.46e-19!42;CL:0000393!1.96e-16!60;CL:0000211!1.96e-16!60;CL:0000048!4.49e-16!430;CL:0000359!1.62e-15!32;CL:0000723!5.78e-15!436;CL:0000057!6.47e-15!75;CL:0000034!5.50e-14!444;CL:0000003!6.40e-14!722;CL:0000063!1.94e-08!578
|ontology_enrichment_celltype=CL:0002371!1.10e-32!588;CL:0000548!3.78e-30!679;CL:0000255!3.78e-30!679;CL:0000222!8.04e-26!121;CL:0000680!9.46e-23!58;CL:0000056!9.46e-23!58;CL:0000355!9.46e-23!58;CL:0000183!1.39e-22!59;CL:0000187!5.48e-21!55;CL:0000055!6.77e-20!106;CL:0000192!9.58e-20!43;CL:0000514!9.58e-20!43;CL:0002321!3.00e-19!250;CL:0000048!2.87e-17!427;CL:0000393!9.24e-17!61;CL:0000211!9.24e-17!61;CL:0000723!3.34e-16!433;CL:0000359!2.35e-15!32;CL:0000057!3.31e-15!76;CL:0000034!5.82e-15!441;CL:0000003!1.80e-14!722
|ontology_enrichment_disease=DOID:2394!1.83e-07!14
|ontology_enrichment_disease=DOID:2394!2.56e-07!14
|ontology_enrichment_uberon=UBERON:0000914!2.39e-23!83;UBERON:0002329!2.39e-23!83;UBERON:0003077!2.39e-23!83;UBERON:0003059!2.39e-23!83;UBERON:0007282!2.39e-23!83;UBERON:0009618!2.39e-23!83;UBERON:0007285!2.39e-23!83;UBERON:0000926!1.51e-22!448;UBERON:0004120!1.51e-22!448;UBERON:0006603!1.51e-22!448;UBERON:0004290!5.58e-22!70;UBERON:0000486!7.99e-21!82;UBERON:0002204!2.08e-20!167;UBERON:0005256!2.92e-20!143;UBERON:0001134!6.74e-20!61;UBERON:0002036!6.74e-20!61;UBERON:0003082!6.74e-20!61;UBERON:0002385!1.06e-18!63;UBERON:0001015!1.06e-18!63;UBERON:0000383!1.06e-18!63;UBERON:0002049!1.36e-17!79;UBERON:0007798!1.36e-17!79;UBERON:0002100!1.16e-16!216;UBERON:0001637!1.11e-15!42;UBERON:0003509!1.11e-15!42;UBERON:0004572!1.11e-15!42;UBERON:0003914!8.35e-15!118;UBERON:0004872!1.80e-14!84;UBERON:0000055!2.17e-14!69;UBERON:0000468!5.58e-14!659;UBERON:0001981!6.91e-14!60;UBERON:0007500!6.91e-14!60;UBERON:0004537!6.91e-14!60;UBERON:0006965!6.91e-14!60;UBERON:0000490!6.91e-14!138;UBERON:0000467!3.68e-13!625;UBERON:0004573!5.54e-13!33;UBERON:0004571!5.54e-13!33;UBERON:0000480!6.42e-13!626;UBERON:0003104!1.04e-11!238;UBERON:0009142!1.04e-11!238;UBERON:0003081!3.58e-11!216;UBERON:0004535!4.12e-11!110;UBERON:0001009!7.67e-11!113;UBERON:0000923!3.79e-09!604;UBERON:0005291!3.79e-09!604;UBERON:0006598!3.79e-09!604;UBERON:0002532!3.79e-09!604;UBERON:0002050!4.51e-09!605;UBERON:0005423!4.51e-09!605;UBERON:0000922!9.56e-09!612;UBERON:0000947!5.23e-07!21;UBERON:0010191!5.23e-07!21
|ontology_enrichment_uberon=UBERON:0007503!7.52e-24!78;UBERON:0002329!1.13e-22!71;UBERON:0003059!1.13e-22!71;UBERON:0007282!1.13e-22!71;UBERON:0004290!1.13e-22!71;UBERON:0009618!1.13e-22!71;UBERON:0007524!6.01e-22!73;UBERON:0003077!7.33e-22!72;UBERON:0007285!7.33e-22!72;UBERON:0000486!8.87e-22!83;UBERON:0002204!1.71e-21!167;UBERON:0000926!3.66e-21!315;UBERON:0004120!3.66e-21!315;UBERON:0006603!3.66e-21!315;UBERON:0001134!1.96e-20!62;UBERON:0002036!1.96e-20!62;UBERON:0003082!1.96e-20!62;UBERON:0002385!2.74e-19!64;UBERON:0001015!2.74e-19!64;UBERON:0000383!2.74e-19!64;UBERON:0005256!1.06e-17!122;UBERON:0000490!2.64e-16!148;UBERON:0002049!3.42e-16!78;UBERON:0007798!3.42e-16!78;UBERON:0003104!4.03e-16!160;UBERON:0009142!4.03e-16!160;UBERON:0002100!4.47e-16!199;UBERON:0001637!3.86e-15!42;UBERON:0003509!3.86e-15!42;UBERON:0004572!3.86e-15!42;UBERON:0000475!1.57e-14!264;UBERON:0003914!3.13e-14!117;UBERON:0004872!1.04e-13!83;UBERON:0000055!3.43e-13!68;UBERON:0007500!9.30e-13!59;UBERON:0001981!9.30e-13!59;UBERON:0004537!9.30e-13!59;UBERON:0006965!9.30e-13!59;UBERON:0004573!1.45e-12!33;UBERON:0004571!1.45e-12!33;UBERON:0000468!7.73e-12!656;UBERON:0000467!1.06e-11!624;UBERON:0000480!1.97e-11!625;UBERON:0004535!2.04e-09!109;UBERON:0001009!4.04e-09!112;UBERON:0003081!4.91e-09!203
|tf_chipseq_enrich=ELF1#1997;4:4.25809795880754:0.00304152556578124:0.0160642201155369!EP300#2033;4:6.7739417262232:0.000474845982144264:0.00433576145560105!TCF7L2#6934;3:8.07763242235301:0.00297838168583462:0.0158598483091257!YY1#7528;4:4.91117074985386:0.0017187183805544:0.0106661850939878!ZBTB7A#51341;4:7.3519093078759:0.00034222354001599:0.00346063945543474
|tf_chipseq_enrich=ELF1#1997;4:4.25809795880754:0.00304152556578124:0.0160642201155369!EP300#2033;4:6.7739417262232:0.000474845982144264:0.00433576145560105!TCF7L2#6934;3:8.07763242235301:0.00297838168583462:0.0158598483091257!YY1#7528;4:4.91117074985386:0.0017187183805544:0.0106661850939878!ZBTB7A#51341;4:7.3519093078759:0.00034222354001599:0.00346063945543474
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}}
}}

