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|full_id=C2351_Small_Keratinocyte_Bronchial_Sebocyte_mesothelioma_salivary_Tracheal
|full_id=C2351_Small_Keratinocyte_Bronchial_Sebocyte_mesothelioma_salivary_Tracheal
|id=C2351
|id=C2351
|ontology_enrichment_celltype=CL:0000220!1.49e-28!246;CL:0002321!9.88e-28!248;CL:0000222!2.91e-25!119;CL:0000076!3.60e-21!62;CL:0000055!9.11e-19!180;CL:0000680!9.55e-13!57;CL:0000056!9.55e-13!57;CL:0000355!9.55e-13!57;CL:0000183!1.32e-12!59;CL:0000144!4.52e-12!625;CL:0000187!4.82e-12!54;CL:0000213!5.18e-12!57;CL:0000215!5.18e-12!57;CL:0000066!8.87e-12!254;CL:0000393!2.02e-10!60;CL:0000211!2.02e-10!60;CL:0000057!2.32e-10!75;CL:0000548!3.47e-10!679;CL:0000004!3.47e-10!679;CL:0000255!3.47e-10!679;CL:0000192!4.63e-10!42;CL:0000514!4.63e-10!42;CL:0002371!1.18e-09!591;CL:0000012!1.21e-09!682;CL:0000359!6.74e-09!32;CL:0000077!2.14e-08!19;CL:0002078!9.30e-08!44;CL:0002076!4.56e-07!43
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000486!2.03e-18!82;UBERON:0000914!2.57e-18!83;UBERON:0002329!2.57e-18!83;UBERON:0003077!2.57e-18!83;UBERON:0003059!2.57e-18!83;UBERON:0007282!2.57e-18!83;UBERON:0009618!2.57e-18!83;UBERON:0007285!2.57e-18!83;UBERON:0005256!1.05e-16!143;UBERON:0003102!1.15e-15!95;UBERON:0000483!1.97e-15!309;UBERON:0000119!2.92e-15!312;UBERON:0004290!3.34e-15!70;UBERON:0000475!1.36e-13!365;UBERON:0002049!2.17e-12!79;UBERON:0007798!2.17e-12!79;UBERON:0001134!2.37e-12!61;UBERON:0002036!2.37e-12!61;UBERON:0003082!2.37e-12!61;UBERON:0002385!5.02e-12!63;UBERON:0001015!5.02e-12!63;UBERON:0000383!5.02e-12!63;UBERON:0000490!5.46e-12!138;UBERON:0000481!8.75e-12!347;UBERON:0002100!1.01e-11!216;UBERON:0003914!1.55e-11!118;UBERON:0000055!1.78e-11!69;UBERON:0001981!2.00e-11!60;UBERON:0007500!2.00e-11!60;UBERON:0004537!2.00e-11!60;UBERON:0006965!2.00e-11!60;UBERON:0003104!6.74e-11!238;UBERON:0009142!6.74e-11!238;UBERON:0004872!1.08e-10!84;UBERON:0001444!2.84e-10!48;UBERON:0001637!1.26e-09!42;UBERON:0003509!1.26e-09!42;UBERON:0004572!1.26e-09!42;UBERON:0002199!9.22e-09!45;UBERON:0002416!9.22e-09!45;UBERON:0002097!1.51e-08!40;UBERON:0000468!2.29e-08!659;UBERON:0004535!2.41e-08!110;UBERON:0001009!5.61e-08!113;UBERON:0000165!1.05e-07!28;UBERON:0000930!1.05e-07!28;UBERON:0005085!1.36e-07!29;UBERON:0004573!1.59e-07!33;UBERON:0004571!1.59e-07!33;UBERON:0006555!4.87e-07!17;UBERON:0005103!4.87e-07!17;UBERON:0000083!4.87e-07!17;UBERON:0009201!4.87e-07!17;UBERON:0004819!4.87e-07!17;UBERON:0006553!4.87e-07!17;UBERON:0003074!4.87e-07!17;UBERON:0003060!4.87e-07!17;UBERON:0000467!6.48e-07!625;UBERON:0000480!9.01e-07!626
}}
}}

Revision as of 14:23, 21 May 2012


Full id: C2351_Small_Keratinocyte_Bronchial_Sebocyte_mesothelioma_salivary_Tracheal



Phase1 CAGE Peaks

Hg19::chr15:83953373..83953386,-p2@BNC1
Hg19::chr15:83953397..83953425,-p1@BNC1
Hg19::chr15:83953474..83953483,-p3@BNC1
Hg19::chr15:83953694..83953708,-p4@BNC1


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
multilaminar epithelium2.03e-1882
somite2.57e-1883
paraxial mesoderm2.57e-1883
presomitic mesoderm2.57e-1883
presumptive segmental plate2.57e-1883
trunk paraxial mesoderm2.57e-1883
presumptive paraxial mesoderm2.57e-1883
trunk mesenchyme1.05e-16143
surface structure1.15e-1595
epithelium1.97e-15309
cell layer2.92e-15312
dermomyotome3.34e-1570
organism subdivision1.36e-13365
vasculature2.17e-1279
vascular system2.17e-1279
skeletal muscle tissue2.37e-1261
striated muscle tissue2.37e-1261
myotome2.37e-1261
muscle tissue5.02e-1263
musculature5.02e-1263
musculature of body5.02e-1263
unilaminar epithelium5.46e-12138
multi-tissue structure8.75e-12347
trunk1.01e-11216
epithelial tube1.55e-11118
vessel1.78e-1169
blood vessel2.00e-1160
epithelial tube open at both ends2.00e-1160
blood vasculature2.00e-1160
vascular cord2.00e-1160
mesenchyme6.74e-11238
entire embryonic mesenchyme6.74e-11238
splanchnic layer of lateral plate mesoderm1.08e-1084
subdivision of head2.84e-1048
artery1.26e-0942
arterial blood vessel1.26e-0942
arterial system1.26e-0942
integument9.22e-0945
integumental system9.22e-0945
skin of body1.51e-0840
multi-cellular organism2.29e-08659
cardiovascular system2.41e-08110
circulatory system5.61e-08113
mouth1.05e-0728
stomodeum1.05e-0728
ectodermal placode1.36e-0729
systemic artery1.59e-0733
systemic arterial system1.59e-0733
excretory tube4.87e-0717
mesonephric epithelium4.87e-0717
mesonephric tubule4.87e-0717
nephric duct4.87e-0717
kidney epithelium4.87e-0717
renal duct4.87e-0717
mesonephric duct4.87e-0717
pronephric duct4.87e-0717
anatomical system6.48e-07625
anatomical group9.01e-07626


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.