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|gostat_on_coexpression_clusters=GO:0042134!rRNA primary transcript binding!0.00571041708603294!284119$GO:0006361!transcription initiation from RNA polymerase I promoter!0.00571041708603294!284119$GO:0003716!RNA polymerase I transcription termination factor activity!0.00571041708603294!284119$GO:0003715!transcription termination factor activity!0.00856512133858862!284119$GO:0006353!transcription termination!0.011990110916016!284119$GO:0006360!transcription from RNA polymerase I promoter!0.0142726809766186!284119$GO:0016599!caveolar membrane!0.0225641601782574!284119$GO:0043624!cellular protein complex disassembly!0.0225641601782574!284119$GO:0043241!protein complex disassembly!0.0225641601782574!284119$GO:0032984!macromolecular complex disassembly!0.0225641601782574!284119$GO:0005901!caveola!0.0225641601782574!284119$GO:0019843!rRNA binding!0.025671166149659!284119$GO:0022411!cellular component disassembly!0.0322411709060457!284119
|gostat_on_coexpression_clusters=GO:0042134!rRNA primary transcript binding!0.00571041708603294!284119$GO:0006361!transcription initiation from RNA polymerase I promoter!0.00571041708603294!284119$GO:0003716!RNA polymerase I transcription termination factor activity!0.00571041708603294!284119$GO:0003715!transcription termination factor activity!0.00856512133858862!284119$GO:0006353!transcription termination!0.011990110916016!284119$GO:0006360!transcription from RNA polymerase I promoter!0.0142726809766186!284119$GO:0016599!caveolar membrane!0.0225641601782574!284119$GO:0043624!cellular protein complex disassembly!0.0225641601782574!284119$GO:0043241!protein complex disassembly!0.0225641601782574!284119$GO:0032984!macromolecular complex disassembly!0.0225641601782574!284119$GO:0005901!caveola!0.0225641601782574!284119$GO:0019843!rRNA binding!0.025671166149659!284119$GO:0022411!cellular component disassembly!0.0322411709060457!284119
|id=C3236
|id=C3236
|ontology_enrichment_celltype=CL:0000055!2.69e-36!180;CL:0000222!1.60e-32!119;CL:0000220!2.18e-23!246;CL:0002321!6.97e-23!248;CL:0000057!2.17e-22!75;CL:0000183!3.66e-17!59;CL:0000680!2.28e-16!57;CL:0000056!2.28e-16!57;CL:0000355!2.28e-16!57;CL:0000187!8.83e-16!54;CL:0000192!2.25e-15!42;CL:0000514!2.25e-15!42;CL:0000213!4.00e-15!57;CL:0000215!4.00e-15!57;CL:0002078!2.85e-13!44;CL:0000359!4.29e-13!32;CL:0000115!5.13e-13!35;CL:0000393!7.89e-13!60;CL:0000211!7.89e-13!60;CL:0002371!1.61e-12!591;CL:0002139!2.43e-12!24;CL:0000144!4.89e-12!625;CL:0000071!1.24e-10!18;CL:0002546!1.24e-10!18;CL:0000548!7.04e-10!679;CL:0000004!7.04e-10!679;CL:0000255!7.04e-10!679;CL:0000012!2.69e-09!682;CL:0002620!3.02e-09!23;CL:0000076!1.64e-07!62
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002049!9.79e-30!79;UBERON:0007798!9.79e-30!79;UBERON:0000055!7.50e-28!69;UBERON:0004872!3.52e-26!84;UBERON:0001981!1.35e-25!60;UBERON:0007500!1.35e-25!60;UBERON:0004537!1.35e-25!60;UBERON:0006965!1.35e-25!60;UBERON:0003914!3.01e-24!118;UBERON:0005256!4.12e-22!143;UBERON:0000914!8.85e-21!83;UBERON:0002329!8.85e-21!83;UBERON:0003077!8.85e-21!83;UBERON:0003059!8.85e-21!83;UBERON:0007282!8.85e-21!83;UBERON:0009618!8.85e-21!83;UBERON:0007285!8.85e-21!83;UBERON:0001637!1.27e-19!42;UBERON:0003509!1.27e-19!42;UBERON:0004572!1.27e-19!42;UBERON:0000486!1.49e-19!82;UBERON:0004535!4.36e-19!110;UBERON:0001009!6.34e-19!113;UBERON:0000490!6.71e-19!138;UBERON:0002100!8.65e-19!216;UBERON:0004290!2.27e-18!70;UBERON:0000475!1.52e-17!365;UBERON:0000119!3.36e-17!312;UBERON:0000483!1.71e-16!309;UBERON:0001134!1.08e-15!61;UBERON:0002036!1.08e-15!61;UBERON:0003082!1.08e-15!61;UBERON:0002385!1.15e-15!63;UBERON:0001015!1.15e-15!63;UBERON:0000383!1.15e-15!63;UBERON:0000468!1.73e-15!659;UBERON:0004573!7.57e-15!33;UBERON:0004571!7.57e-15!33;UBERON:0000477!2.35e-14!286;UBERON:0000467!4.68e-14!625;UBERON:0000480!8.54e-14!626;UBERON:0003104!2.14e-13!238;UBERON:0009142!2.14e-13!238;UBERON:0003102!3.23e-13!95;UBERON:0004111!2.16e-12!241;UBERON:0000481!9.17e-12!347;UBERON:0001986!1.24e-10!18;UBERON:0004638!1.24e-10!18;UBERON:0004852!1.24e-10!18;UBERON:0006914!3.26e-10!25;UBERON:0000487!4.00e-10!22;UBERON:0000926!5.11e-10!448;UBERON:0004120!5.11e-10!448;UBERON:0006603!5.11e-10!448;UBERON:0002199!6.21e-10!45;UBERON:0002416!6.21e-10!45;UBERON:0000947!1.52e-09!21;UBERON:0010191!1.52e-09!21;UBERON:0002097!1.14e-08!40;UBERON:0000025!1.61e-08!194;UBERON:0002050!2.41e-07!605;UBERON:0005423!2.41e-07!605;UBERON:0000923!2.69e-07!604;UBERON:0005291!2.69e-07!604;UBERON:0006598!2.69e-07!604;UBERON:0002532!2.69e-07!604;UBERON:0000922!6.52e-07!612
}}
}}

