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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C821_migratory_CD14_immature_CD14CD16_Dendritic_Macrophage_Monocytederived
|full_id=C821_migratory_CD14_immature_CD14CD16_Dendritic_Macrophage_Monocytederived
|gostat_on_coexpression_clusters=GO:0043016!regulation of lymphotoxin A biosynthetic process!0.00753461939402311!942$GO:0043017!positive regulation of lymphotoxin A biosynthetic process!0.00753461939402311!942$GO:0048261!negative regulation of receptor-mediated endocytosis!0.00753461939402311!5879$GO:0045630!positive regulation of T-helper 2 cell differentiation!0.00753461939402311!942$GO:0035025!positive regulation of Rho protein signal transduction!0.00753461939402311!5879$GO:0045404!positive regulation of interleukin-4 biosynthetic process!0.00753461939402311!942$GO:0045402!regulation of interleukin-4 biosynthetic process!0.00753461939402311!942$GO:0032641!lymphotoxin A production!0.00753461939402311!942$GO:0042109!lymphotoxin A biosynthetic process!0.00753461939402311!942$GO:0042097!interleukin-4 biosynthetic process!0.00753461939402311!942$GO:0045624!positive regulation of T-helper cell differentiation!0.00753461939402311!942$GO:0045628!regulation of T-helper 2 cell differentiation!0.00753461939402311!942$GO:0045806!negative regulation of endocytosis!0.00753461939402311!5879$GO:0032633!interleukin-4 production!0.00753461939402311!942$GO:0045064!T-helper 2 cell differentiation!0.0082406260734007!942$GO:0031529!ruffle organization and biogenesis!0.0082406260734007!5879$GO:0045622!regulation of T-helper cell differentiation!0.00852921161836958!942$GO:0048259!regulation of receptor-mediated endocytosis!0.00852921161836958!5879$GO:0030032!lamellipodium biogenesis!0.00852921161836958!5879$GO:0051057!positive regulation of small GTPase mediated signal transduction!0.00852921161836958!5879$GO:0002294!CD4-positive, alpha-beta T cell differentiation during immune response!0.00852921161836958!942$GO:0002292!T cell differentiation during immune response!0.00852921161836958!942$GO:0042093!T-helper cell differentiation!0.00852921161836958!942$GO:0002366!leukocyte activation during immune response!0.00852921161836958!942$GO:0042092!T-helper 2 type immune response!0.00852921161836958!942$GO:0002285!lymphocyte activation during immune response!0.00852921161836958!942$GO:0002293!alpha-beta T cell differentiation during immune response!0.00852921161836958!942$GO:0002286!T cell activation during immune response!0.00852921161836958!942$GO:0002263!cell activation during immune response!0.00852921161836958!942$GO:0030742!GTP-dependent protein binding!0.00852921161836958!5879$GO:0005041!low-density lipoprotein receptor activity!0.00852921161836958!84225$GO:0043367!CD4-positive, alpha beta T cell