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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C387_Preadipocyte_Fibroblast_Adipocyte_tenocyte_Synoviocyte_mesothelioma_Ewing
|full_id=C387_Preadipocyte_Fibroblast_Adipocyte_tenocyte_Synoviocyte_mesothelioma_Ewing
|gostat_on_coexpression_clusters=GO:0050954!sensory perception of mechanical stimulus!0.0116566584245849!57214$GO:0007605!sensory perception of sound!0.0116566584245849!57214
|gostat_on_coexpression_clusters=GO:0050954!sensory perception of mechanical stimulus!0.0116566584245849!57214$GO:0007605!sensory perception of sound!0.0116566584245849!57214

Revision as of 16:52, 12 September 2012


Full id: C387_Preadipocyte_Fibroblast_Adipocyte_tenocyte_Synoviocyte_mesothelioma_Ewing



Phase1 CAGE Peaks

Hg19::chr15:81071703..81071719,+p1@KIAA1199
Hg19::chr15:81171136..81171166,-p@chr15:81171136..81171166
-
Hg19::chr15:81171144..81171167,+p@chr15:81171144..81171167
+
Hg19::chr15:81172081..81172103,+p@chr15:81172081..81172103
+
Hg19::chr15:81173239..81173250,+p@chr15:81173239..81173250
+
Hg19::chr15:81176511..81176526,+p@chr15:81176511..81176526
+
Hg19::chr15:81181863..81181875,+p14@KIAA1199
Hg19::chr15:81187409..81187422,+p@chr15:81187409..81187422
+
Hg19::chr15:81199054..81199068,+p@chr15:81199054..81199068
+
Hg19::chr15:81199093..81199117,+p@chr15:81199093..81199117
+
Hg19::chr15:81201549..81201567,+p2@KIAA1199
Hg19::chr15:81212437..81212457,+p@chr15:81212437..81212457
+
Hg19::chr15:81212487..81212506,+p@chr15:81212487..81212506
+
Hg19::chr15:81212537..81212560,+p@chr15:81212537..81212560
+
Hg19::chr15:81213369..81213398,+p@chr15:81213369..81213398
+
Hg19::chr15:81214436..81214445,+p13@KIAA1199
Hg19::chr15:81221467..81221484,+p7@KIAA1199
Hg19::chr15:81225614..81225625,+p18@KIAA1199
Hg19::chr15:81225643..81225655,+p5@KIAA1199
Hg19::chr15:81225699..81225710,+p26@KIAA1199
Hg19::chr15:81242324..81242347,+p4@KIAA1199
Hg19::chr15:81242470..81242502,+p9@KIAA1199
Hg19::chr15:81242624..81242640,+p8@KIAA1199
Hg19::chr15:81242954..81242966,+p@chr15:81242954..81242966
+
Hg19::chr15:81243109..81243120,+p@chr15:81243109..81243120
+
Hg19::chr15:81243857..81243870,+p@chr15:81243857..81243870
+
Hg19::chr18:74817666..74817686,-p2@AB463902
p2@CU688026
Hg19::chr7:40251315..40251325,-p@chr7:40251315..40251325
-


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:0050954sensory perception of mechanical stimulus0.0116566584245849
GO:0007605sensory perception of sound0.0116566584245849



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
organism subdivision1.01e-25365
somite3.20e-1783
paraxial mesoderm3.20e-1783
presomitic mesoderm3.20e-1783
presumptive segmental plate3.20e-1783
trunk paraxial mesoderm3.20e-1783
presumptive paraxial mesoderm3.20e-1783
dermomyotome6.61e-1670
skeletal muscle tissue2.37e-1561
striated muscle tissue2.37e-1561
myotome2.37e-1561
muscle tissue2.25e-1463
musculature2.25e-1463
musculature of body2.25e-1463
multilaminar epithelium3.83e-1482
multi-cellular organism9.89e-14659
multi-tissue structure3.06e-13347
anatomical system3.59e-12625
anatomical group6.78e-12626
cell layer8.69e-12312
anatomical cluster2.01e-11286
epithelium3.92e-11309
surface structure8.31e-1195
trunk1.78e-10216
trunk mesenchyme2.10e-10143
organ1.92e-09511
anatomical conduit2.32e-09241
integument6.63e-0945
integumental system6.63e-0945
head1.66e-08123
skin of body3.62e-0840
tube3.71e-08194
anterior region of body1.24e-07129
craniocervical region1.24e-07129
ectoderm-derived structure1.32e-07169
splanchnic layer of lateral plate mesoderm4.52e-0784
ectoderm5.45e-07173
presumptive ectoderm5.45e-07173
brain5.98e-0769
future brain5.98e-0769
central nervous system6.05e-0782
embryonic structure7.14e-07605
developing anatomical structure7.14e-07605
germ layer7.85e-07604
embryonic tissue7.85e-07604
presumptive structure7.85e-07604
epiblast (generic)7.85e-07604


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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