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|full_id=C2155_Alveolar_Mesenchymal_Renal_Hair_Smooth_Fibroblast_Bronchial
 
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|gostat_on_coexpression_clusters=GO:0007264!small GTPase mediated signal transduction!0.00561280380812922!1072;81876;396$GO:0006916!anti-apoptosis!0.00561280380812922!1072;396$GO:0007266!Rho protein signal transduction!0.00561280380812922!1072;396$GO:0043066!negative regulation of apoptosis!0.00561280380812922!1072;396$GO:0043069!negative regulation of programmed cell death!0.00561280380812922!1072;396$GO:0005856!cytoskeleton!0.00561280380812922!60;1072;396$GO:0035267!NuA4 histone acetyltransferase complex!0.00898898000577465!60$GO:0007242!intracellular signaling cascade!0.00898898000577465!1072;81876;396$GO:0051674!localization of cell!0.00898898000577465!60;396$GO:0006928!cell motility!0.00898898000577465!60;396$GO:0043189!H4/H2A histone acetyltransferase complex!0.00898898000577465!60$GO:0007265!Ras protein signal transduction!0.00951756176553976!1072;396$GO:0000123!histone acetyltransferase complex!0.0134669426856117!60$GO:0042981!regulation of apoptosis!0.0134669426856117!1072;396$GO:0043067!regulation of programmed cell death!0.0134669426856117!1072;396$GO:0005094!Rho GDP-dissociation inhibitor activity!0.0144325718247894!396$GO:0005737!cytoplasm!0.0144325718247894!60;1072;81876;396$GO:0043232!intracellular non-membrane-bound organelle!0.0144325718247894!60;1072;396$GO:0043228!non-membrane-bound organelle!0.0144325718247894!60;1072;396$GO:0031981!nuclear lumen!0.0144325718247894!60;1072$GO:0007162!negative regulation of cell adhesion!0.017474096358452!396$GO:0005092!GDP-dissociation inhibitor activity!0.0179612957941699!396$GO:0006915!apoptosis!0.0186480408191993!1072;396$GO:0012501!programmed cell death!0.0186480408191993!1072;396$GO:0016265!death!0.0190659149538056!1072;396$GO:0008219!cell death!0.0190659149538056!1072;396$GO:0031974!membrane-enclosed lumen!0.0201966507970214!60;1072$GO:0043233!organelle lumen!0.0201966507970214!60;1072$GO:0005515!protein binding!0.0204183646101707!60;1072;81876;396$GO:0016363!nuclear matrix!0.0220909551404238!1072$GO:0044428!nuclear part!0.0236262360421581!60;1072$GO:0048523!negative regulation of cellular process!0.0240742996074799!1072;396$GO:0048519!negative regulation of biological process!0.0251846368767134!1072;396$GO:0048468!cell development!0.0265674164750137!1072;396$GO:0030155!regulation of cell adhesion!0.0265674164750137!396$GO:0051179!localization!0.0275572213624321!60;81876;396$GO:0005200!structural constituent of cytoskeleton!0.0310461000661591!60$GO:0043229!intracellular organelle!0.0310461000661591!60;1072;81876;396$GO:0043226!organelle!0.0310461000661591!60;1072;81876;396$GO:0007165!signal transduction!0.0368719025886468!1072;81876;396$GO:0007154!cell communication!0.0422377920115624!1072;81876;396$GO:0050954!sensory perception of mechanical stimulus!0.0422377920115624!60$GO:0007605!sensory perception of sound!0.0422377920115624!60$GO:0048869!cellular developmental process!0.0422377920115624!1072;396$GO:0030154!cell differentiation!0.0422377920115624!1072;396$GO:0050794!regulation of cellular process!0.0431562287345324!1072;81876;396
 
|id=C2155
 
|id=C2155
 
}}
 
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Revision as of 08:36, 18 May 2012


Full id: C2155_Alveolar_Mesenchymal_Renal_Hair_Smooth_Fibroblast_Bronchial



Phase1 CAGE Peaks

Hg19::chr11:65625643..65625659,-p1@CFL1
Hg19::chr11:66036082..66036125,+p1@RAB1B
Hg19::chr17:79829190..79829260,-p1@ARHGDIA
Hg19::chr7:5570229..5570234,-p1@ACTB


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:0007264small GTPase mediated signal transduction0.00561280380812922
GO:0006916anti-apoptosis0.00561280380812922
GO:0007266Rho protein signal transduction0.00561280380812922
GO:0043066negative regulation of apoptosis0.00561280380812922
GO:0043069negative regulation of programmed cell death0.00561280380812922
GO:0005856cytoskeleton0.00561280380812922
GO:0035267NuA4 histone acetyltransferase complex0.00898898000577465
GO:0007242intracellular signaling cascade0.00898898000577465
GO:0051674localization of cell0.00898898000577465
GO:0006928cell motility0.00898898000577465
GO:0043189H4/H2A histone acetyltransferase complex0.00898898000577465
GO:0007265Ras protein signal transduction0.00951756176553976
GO:0000123histone acetyltransferase complex0.0134669426856117
GO:0042981regulation of apoptosis0.0134669426856117
GO:0043067regulation of programmed cell death0.0134669426856117
GO:0005094Rho GDP-dissociation inhibitor activity0.0144325718247894
GO:0005737cytoplasm0.0144325718247894
GO:0043232intracellular non-membrane-bound organelle0.0144325718247894
GO:0043228non-membrane-bound organelle0.0144325718247894
GO:0031981nuclear lumen0.0144325718247894
GO:0007162negative regulation of cell adhesion0.017474096358452
GO:0005092GDP-dissociation inhibitor activity0.0179612957941699
GO:0006915apoptosis0.0186480408191993
GO:0012501programmed cell death0.0186480408191993
GO:0016265death0.0190659149538056
GO:0008219cell death0.0190659149538056
GO:0031974membrane-enclosed lumen0.0201966507970214
GO:0043233organelle lumen0.0201966507970214
GO:0005515protein binding0.0204183646101707
GO:0016363nuclear matrix0.0220909551404238
GO:0044428nuclear part0.0236262360421581
GO:0048523negative regulation of cellular process0.0240742996074799
GO:0048519negative regulation of biological process0.0251846368767134
GO:0048468cell development0.0265674164750137
GO:0030155regulation of cell adhesion0.0265674164750137
GO:0051179localization0.0275572213624321
GO:0005200structural constituent of cytoskeleton0.0310461000661591
GO:0043229intracellular organelle0.0310461000661591
GO:0043226organelle0.0310461000661591
GO:0007165signal transduction0.0368719025886468
GO:0007154cell communication0.0422377920115624
GO:0050954sensory perception of mechanical stimulus0.0422377920115624
GO:0007605sensory perception of sound0.0422377920115624
GO:0048869cellular developmental process0.0422377920115624
GO:0030154cell differentiation0.0422377920115624
GO:0050794regulation of cellular process0.0431562287345324



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.