Revision as of 12:12, 19 October 2012


Full id: C2219_Smooth_Mesenchymal_Pericytes_mesenchymal_Melanocyte_Preadipocyte_Monocytederived



Phase1 CAGE Peaks

Hg19::chr12:56122186..56122205,-p7@CD63
Hg19::chr12:56122207..56122218,-p16@CD63
Hg19::chr12:56122220..56122248,-p4@CD63
Hg19::chr12:56122781..56122804,-p1@CD63


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
epithelial vesicle7.52e-2478
somite1.13e-2271
presomitic mesoderm1.13e-2271
presumptive segmental plate1.13e-2271
dermomyotome1.13e-2271
trunk paraxial mesoderm1.13e-2271
dense mesenchyme tissue6.01e-2273
paraxial mesoderm7.33e-2272
presumptive paraxial mesoderm7.33e-2272
multilaminar epithelium8.87e-2283
musculoskeletal system1.71e-21167
mesoderm3.66e-21315
mesoderm-derived structure3.66e-21315
presumptive mesoderm3.66e-21315
skeletal muscle tissue1.96e-2062
striated muscle tissue1.96e-2062
myotome1.96e-2062
muscle tissue2.74e-1964
musculature2.74e-1964
musculature of body2.74e-1964
trunk mesenchyme1.06e-17122
unilaminar epithelium2.64e-16148
vasculature3.42e-1678
vascular system3.42e-1678
mesenchyme4.03e-16160
entire embryonic mesenchyme4.03e-16160
trunk4.47e-16199
artery3.86e-1542
arterial blood vessel3.86e-1542
arterial system3.86e-1542
organism subdivision1.57e-14264
epithelial tube3.13e-14117
splanchnic layer of lateral plate mesoderm1.04e-1383
vessel3.43e-1368
epithelial tube open at both ends9.30e-1359
blood vessel9.30e-1359
blood vasculature9.30e-1359
vascular cord9.30e-1359
systemic artery1.45e-1233
systemic arterial system1.45e-1233
multi-cellular organism7.73e-12656
anatomical system1.06e-11624
anatomical group1.97e-11625
cardiovascular system2.04e-09109
circulatory system4.04e-09112
lateral plate mesoderm4.91e-09203
Disease
Ontology termp-valuen
ovarian cancer2.56e-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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ELF1#199744.258097958807540.003041525565781240.0160642201155369
EP300#203346.77394172622320.0004748459821442640.00433576145560105
TCF7L2#693438.077632422353010.002978381685834620.0158598483091257
YY1#752844.911170749853860.00171871838055440.0106661850939878
ZBTB7A#5134147.35190930787590.000342223540015990.00346063945543474



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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C2219&oldid=2248303"