differentiation!0.00852921161836958!942$GO:0045086!positive regulation of interleukin-2 biosynthetic process!0.00852921161836958!942$GO:0030228!lipoprotein receptor activity!0.00852921161836958!84225$GO:0045076!regulation of interleukin-2 biosynthetic process!0.0110977673958521!942$GO:0015026!coreceptor activity!0.0110977673958521!942$GO:0042094!interleukin-2 biosynthetic process!0.0110977673958521!942$GO:0046632!alpha-beta T cell differentiation!0.0110977673958521!942$GO:0030169!low-density lipoprotein binding!0.0114885274969046!84225$GO:0046631!alpha-beta T cell activation!0.0125180103570752!942$GO:0032623!interleukin-2 production!0.0134970475465134!942$GO:0008034!lipoprotein binding!0.0181885724770088!84225$GO:0051051!negative regulation of transport!0.0185575468569413!5879$GO:0030041!actin filament polymerization!0.0185575468569413!5879$GO:0030100!regulation of endocytosis!0.0198985033483514!5879$GO:0042108!positive regulation of cytokine biosynthetic process!0.0224885972698191!942$GO:0030217!T cell differentiation!0.0224885972698191!942$GO:0006898!receptor-mediated endocytosis!0.0224885972698191!5879$GO:0030031!cell projection biogenesis!0.0268547456505492!5879$GO:0045727!positive regulation of translation!0.0278930136771611!942$GO:0042035!regulation of cytokine biosynthetic process!0.0302754135134063!942$GO:0031328!positive regulation of cellular biosynthetic process!0.0302754135134063!942$GO:0008154!actin polymerization and/or depolymerization!0.0302754135134063!5879$GO:0030098!lymphocyte differentiation!0.0311720084080662!942$GO:0042089!cytokine biosynthetic process!0.0319317503155234!942$GO:0042107!cytokine metabolic process!0.0319317503155234!942$GO:0009891!positive regulation of biosynthetic process!0.0322913838427321!942$GO:0005044!scavenger receptor activity!0.0326458682279682!84225$GO:0002250!adaptive immune response!0.0326458682279682!942$GO:0008009!chemokine activity!0.0326458682279682!84225$GO:0002460!adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains!0.0326458682279682!942$GO:0042379!chemokine receptor binding!0.0326458682279682!84225$GO:0048770!pigment granule!0.0340809899234666!5879$GO:0042470!melanosome!0.0340809899234666!5879$GO:0051247!positive regulation of protein metabolic process!0.0343622254130415!942$GO:0002521!leukocyte differentiation!0.0358243535923532!942$GO:0051258!protein polymerization!0.0378480464406347!5879$GO:0042110!T cell activation!0.0378480464406347!942$GO:0001664!G-protein-coupled receptor binding!0.0395726775772995!84225$GO:0051049!regulation of transport!0.0412468429366429!5879$GO:0001816!cytokine production!0.0417694350402286!942$GO:0044267!cellular protein metabolic process!0.0484331498350187!115701;5879;942$GO:0044260!cellular macromolecule metabolic process!0.0495517687458814!115701;5879;942
|id=C821
|id=C821
}}
}}

