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(Created page with "{{Coexpression_clusters |full_id=C1227_Osteoblast_Smooth_tenocyte_Fibroblast_Chondrocyte_Aortic_Hair |id=C1227 }}")
 
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|full_id=C1227_Osteoblast_Smooth_tenocyte_Fibroblast_Chondrocyte_Aortic_Hair
|full_id=C1227_Osteoblast_Smooth_tenocyte_Fibroblast_Chondrocyte_Aortic_Hair
|id=C1227
|id=C1227
|ontology_enrichment_celltype=CL:0000055!3.23e-43!180;CL:0000057!9.15e-20!75;CL:0002321!1.25e-19!248;CL:0000220!1.43e-19!246;CL:0000222!4.29e-19!119;CL:0000183!7.64e-19!59;CL:0000680!4.58e-18!57;CL:0000056!4.58e-18!57;CL:0000355!4.58e-18!57;CL:0000187!1.61e-17!54;CL:0000393!7.50e-17!60;CL:0000211!7.50e-17!60;CL:0000192!2.09e-15!42;CL:0000514!2.09e-15!42;CL:0000548!4.94e-13!679;CL:0000004!4.94e-13!679;CL:0000255!4.94e-13!679;CL:0000359!1.21e-12!32;CL:0000012!3.04e-12!682;CL:0000144!7.96e-12!625;CL:0002371!1.97e-11!591;CL:0002620!3.69e-07!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000914!5.73e-20!83;UBERON:0002329!5.73e-20!83;UBERON:0003077!5.73e-20!83;UBERON:0003059!5.73e-20!83;UBERON:0007282!5.73e-20!83;UBERON:0009618!5.73e-20!83;UBERON:0007285!5.73e-20!83;UBERON:0004290!4.19e-19!70;UBERON:0005256!5.42e-18!143;UBERON:0001134!1.10e-16!61;UBERON:0002036!1.10e-16!61;UBERON:0003082!1.10e-16!61;UBERON:0000486!1.42e-16!82;UBERON:0002049!3.67e-16!79;UBERON:0007798!3.67e-16!79;UBERON:0004872!4.46e-16!84;UBERON:0002385!6.11e-16!63;UBERON:0001015!6.11e-16!63;UBERON:0000383!6.11e-16!63;UBERON:0002100!1.49e-15!216;UBERON:0001637!1.16e-14!42;UBERON:0003509!1.16e-14!42;UBERON:0004572!1.16e-14!42;UBERON:0003914!1.30e-14!118;UBERON:0001981!1.93e-14!60;UBERON:0007500!1.93e-14!60;UBERON:0004537!1.93e-14!60;UBERON:0006965!1.93e-14!60;UBERON:0000490!8.09e-14!138;UBERON:0000055!1.19e-13!69;UBERON:0003104!1.02e-12!238;UBERON:0009142!1.02e-12!238;UBERON:0000475!3.49e-12!365;UBERON:0004573!6.45e-12!33;UBERON:0004571!6.45e-12!33;UBERON:0004535!1.55e-11!110;UBERON:0000468!3.80e-11!659;UBERON:0000481!5.18e-11!347;UBERON:0001009!9.06e-11!113;UBERON:0000119!1.91e-09!312;UBERON:0003102!2.87e-09!95;UBERON:0000483!3.00e-09!309;UBERON:0002199!1.30e-08!45;UBERON:0002416!1.30e-08!45;UBERON:0000926!4.01e-08!448;UBERON:0004120!4.01e-08!448;UBERON:0006603!4.01e-08!448;UBERON:0000477!1.18e-07!286;UBERON:0000467!1.81e-07!625;UBERON:0000480!2.50e-07!626;UBERON:0002097!7.22e-07!40
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Revision as of 14:08, 21 May 2012


Full id: C1227_Osteoblast_Smooth_tenocyte_Fibroblast_Chondrocyte_Aortic_Hair



Phase1 CAGE Peaks

Hg19::chr17:39969465..39969488,+p3@FKBP10
Hg19::chr17:39974337..39974365,+p@chr17:39974337..39974365
+
Hg19::chr17:39974415..39974450,+p@chr17:39974415..39974450
+
Hg19::chr17:39975455..39975487,+p5@FKBP10
Hg19::chr17:39975580..39975609,+p4@FKBP10
Hg19::chr17:39975867..39975886,+p12@FKBP10
Hg19::chr1:12012673..12012703,+p@chr1:12012673..12012703
+


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><br>


Uber Anatomy
Ontology termp-valuen
somite5.73e-2083
paraxial mesoderm5.73e-2083
presomitic mesoderm5.73e-2083
presumptive segmental plate5.73e-2083
trunk paraxial mesoderm5.73e-2083
presumptive paraxial mesoderm5.73e-2083
dermomyotome4.19e-1970
trunk mesenchyme5.42e-18143
skeletal muscle tissue1.10e-1661
striated muscle tissue1.10e-1661
myotome1.10e-1661
multilaminar epithelium1.42e-1682
vasculature3.67e-1679
vascular system3.67e-1679
splanchnic layer of lateral plate mesoderm4.46e-1684
muscle tissue6.11e-1663
musculature6.11e-1663
musculature of body6.11e-1663
trunk1.49e-15216
artery1.16e-1442
arterial blood vessel1.16e-1442
arterial system1.16e-1442
epithelial tube1.30e-14118
blood vessel1.93e-1460
epithelial tube open at both ends1.93e-1460
blood vasculature1.93e-1460
vascular cord1.93e-1460
unilaminar epithelium8.09e-14138
vessel1.19e-1369
mesenchyme1.02e-12238
entire embryonic mesenchyme1.02e-12238
organism subdivision3.49e-12365
systemic artery6.45e-1233
systemic arterial system6.45e-1233
cardiovascular system1.55e-11110
multi-cellular organism3.80e-11659
multi-tissue structure5.18e-11347
circulatory system9.06e-11113
cell layer1.91e-09312
surface structure2.87e-0995
epithelium3.00e-09309
integument1.30e-0845
integumental system1.30e-0845
mesoderm4.01e-08448
mesoderm-derived structure4.01e-08448
presumptive mesoderm4.01e-08448
anatomical cluster1.18e-07286
anatomical system1.81e-07625
anatomical group2.50e-07626
skin of body7.22e-0740


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.