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Coexpression cluster:C517: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007100!9.44e-15!27;UBERON:0000948!6.46e-14!24;UBERON:0005498!6.46e-14!24;UBERON:0004140!6.46e-14!24;UBERON:0009881!6.46e-14!24;UBERON:0004141!6.46e-14!24;UBERON:0003084!6.46e-14!24;UBERON:0007005!6.46e-14!24;UBERON:0004139!6.46e-14!24;UBERON:0004291!6.46e-14!24;UBERON:0004872!9.28e-14!83;UBERON:0001637!6.31e-11!42;UBERON:0003509!6.31e-11!42;UBERON:0004572!6.31e-11!42;UBERON:0004573!3.71e-10!33;UBERON:0004571!3.71e-10!33;UBERON:0004797!5.17e-10!7;UBERON:0001009!9.83e-10!112;UBERON:0003688!1.92e-09!6;UBERON:0002358!1.92e-09!6;UBERON:0003684!1.92e-09!6;UBERON:0001178!1.92e-09!6;UBERON:0007500!3.08e-09!59;UBERON:0001981!3.08e-09!59;UBERON:0004537!3.08e-09!59;UBERON:0006965!3.08e-09!59;UBERON:0003914!3.56e-09!117;UBERON:0004535!5.19e-09!109;UBERON:0004458!1.32e-07!49;UBERON:0004457!1.33e-07!12;UBERON:0000042!1.33e-07!12;UBERON:0000055!4.34e-07!68;UBERON:0002049!4.42e-07!78;UBERON:0007798!4.42e-07!78;UBERON:0000415!8.22e-07!4;UBERON:0007240!8.22e-07!4;UBERON:0005742!8.22e-07!4;UBERON:0005734!8.22e-07!4;UBERON:0004664!8.22e-07!4;UBERON:0004663!8.22e-07!4
|ontology_enrichment_uberon=UBERON:0007100!9.44e-15!27;UBERON:0000948!6.46e-14!24;UBERON:0005498!6.46e-14!24;UBERON:0004140!6.46e-14!24;UBERON:0009881!6.46e-14!24;UBERON:0004141!6.46e-14!24;UBERON:0003084!6.46e-14!24;UBERON:0007005!6.46e-14!24;UBERON:0004139!6.46e-14!24;UBERON:0004291!6.46e-14!24;UBERON:0004872!9.28e-14!83;UBERON:0001637!6.31e-11!42;UBERON:0003509!6.31e-11!42;UBERON:0004572!6.31e-11!42;UBERON:0004573!3.71e-10!33;UBERON:0004571!3.71e-10!33;UBERON:0004797!5.17e-10!7;UBERON:0001009!9.83e-10!112;UBERON:0003688!1.92e-09!6;UBERON:0002358!1.92e-09!6;UBERON:0003684!1.92e-09!6;UBERON:0001178!1.92e-09!6;UBERON:0007500!3.08e-09!59;UBERON:0001981!3.08e-09!59;UBERON:0004537!3.08e-09!59;UBERON:0006965!3.08e-09!59;UBERON:0003914!3.56e-09!117;UBERON:0004535!5.19e-09!109;UBERON:0004458!1.32e-07!49;UBERON:0004457!1.33e-07!12;UBERON:0000042!1.33e-07!12;UBERON:0000055!4.34e-07!68;UBERON:0002049!4.42e-07!78;UBERON:0007798!4.42e-07!78;UBERON:0000415!8.22e-07!4;UBERON:0007240!8.22e-07!4;UBERON:0005742!8.22e-07!4;UBERON:0005734!8.22e-07!4;UBERON:0004664!8.22e-07!4;UBERON:0004663!8.22e-07!4
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|tfbs_overrepresentation_for_novel_motifs=0.413161,0.454916,0.127744,0.226461,0.336835,0.63973,0.283394,0.691671,0.384015,0.192485,0.587672,0.318077,1.22582,0.274371,2.26823,0.370545,0.469711,0.256959,0.907774,0.408826,0.12778,0.601032,0.219533,0.674624,0.156949,0.336616,1.0959,0.217946,0.104779,0.214203,0.187767,0.502277,0.465343,0.540435,0.285802,0.584876,0.0825354,0.2261,0.248245,0.619603,0.083468,0.176475,0.457003,0.332492,0.34554,0.147132,0.284252,0.195517,0.623885,0.341709,0.348337,0.797251,0.502427,0.571408,0.712611,0.276665,2.32481,0.251346,0.0188934,0.698795,0.538962,0.286121,0.170025,0.445454,0.300385,0.415664,0.795966,1.15172,0.493047,0.993712,0.167519,0.0475211,0.0516651,0.710737,0.115969,0.475214,0.226496,0.430778,0.490165,0.465067,0.139569,0.444519,0.300103,0.175942,0.662744,0.0432732,0.108261,1.34014,0.370044,1.24919,0.885103,0.637733,1.28627,0.0617781,0.103441,0.0679169,0.900607,0.555608,0.373917,0.0141994,0.25011,1.27551,0.550563,0.472938,0.405789,0.200011,0.45903,0.27168,0.156782,0.0941477,4.1427,0.548062,0.784747,0.210038,0.839147,0.585863,0.226355,1.65282,0.413654,0.490021,0.702982,0.368007,0.22321,0.309149,0.945405,0.431436,0.762734,0.521744,0.742996,0.241301,0.638371,0.189773,0.756554,0.826375,0.897471,0.0745004,0.540442,0.62352,0.856781,1.69932,1.30076,0.82115,0.765828,0.552418,0.407293,0.244914,1.01853,1.5412,2.25284,0.217844,0.124382,0.00309082,0.638724,0.0412184,0.779441,1.0234,0.356515,0.315972,0.92457,0.13835,0.819992,0.621644,0.489467,0.140388,0.421111,0.299472,0.0549261,0.282346,4.54086
}}
}}

