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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1611_Renal_Hepatic_Eosinophils_Endothelial_CD14_heart_Neutrophils
|full_id=C1611_Renal_Hepatic_Eosinophils_Endothelial_CD14_heart_Neutrophils
|gostat_on_coexpression_clusters=GO:0004696!glycogen synthase kinase 3 activity!0.00409951773641881!2932$GO:0046827!positive regulation of protein export from nucleus!0.00409951773641881!2932$GO:0010324!membrane invagination!0.00409951773641881!8578;22918$GO:0006897!endocytosis!0.00409951773641881!8578;22918$GO:0001849!complement component C1q binding!0.00445576494695808!22918$GO:0016044!membrane organization and biogenesis!0.00445576494695808!8578;22918$GO:0001846!opsonin binding!0.00445576494695808!22918$GO:0046825!regulation of protein export from nucleus!0.00445576494695808!2932$GO:0002039!p53 binding!0.00445576494695808!2932$GO:0030877!beta-catenin destruction complex!0.00445576494695808!2932$GO:0050321!tau-protein kinase activity!0.00445576494695808!2932$GO:0006983!ER overload response!0.00445576494695808!2932$GO:0045192!low-density lipoprotein catabolic process!0.00445576494695808!8578$GO:0060070!Wnt receptor signaling pathway through beta-catenin!0.00517171777955849!2932$GO:0001848!complement binding!0.00543014381110518!22918$GO:0042159!lipoprotein catabolic process!0.00543014381110518!8578$GO:0042116!macrophage activation!0.0069243814818691!22918$GO:0046824!positive regulation of nucleocytoplasmic transport!0.0069243814818691!2932$GO:0018209!peptidyl-serine modification!0.0069243814818691!2932$GO:0018105!peptidyl-serine phosphorylation!0.0069243814818691!2932$GO:0016043!cellular component organization and biogenesis!0.0069243814818691!8578;2932;22918$GO:0016192!vesicle-mediated transport!0.0069243814818691!8578;22918$GO:0051222!positive regulation of protein transport!0.0069243814818691!2932$GO:0006611!protein export from nucleus!0.00844490121160652!2932$GO:0033554!cellular response to stress!0.00926471749863026!2932$GO:0030169!low-density lipoprotein binding!0.00946487743275784!8578$GO:0051059!NF-kappaB binding!0.00965017914071661!2932$GO:0006810!transport!0.00980772946980233!8578;2932;22918$GO:0051234!establishment of localization!0.0101317931421153!8578;2932;22918$GO:0006984!ER-nuclear signaling pathway!0.0101317931421153!2932$GO:0051716!cellular response to stimulus!0.0110433382966838!2932$GO:0051179!localization!0.0110433382966838!8578;2932;22918$GO:0022610!biological adhesion!0.0110433382966838!8578;22918$GO:0007155!cell adhesion!0.0110433382966838!8578;22918$GO:0002274!myeloid leukocyte activation!0.0110433382966838!22918$GO:0051223!regulation of protein transport!0.0110433382966838!2932$GO:0046822!regulation of nucleocytoplasmic transport!0.0110433382966838!2932$GO:0008034!lipoprotein binding!0.0110433382966838!8578$GO:0051050!positive regulation of transport!0.0140958045221106!2932$GO:0006909!phagocytosis!0.0144654687403195!22918$GO:0006898!receptor-mediated endocytosis!0.0144654687403195!8578$GO:0006950!response to stress!0.0147825226066546!2932;22918$GO:0051168!nuclear export!0.0148005673400166!2932$GO:0005977!glycogen metabolic process!0.0154266528202848!2932$GO:0006073!glucan metabolic process!0.0154266528202848!2932$GO:0006112!energy reserve metabolic process!0.0172885394330931!2932$GO:0042157!lipoprotein metabolic process!0.0252825281241136!8578$GO:0044264!cellular polysaccharide metabolic process!0.0252825281241136!2932$GO:0005976!polysaccharide metabolic process!0.0253547441008835!2932$GO:0007596!blood coagulation!0.0288789978975099!22918$GO:0050817!coagulation!0.0288789978975099!22918$GO:0007599!hemostasis!0.0291541032241128!22918$GO:0051049!regulation of transport!0.0299617073999914!2932$GO:0015980!energy derivation by oxidation of organic compounds!0.0312717550240248!2932$GO:0018193!peptidyl-amino acid modification!0.0317491159829751!2932$GO:0050878!regulation of body fluid levels!0.0322091855854129!22918$GO:0042060!wound healing!0.0331571654041858!22918$GO:0016055!Wnt receptor signaling pathway!0.0360530277052107!2932$GO:0006913!nucleocytoplasmic transport!0.0374829917162732!2932$GO:0051169!nuclear transport!0.0374829917162732!2932$GO:0045321!leukocyte activation!0.0425105027103473!22918$GO:0001775!cell activation!0.0484713101515121!22918$GO:0005515!protein binding!0.0484713101515121!8578;2932;22918$GO:0006605!protein targeting!0.0490166176015429!2932
|id=C1611
|id=C1611
}}
}}

