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Coexpression cluster:C1693: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0005148!prolactin receptor binding!0.00600468009881598!8835$GO:0008269!JAK pathway signal transduction adaptor activity!0.00600468009881598!8835$GO:0008268!receptor signaling protein tyrosine kinase signaling protein activity!0.00600468009881598!8835$GO:0005131!growth hormone receptor binding!0.00600468009881598!8835$GO:0005159!insulin-like growth factor receptor binding!0.010398383262844!8835$GO:0016265!death!0.010398383262844!8835;5733$GO:0008219!cell death!0.010398383262844!8835;5733$GO:0004957!prostaglandin E receptor activity!0.0127575036184426!5733$GO:0004955!prostaglandin receptor activity!0.013505956381168!5733$GO:0048468!cell development!0.013505956381168!8835;5733$GO:0004953!icosanoid receptor activity!0.013505956381168!5733$GO:0004954!prostanoid receptor activity!0.013505956381168!5733$GO:0007259!JAK-STAT cascade!0.0180047600390056!8835$GO:0048869!cellular developmental process!0.0183771524647308!8835;5733$GO:0030154!cell differentiation!0.0183771524647308!8835;5733$GO:0005070!SH3/SH2 adaptor activity!0.0183771524647308!8835$GO:0005126!hematopoietin/interferon-class (D200-domain) cytokine receptor binding!0.0199991020939335!8835$GO:0060090!molecular adaptor activity!0.0199991020939335!8835$GO:0030674!protein binding, bridging!0.0287224293463737!8835$GO:0009968!negative regulation of signal transduction!0.0311783771436525!8835$GO:0004879!ligand-dependent nuclear receptor activity!0.0397834287141932!5733$GO:0001558!regulation of cell growth!0.0397834287141932!8835$GO:0032502!developmental process!0.0397834287141932!8835;5733$GO:0006916!anti-apoptosis!0.0397834287141932!8835$GO:0005057!receptor signaling protein activity!0.0397834287141932!8835$GO:0005635!nuclear envelope!0.0397834287141932!5733$GO:0016049!cell growth!0.0397834287141932!8835$GO:0040008!regulation of growth!0.0397834287141932!8835$GO:0060089!molecular transducer activity!0.0397834287141932!8835;5733$GO:0004871!signal transducer activity!0.0397834287141932!8835;5733$GO:0008361!regulation of cell size!0.0397834287141932!8835$GO:0043066!negative regulation of apoptosis!0.0417115834356573!8835$GO:0043069!negative regulation of programmed cell death!0.0417115834356573!8835
|gostat_on_coexpression_clusters=GO:0005148!prolactin receptor binding!0.00600468009881598!8835$GO:0008269!JAK pathway signal transduction adaptor activity!0.00600468009881598!8835$GO:0008268!receptor signaling protein tyrosine kinase signaling protein activity!0.00600468009881598!8835$GO:0005131!growth hormone receptor binding!0.00600468009881598!8835$GO:0005159!insulin-like growth factor receptor binding!0.010398383262844!8835$GO:0016265!death!0.010398383262844!8835;5733$GO:0008219!cell death!0.010398383262844!8835;5733$GO:0004957!prostaglandin E receptor activity!0.0127575036184426!5733$GO:0004955!prostaglandin receptor activity!0.013505956381168!5733$GO:0048468!cell development!0.013505956381168!8835;5733$GO:0004953!icosanoid receptor activity!0.013505956381168!5733$GO:0004954!prostanoid receptor activity!0.013505956381168!5733$GO:0007259!JAK-STAT cascade!0.0180047600390056!8835$GO:0048869!cellular developmental process!0.0183771524647308!8835;5733$GO:0030154!cell differentiation!0.0183771524647308!8835;5733$GO:0005070!SH3/SH2 adaptor activity!0.0183771524647308!8835$GO:0005126!hematopoietin/interferon-class (D200-domain) cytokine receptor binding!0.0199991020939335!8835$GO:0060090!molecular adaptor activity!0.0199991020939335!8835$GO:0030674!protein binding, bridging!0.0287224293463737!8835$GO:0009968!negative regulation of signal transduction!0.0311783771436525!8835$GO:0004879!ligand-dependent nuclear receptor activity!0.0397834287141932!5733$GO:0001558!regulation of cell growth!0.0397834287141932!8835$GO:0032502!developmental process!0.0397834287141932!8835;5733$GO:0006916!anti-apoptosis!0.0397834287141932!8835$GO:0005057!receptor signaling protein activity!0.0397834287141932!8835$GO:0005635!nuclear envelope!0.0397834287141932!5733$GO:0016049!cell growth!0.0397834287141932!8835$GO:0040008!regulation of growth!0.0397834287141932!8835$GO:0060089!molecular transducer activity!0.0397834287141932!8835;5733$GO:0004871!signal transducer activity!0.0397834287141932!8835;5733$GO:0008361!regulation of cell size!0.0397834287141932!8835$GO:0043066!negative regulation of apoptosis!0.0417115834356573!8835$GO:0043069!negative regulation of programmed cell death!0.0417115834356573!8835
|id=C1693
|id=C1693
|ontology_enrichment_celltype=CL:0002274!6.71e-08!5;CL:0000457!6.71e-08!5;CL:0002191!6.71e-08!5;CL:0000097!6.71e-08!5;CL:0000831!6.71e-08!5;CL:0002028!6.71e-08!5;CL:0000136!9.14e-07!15
|ontology_enrichment_celltype=CL:0002274!3.48e-82!5;CL:0000457!3.48e-82!5;CL:0002191!3.48e-82!5;CL:0000097!3.48e-82!5;CL:0000831!3.48e-82!5;CL:0002028!3.48e-82!5;CL:0000163!7.85e-46!9;CL:0000763!1.84e-14!108;CL:0000049!1.84e-14!108;CL:0000151!1.41e-11!36;CL:0002032!1.87e-09!161;CL:0000837!1.87e-09!161;CL:0000037!5.03e-09!168;CL:0000566!5.03e-09!168;CL:0000988!1.60e-08!177
|ontology_enrichment_disease=DOID:1036!7.45e-08!8;DOID:1240!1.20e-07!39
|ontology_enrichment_disease=DOID:1036!2.41e-19!8;DOID:8552!5.26e-18!1;DOID:8692!1.64e-13!31;DOID:1240!9.43e-11!39;DOID:2531!3.19e-08!51;DOID:0060083!3.19e-08!51
|ontology_enrichment_uberon=UBERON:0007023!5.17e-12!115
|ontology_enrichment_uberon=
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}}
}}

