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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C346_gall_ductus_seminal_temporal_duodenum_Hepatocyte_liver
|full_id=C346_gall_ductus_seminal_temporal_duodenum_Hepatocyte_liver
|gostat_on_coexpression_clusters=GO:0030277!maintenance of gastrointestinal epithelium!0.0207089471839206!4588$GO:0001517!N-acetylglucosamine 6-O-sulfotransferase activity!0.0207089471839206!10164$GO:0006928!cell motility!0.0207089471839206!10164;476$GO:0051674!localization of cell!0.0207089471839206!10164;476$GO:0031532!actin cytoskeleton reorganization!0.0207089471839206!9578$GO:0051923!sulfation!0.0207089471839206!10164$GO:0006477!protein amino acid sulfation!0.0207089471839206!10164$GO:0005890!sodium:potassium-exchanging ATPase complex!0.0207089471839206!476$GO:0000287!magnesium ion binding!0.0207089471839206!476;9578$GO:0030641!cellular hydrogen ion homeostasis!0.0258440314808478!476$GO:0030004!cellular monovalent inorganic cation homeostasis!0.0269172999760724!476$GO:0055067!monovalent inorganic cation homeostasis!0.0269172999760724!476$GO:0005391!sodium:potassium-exchanging ATPase activity!0.0281571499812529!476$GO:0022600!digestive system process!0.0282556773832283!4588$GO:0030317!sperm motility!0.0282556773832283!476$GO:0005802!trans-Golgi network!0.0282556773832283!10164$GO:0007163!establishment and/or maintenance of cell polarity!0.0367114937127861!9578$GO:0006044!N-acetylglucosamine metabolic process!0.0396325799223194!10164$GO:0006041!glucosamine metabolic process!0.0396325799223194!10164$GO:0006040!amino sugar metabolic process!0.0440937139326096!10164
|id=C346
|id=C346
}}
}}

Revision as of 17:38, 18 May 2012


Full id: C346_gall_ductus_seminal_temporal_duodenum_Hepatocyte_liver



Phase1 CAGE Peaks

Hg19::chr11:1036824..1036834,-p12@MUC6
Hg19::chr11:1036870..1036877,-p19@MUC6
Hg19::chr11:1247434..1247435,+p@chr11:1247434..1247435
+
Hg19::chr11:1247439..1247442,+p@chr11:1247439..1247442
+
Hg19::chr11:1247457..1247468,+p@chr11:1247457..1247468
+
Hg19::chr11:1248306..1248342,+p@chr11:1248306..1248342
+
Hg19::chr11:1248537..1248548,+p@chr11:1248537..1248548
+
Hg19::chr11:69832005..69832020,+p2@ENST00000534086
Hg19::chr11:69906080..69906083,+p@chr11:69906080..69906083
+
Hg19::chr14:103470614..103470619,-p17@CDC42BPB
Hg19::chr16:71560034..71560052,+p2@CHST4
Hg19::chr16:71560158..71560170,+p3@CHST4
Hg19::chr16:71560178..71560189,+p4@CHST4
Hg19::chr16:71560323..71560348,+p1@CHST4
Hg19::chr17:79429043..79429051,-p@chr17:79429043..79429051
-
Hg19::chr18:3215101..3215129,-p@chr18:3215101..3215129
-
Hg19::chr18:3215174..3215185,-p@chr18:3215174..3215185
-
Hg19::chr18:3215199..3215210,-p@chr18:3215199..3215210
-
Hg19::chr18:55095211..55095224,+p@chr18:55095211..55095224
+
Hg19::chr19:40433829..40433855,-p@chr19:40433829..40433855
-
Hg19::chr19:40434104..40434122,-p@chr19:40434104..40434122
-
Hg19::chr1:116915270..116915282,+p53@ATP1A1
Hg19::chr1:187929602..187929615,+p@chr1:187929602..187929615
+
Hg19::chr1:22836627..22836645,+p@chr1:22836627..22836645
+
Hg19::chr20:35983148..35983193,+p@chr20:35983148..35983193
+
Hg19::chr21:43783664..43783667,+p@chr21:43783664..43783667
+
Hg19::chr22:50732337..50732349,-p@chr22:50732337..50732349
-
Hg19::chr3:193561585..193561593,-p2@ENST00000439074
Hg19::chr3:193561605..193561612,-p3@ENST00000439074
Hg19::chr3:193561630..193561644,-p1@ENST00000439074
Hg19::chr4:26491064..26491072,-p@chr4:26491064..26491072
-
Hg19::chr5:111570472..111570478,-p@chr5:111570472..111570478
-


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:0030277maintenance of gastrointestinal epithelium0.0207089471839206
GO:0001517N-acetylglucosamine 6-O-sulfotransferase activity0.0207089471839206
GO:0006928cell motility0.0207089471839206
GO:0051674localization of cell0.0207089471839206
GO:0031532actin cytoskeleton reorganization0.0207089471839206
GO:0051923sulfation0.0207089471839206
GO:0006477protein amino acid sulfation0.0207089471839206
GO:0005890sodium:potassium-exchanging ATPase complex0.0207089471839206
GO:0000287magnesium ion binding0.0207089471839206
GO:0030641cellular hydrogen ion homeostasis0.0258440314808478
GO:0030004cellular monovalent inorganic cation homeostasis0.0269172999760724
GO:0055067monovalent inorganic cation homeostasis0.0269172999760724
GO:0005391sodium:potassium-exchanging ATPase activity0.0281571499812529
GO:0022600digestive system process0.0282556773832283
GO:0030317sperm motility0.0282556773832283
GO:0005802trans-Golgi network0.0282556773832283
GO:0007163establishment and/or maintenance of cell polarity0.0367114937127861
GO:0006044N-acetylglucosamine metabolic process0.0396325799223194
GO:0006041glucosamine metabolic process0.0396325799223194
GO:0006040amino sugar metabolic process0.0440937139326096



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>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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