Revision as of 17:35, 18 May 2012


Full id: C1611_Renal_Hepatic_Eosinophils_Endothelial_CD14_heart_Neutrophils



Phase1 CAGE Peaks

Hg19::chr11:118481103..118481145,+p5@PHLDB1
Hg19::chr17:1549011..1549032,-p1@SCARF1
Hg19::chr20:23066953..23066974,-p1@CD93
Hg19::chr20:23066988..23066999,-p3@CD93
Hg19::chr3:119813131..119813152,-p3@GSK3B


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:0004696glycogen synthase kinase 3 activity0.00409951773641881
GO:0046827positive regulation of protein export from nucleus0.00409951773641881
GO:0010324membrane invagination0.00409951773641881
GO:0006897endocytosis0.00409951773641881
GO:0001849complement component C1q binding0.00445576494695808
GO:0016044membrane organization and biogenesis0.00445576494695808
GO:0001846opsonin binding0.00445576494695808
GO:0046825regulation of protein export from nucleus0.00445576494695808
GO:0002039p53 binding0.00445576494695808
GO:0030877beta-catenin destruction complex0.00445576494695808
GO:0050321tau-protein kinase activity0.00445576494695808
GO:0006983ER overload response0.00445576494695808
GO:0045192low-density lipoprotein catabolic process0.00445576494695808
GO:0060070Wnt receptor signaling pathway through beta-catenin0.00517171777955849
GO:0001848complement binding0.00543014381110518
GO:0042159lipoprotein catabolic process0.00543014381110518
GO:0042116macrophage activation0.0069243814818691
GO:0046824positive regulation of nucleocytoplasmic transport0.0069243814818691
GO:0018209peptidyl-serine modification0.0069243814818691
GO:0018105peptidyl-serine phosphorylation0.0069243814818691
GO:0016043cellular component organization and biogenesis0.0069243814818691
GO:0016192vesicle-mediated transport0.0069243814818691
GO:0051222positive regulation of protein transport0.0069243814818691
GO:0006611protein export from nucleus0.00844490121160652
GO:0033554cellular response to stress0.00926471749863026
GO:0030169low-density lipoprotein binding0.00946487743275784
GO:0051059NF-kappaB binding0.00965017914071661
GO:0006810transport0.00980772946980233
GO:0051234establishment of localization0.0101317931421153
GO:0006984ER-nuclear signaling pathway0.0101317931421153
GO:0051716cellular response to stimulus0.0110433382966838
GO:0051179localization0.0110433382966838
GO:0022610biological adhesion0.0110433382966838
GO:0007155cell adhesion0.0110433382966838
GO:0002274myeloid leukocyte activation0.0110433382966838
GO:0051223regulation of protein transport0.0110433382966838
GO:0046822regulation of nucleocytoplasmic transport0.0110433382966838
GO:0008034lipoprotein binding0.0110433382966838
GO:0051050positive regulation of transport0.0140958045221106
GO:0006909phagocytosis0.0144654687403195
GO:0006898receptor-mediated endocytosis0.0144654687403195
GO:0006950response to stress0.0147825226066546
GO:0051168nuclear export0.0148005673400166
GO:0005977glycogen metabolic process0.0154266528202848
GO:0006073glucan metabolic process0.0154266528202848
GO:0006112energy reserve metabolic process0.0172885394330931
GO:0042157lipoprotein metabolic process0.0252825281241136
GO:0044264cellular polysaccharide metabolic process0.0252825281241136
GO:0005976polysaccharide metabolic process0.0253547441008835
GO:0007596blood coagulation0.0288789978975099
GO:0050817coagulation0.0288789978975099
GO:0007599hemostasis0.0291541032241128
GO:0051049regulation of transport0.0299617073999914
GO:0015980energy derivation by oxidation of organic compounds0.0312717550240248
GO:0018193peptidyl-amino acid modification0.0317491159829751
GO:0050878regulation of body fluid levels0.0322091855854129
GO:0042060wound healing0.0331571654041858
GO:0016055Wnt receptor signaling pathway0.0360530277052107
GO:0006913nucleocytoplasmic transport0.0374829917162732
GO:0051169nuclear transport0.0374829917162732
GO:0045321leukocyte activation0.0425105027103473
GO:0001775cell activation0.0484713101515121
GO:0005515protein binding0.0484713101515121
GO:0006605protein targeting0.0490166176015429



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.