Revision as of 14:34, 21 May 2012


Full id: C3236_Mesenchymal_Endothelial_Smooth_Hair_Fibroblast_Preadipocyte_Renal



Phase1 CAGE Peaks

Hg19::chr12:109915098..109915131,-p1@KCTD10
Hg19::chr17:40575264..40575282,-p1@PTRF
Hg19::chr20:35090158..35090240,+p2@DLGAP4


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


GO IDGO nameFDR corrected p-value
GO:0042134rRNA primary transcript binding0.00571041708603294
GO:0006361transcription initiation from RNA polymerase I promoter0.00571041708603294
GO:0003716RNA polymerase I transcription termination factor activity0.00571041708603294
GO:0003715transcription termination factor activity0.00856512133858862
GO:0006353transcription termination0.011990110916016
GO:0006360transcription from RNA polymerase I promoter0.0142726809766186
GO:0016599caveolar membrane0.0225641601782574
GO:0043624cellular protein complex disassembly0.0225641601782574
GO:0043241protein complex disassembly0.0225641601782574
GO:0032984macromolecular complex disassembly0.0225641601782574
GO:0005901caveola0.0225641601782574
GO:0019843rRNA binding0.025671166149659
GO:0022411cellular component disassembly0.0322411709060457



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><br>


Cell Type
Ontology termp-valuen
non-terminally differentiated cell2.69e-36180
mesodermal cell1.60e-32119
embryonic cell6.97e-23248
fibroblast2.17e-2275
contractile cell3.66e-1759
muscle precursor cell2.28e-1657
myoblast2.28e-1657
multi-potent skeletal muscle stem cell2.28e-1657
muscle cell8.83e-1654
smooth muscle cell2.25e-1542
smooth muscle myoblast2.25e-1542
lining cell4.00e-1557
barrier cell4.00e-1557
meso-epithelial cell2.85e-1344
vascular associated smooth muscle cell4.29e-1332
endothelial cell5.13e-1335
electrically responsive cell7.89e-1360
electrically active cell7.89e-1360
somatic cell1.61e-12591
endothelial cell of vascular tree2.43e-1224
blood vessel endothelial cell1.24e-1018
embryonic blood vessel endothelial progenitor cell1.24e-1018
animal cell7.04e-10679
eukaryotic cell7.04e-10679
skin fibroblast3.02e-0923
squamous epithelial cell1.64e-0762
Uber Anatomy
Ontology termp-valuen
vasculature9.79e-3079
vascular system9.79e-3079
vessel7.50e-2869
splanchnic layer of lateral plate mesoderm3.52e-2684
blood vessel1.35e-2560
epithelial tube open at both ends1.35e-2560
blood vasculature1.35e-2560
vascular cord1.35e-2560
epithelial tube3.01e-24118
trunk mesenchyme4.12e-22143
somite8.85e-2183
paraxial mesoderm8.85e-2183
presomitic mesoderm8.85e-2183
presumptive segmental plate8.85e-2183
trunk paraxial mesoderm8.85e-2183
presumptive paraxial mesoderm8.85e-2183
artery1.27e-1942
arterial blood vessel1.27e-1942
arterial system1.27e-1942
multilaminar epithelium1.49e-1982
cardiovascular system4.36e-19110
circulatory system6.34e-19113
unilaminar epithelium6.71e-19138
trunk8.65e-19216
dermomyotome2.27e-1870
organism subdivision1.52e-17365
cell layer3.36e-17312
epithelium1.71e-16309
skeletal muscle tissue1.08e-1561
striated muscle tissue1.08e-1561
myotome1.08e-1561
muscle tissue1.15e-1563
musculature1.15e-1563
musculature of body1.15e-1563
multi-cellular organism1.73e-15659
systemic artery7.57e-1533
systemic arterial system7.57e-1533
anatomical cluster2.35e-14286
anatomical system4.68e-14625
anatomical group8.54e-14626
mesenchyme2.14e-13238
entire embryonic mesenchyme2.14e-13238
surface structure3.23e-1395
anatomical conduit2.16e-12241
multi-tissue structure9.17e-12347
endothelium1.24e-1018
blood vessel endothelium1.24e-1018
cardiovascular system endothelium1.24e-1018
squamous epithelium3.26e-1025
simple squamous epithelium4.00e-1022
mesoderm5.11e-10448
mesoderm-derived structure5.11e-10448
presumptive mesoderm5.11e-10448
integument6.21e-1045
integumental system6.21e-1045
aorta1.52e-0921
aortic system1.52e-0921
skin of body1.14e-0840
tube1.61e-08194
embryonic structure2.41e-07605
developing anatomical structure2.41e-07605
germ layer2.69e-07604
embryonic tissue2.69e-07604
presumptive structure2.69e-07604
epiblast (generic)2.69e-07604
embryo6.52e-07612


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.