Revision as of 14:16, 26 November 2012


Full id: C517_Mesothelial_Synoviocyte_mesothelioma_Fibroblast_Smooth_Preadipocyte_tenocyte



Phase1 CAGE Peaks

Hg19::chr20:48121333..48121349,-p@chr20:48121333..48121349
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Hg19::chr20:48121824..48121844,-p@chr20:48121824..48121844
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Hg19::chr20:48123976..48123992,-p@chr20:48123976..48123992
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Hg19::chr20:48124063..48124075,-p@chr20:48124063..48124075
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Hg19::chr20:48124130..48124143,-p@chr20:48124130..48124143
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Hg19::chr20:48124348..48124365,-p@chr20:48124348..48124365
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Hg19::chr20:48127605..48127622,-p@chr20:48127605..48127622
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Hg19::chr20:48129753..48129781,-p@chr20:48129753..48129781
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Hg19::chr20:48130918..48130935,-p@chr20:48130918..48130935
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Hg19::chr20:48140671..48140693,-p@chr20:48140671..48140693
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Hg19::chr20:48140767..48140776,-p@chr20:48140767..48140776
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Hg19::chr20:48164416..48164441,-p@chr20:48164416..48164441
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Hg19::chr20:48164465..48164477,-p@chr20:48164465..48164477
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Hg19::chr20:48164479..48164499,-p@chr20:48164479..48164499
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Hg19::chr20:48164533..48164548,-p@chr20:48164533..48164548
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Hg19::chr20:48184612..48184630,-p2@PTGIS
Hg19::chr20:48184638..48184694,-p1@PTGIS
Hg19::chr20:48184831..48184858,-p4@PTGIS


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
primary circulatory organ9.44e-1527
heart6.46e-1424
primitive heart tube6.46e-1424
primary heart field6.46e-1424
anterior lateral plate mesoderm6.46e-1424
heart tube6.46e-1424
heart primordium6.46e-1424
cardiac mesoderm6.46e-1424
cardiogenic plate6.46e-1424
heart rudiment6.46e-1424
splanchnic layer of lateral plate mesoderm9.28e-1483
artery6.31e-1142
arterial blood vessel6.31e-1142
arterial system6.31e-1142
systemic artery3.71e-1033
systemic arterial system3.71e-1033
blood vessel layer5.17e-107
circulatory system9.83e-10112
omentum1.92e-096
peritoneum1.92e-096
abdominal cavity1.92e-096
visceral peritoneum1.92e-096
epithelial tube open at both ends3.08e-0959
blood vessel3.08e-0959
blood vasculature3.08e-0959
vascular cord3.08e-0959
epithelial tube3.56e-09117
cardiovascular system5.19e-09109
body cavity or lining1.32e-0749
cavity lining1.33e-0712
serous membrane1.33e-0712
vessel4.34e-0768
vasculature4.42e-0778
vascular system4.42e-0778
artery wall8.22e-074
tunica adventitia of artery8.22e-074
adventitia8.22e-074
tunica adventitia of blood vessel8.22e-074
aorta tunica adventitia8.22e-074
aorta wall8.22e-074


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.

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