Revision as of 11:35, 19 October 2012


Full id: C1693_Mast_leukemia_acute_chronic_Dendritic_mature_immature



Phase1 CAGE Peaks

Hg19::chr12:93966313..93966323,+p30@SOCS2
Hg19::chr19:52029102..52029142,+p@chr19:52029102..52029142
+
Hg19::chr1:71512983..71513015,-p2@PTGER3
Hg19::chr6:66360833..66360849,+p@chr6:66360833..66360849
+
Hg19::chr7:91184269..91184309,-p@chr7:91184269..91184309
-


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:0005148prolactin receptor binding0.00600468009881598
GO:0008269JAK pathway signal transduction adaptor activity0.00600468009881598
GO:0008268receptor signaling protein tyrosine kinase signaling protein activity0.00600468009881598
GO:0005131growth hormone receptor binding0.00600468009881598
GO:0005159insulin-like growth factor receptor binding0.010398383262844
GO:0016265death0.010398383262844
GO:0008219cell death0.010398383262844
GO:0004957prostaglandin E receptor activity0.0127575036184426
GO:0004955prostaglandin receptor activity0.013505956381168
GO:0048468cell development0.013505956381168
GO:0004953icosanoid receptor activity0.013505956381168
GO:0004954prostanoid receptor activity0.013505956381168
GO:0007259JAK-STAT cascade0.0180047600390056
GO:0048869cellular developmental process0.0183771524647308
GO:0030154cell differentiation0.0183771524647308
GO:0005070SH3/SH2 adaptor activity0.0183771524647308
GO:0005126hematopoietin/interferon-class (D200-domain) cytokine receptor binding0.0199991020939335
GO:0060090molecular adaptor activity0.0199991020939335
GO:0030674protein binding, bridging0.0287224293463737
GO:0009968negative regulation of signal transduction0.0311783771436525
GO:0004879ligand-dependent nuclear receptor activity0.0397834287141932
GO:0001558regulation of cell growth0.0397834287141932
GO:0032502developmental process0.0397834287141932
GO:0006916anti-apoptosis0.0397834287141932
GO:0005057receptor signaling protein activity0.0397834287141932
GO:0005635nuclear envelope0.0397834287141932
GO:0016049cell growth0.0397834287141932
GO:0040008regulation of growth0.0397834287141932
GO:0060089molecular transducer activity0.0397834287141932
GO:0004871signal transducer activity0.0397834287141932
GO:0008361regulation of cell size0.0397834287141932
GO:0043066negative regulation of apoptosis0.0417115834356573
GO:0043069negative regulation of programmed cell death0.0417115834356573



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><br>disease_data<br>


Disease
Ontology termp-valuen
chronic leukemia2.41e-198
chronic myeloid leukemia5.26e-181
myeloid leukemia1.64e-1331
leukemia9.43e-1139
hematologic cancer3.19e-0851
immune system cancer3.19e-0851


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.