Revision as of 17:41, 18 May 2012


Full id: C821_migratory_CD14_immature_CD14CD16_Dendritic_Macrophage_Monocytederived



Phase1 CAGE Peaks

Hg19::chr12:69719024..69719043,-p@chr12:69719024..69719043
-
Hg19::chr17:4643087..4643113,+p2@ZMYND15
Hg19::chr17:4643118..4643145,+p1@ZMYND15
Hg19::chr18:56203944..56203982,-p17@ALPK2
Hg19::chr3:121774202..121774222,+p1@CD86
Hg19::chr3:121774295..121774306,+p3@CD86
Hg19::chr3:121821281..121821283,+p@chr3:121821281..121821283
+
Hg19::chr7:6414211..6414222,+p2@RAC1
Hg19::chr8:39771339..39771352,+p4@IDO1
Hg19::chr8:623777..623823,-p2@ERICH1


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:0043016regulation of lymphotoxin A biosynthetic process0.00753461939402311
GO:0043017positive regulation of lymphotoxin A biosynthetic process0.00753461939402311
GO:0048261negative regulation of receptor-mediated endocytosis0.00753461939402311
GO:0045630positive regulation of T-helper 2 cell differentiation0.00753461939402311
GO:0035025positive regulation of Rho protein signal transduction0.00753461939402311
GO:0045404positive regulation of interleukin-4 biosynthetic process0.00753461939402311
GO:0045402regulation of interleukin-4 biosynthetic process0.00753461939402311
GO:0032641lymphotoxin A production0.00753461939402311
GO:0042109lymphotoxin A biosynthetic process0.00753461939402311
GO:0042097interleukin-4 biosynthetic process0.00753461939402311
GO:0045624positive regulation of T-helper cell differentiation0.00753461939402311
GO:0045628regulation of T-helper 2 cell differentiation0.00753461939402311
GO:0045806negative regulation of endocytosis0.00753461939402311
GO:0032633interleukin-4 production0.00753461939402311
GO:0045064T-helper 2 cell differentiation0.0082406260734007
GO:0031529ruffle organization and biogenesis0.0082406260734007
GO:0045622regulation of T-helper cell differentiation0.00852921161836958
GO:0048259regulation of receptor-mediated endocytosis0.00852921161836958
GO:0030032lamellipodium biogenesis0.00852921161836958
GO:0051057positive regulation of small GTPase mediated signal transduction0.00852921161836958
GO:0002294CD4-positive, alpha-beta T cell differentiation during immune response0.00852921161836958
GO:0002292T cell differentiation during immune response0.00852921161836958
GO:0042093T-helper cell differentiation0.00852921161836958
GO:0002366leukocyte activation during immune response0.00852921161836958
GO:0042092T-helper 2 type immune response0.00852921161836958
GO:0002285lymphocyte activation during immune response0.00852921161836958
GO:0002293alpha-beta T cell differentiation during immune response0.00852921161836958
GO:0002286T cell activation during immune response0.00852921161836958
GO:0002263cell activation during immune response0.00852921161836958
GO:0030742GTP-dependent protein binding0.00852921161836958
GO:0005041low-density lipoprotein receptor activity0.00852921161836958
GO:0043367CD4-positive, alpha beta T cell differentiation0.00852921161836958
GO:0045086positive regulation of interleukin-2 biosynthetic process0.00852921161836958
GO:0030228lipoprotein receptor activity0.00852921161836958
GO:0045076regulation of interleukin-2 biosynthetic process0.0110977673958521
GO:0015026coreceptor activity0.0110977673958521
GO:0042094interleukin-2 biosynthetic process0.0110977673958521
GO:0046632alpha-beta T cell differentiation0.0110977673958521
GO:0030169low-density lipoprotein binding0.0114885274969046
GO:0046631alpha-beta T cell activation0.0125180103570752
GO:0032623interleukin-2 production0.0134970475465134
GO:0008034lipoprotein binding0.0181885724770088
GO:0051051negative regulation of transport0.0185575468569413
GO:0030041actin filament polymerization0.0185575468569413
GO:0030100regulation of endocytosis0.0198985033483514
GO:0042108positive regulation of cytokine biosynthetic process0.0224885972698191
GO:0030217T cell differentiation0.0224885972698191
GO:0006898receptor-mediated endocytosis0.0224885972698191
GO:0030031cell projection biogenesis0.0268547456505492
GO:0045727positive regulation of translation0.0278930136771611
GO:0042035regulation of cytokine biosynthetic process0.0302754135134063
GO:0031328positive regulation of cellular biosynthetic process0.0302754135134063
GO:0008154actin polymerization and/or depolymerization0.0302754135134063
GO:0030098lymphocyte differentiation0.0311720084080662
GO:0042089cytokine biosynthetic process0.0319317503155234
GO:0042107cytokine metabolic process0.0319317503155234
GO:0009891positive regulation of biosynthetic process0.0322913838427321
GO:0005044scavenger receptor activity0.0326458682279682
GO:0002250adaptive immune response0.0326458682279682
GO:0008009chemokine activity0.0326458682279682
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0326458682279682
GO:0042379chemokine receptor binding0.0326458682279682
GO:0048770pigment granule0.0340809899234666
GO:0042470melanosome0.0340809899234666
GO:0051247positive regulation of protein metabolic process0.0343622254130415
GO:0002521leukocyte differentiation0.0358243535923532
GO:0051258protein polymerization0.0378480464406347
GO:0042110T cell activation0.0378480464406347
GO:0001664G-protein-coupled receptor binding0.0395726775772995
GO:0051049regulation of transport0.0412468429366429
GO:0001816cytokine production0.0417694350402286
GO:0044267cellular protein metabolic process0.0484331498350187
GO:0044260cellular macromolecule metabolic process0.0495517687458814



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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