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|gostat_on_coexpression_clusters=GO:0005178!integrin binding!0.0397168392103577!3694$GO:0008305!integrin complex!0.0397168392103577!3694$GO:0007229!integrin-mediated signaling pathway!0.0397168392103577!3694$GO:0007160!cell-matrix adhesion!0.0397168392103577!3694$GO:0032403!protein complex binding!0.0397168392103577!3694$GO:0031589!cell-substrate adhesion!0.0397168392103577!3694$GO:0043235!receptor complex!0.0397168392103577!3694
|gostat_on_coexpression_clusters=GO:0005178!integrin binding!0.0397168392103577!3694$GO:0008305!integrin complex!0.0397168392103577!3694$GO:0007229!integrin-mediated signaling pathway!0.0397168392103577!3694$GO:0007160!cell-matrix adhesion!0.0397168392103577!3694$GO:0032403!protein complex binding!0.0397168392103577!3694$GO:0031589!cell-substrate adhesion!0.0397168392103577!3694$GO:0043235!receptor complex!0.0397168392103577!3694
|id=C1497
|id=C1497
|ontology_enrichment_celltype=CL:0000066!8.57e-23!254;CL:0002076!4.07e-22!43;CL:0000223!7.48e-15!59;CL:0002368!4.98e-11!13;CL:0002251!3.73e-09!21;CL:0002202!5.67e-08!9;CL:0002632!5.67e-08!9
|ontology_enrichment_disease=DOID:1749!1.17e-09!14;DOID:305!1.53e-09!106;DOID:299!3.81e-09!25
|ontology_enrichment_uberon=UBERON:0004119!7.43e-21!169;UBERON:0000925!7.43e-21!169;UBERON:0006595!7.43e-21!169;UBERON:0000464!2.11e-15!104;UBERON:0001007!4.56e-15!155;UBERON:0001555!4.56e-15!155;UBERON:0007026!4.56e-15!155;UBERON:0000466!3.26e-12!126;UBERON:0004921!3.73e-12!129;UBERON:0004185!3.73e-12!129;UBERON:0000077!7.42e-12!130;UBERON:0001004!1.64e-11!72;UBERON:0005911!2.58e-10!82;UBERON:0005153!2.75e-10!37;UBERON:0001008!1.28e-09!45;UBERON:0005631!2.10e-09!14;UBERON:0000158!2.10e-09!14;UBERON:0006554!3.08e-09!44;UBERON:0000161!7.41e-09!35;UBERON:0005156!1.06e-08!59;UBERON:0000990!1.06e-08!59;UBERON:0005178!1.47e-08!34;UBERON:0002224!1.47e-08!34;UBERON:0000065!2.83e-08!53;UBERON:0002553!3.04e-08!70;UBERON:0005177!3.72e-08!107;UBERON:0005181!4.50e-08!35;UBERON:0005157!4.88e-08!51;UBERON:0003100!1.06e-07!41;UBERON:0000058!1.07e-07!26;UBERON:0003133!1.50e-07!48;UBERON:0003064!2.07e-07!37;UBERON:0003124!2.43e-07!7;UBERON:0002048!2.83e-07!22;UBERON:0000117!2.83e-07!22;UBERON:0000171!2.83e-07!22;UBERON:0000170!2.83e-07!22;UBERON:0005597!2.83e-07!22;UBERON:0000118!2.83e-07!22;UBERON:0000478!3.13e-07!24;UBERON:0004807!4.88e-07!28;UBERON:0001041!6.26e-07!98
}}
}}

Revision as of 14:12, 21 May 2012


Full id: C1497_amniotic_Mallassezderived_Prostate_Urothelial_papillotubular_Gingival_Amniotic



Phase1 CAGE Peaks

Hg19::chr2:161056746..161056753,-p6@ITGB6
Hg19::chr2:161056762..161056799,-p1@ITGB6
Hg19::chr2:161056802..161056815,-p2@ITGB6
Hg19::chr2:161056820..161056825,-p4@ITGB6
Hg19::chr3:111314186..111314204,-p1@ZBED2
Hg19::chr3:111314230..111314241,-p2@ZBED2


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:0005178integrin binding0.0397168392103577
GO:0008305integrin complex0.0397168392103577
GO:0007229integrin-mediated signaling pathway0.0397168392103577
GO:0007160cell-matrix adhesion0.0397168392103577
GO:0032403protein complex binding0.0397168392103577
GO:0031589cell-substrate adhesion0.0397168392103577
GO:0043235receptor complex0.0397168392103577



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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure7.43e-21169
endoderm7.43e-21169
presumptive endoderm7.43e-21169
anatomical space2.11e-15104
digestive system4.56e-15155
digestive tract4.56e-15155
primitive gut4.56e-15155
immaterial anatomical entity3.26e-12126
subdivision of digestive tract3.73e-12129
endodermal part of digestive tract3.73e-12129
mixed endoderm/mesoderm-derived structure7.42e-12130
respiratory system1.64e-1172
endo-epithelium2.58e-1082
epithelial bud2.75e-1037
renal system1.28e-0945
extraembryonic membrane2.10e-0914
membranous layer2.10e-0914
urinary system structure3.08e-0944
orifice7.41e-0935
reproductive structure1.06e-0859
reproductive system1.06e-0859
thoracic cavity element1.47e-0834
thoracic cavity1.47e-0834
respiratory tract2.83e-0853
anatomical cavity3.04e-0870
trunk region element3.72e-08107
thoracic segment organ4.50e-0835
epithelial fold4.88e-0851
female organism1.06e-0741
duct1.07e-0726
reproductive organ1.50e-0748
intermediate mesoderm2.07e-0737
chorion2.43e-077
lung2.83e-0722
respiratory tube2.83e-0722
respiration organ2.83e-0722
pair of lungs2.83e-0722
lung primordium2.83e-0722
lung bud2.83e-0722
extraembryonic structure3.13e-0724
respiratory system epithelium4.88e-0728
foregut6.26e-0798
Disease
Ontology termp-valuen
squamous cell carcinoma1.17e-0914
carcinoma1.53e-09106
adenocarcinoma3.81e-0925


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)

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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.