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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C898_CD14_Mast_Basophils_Natural_CD19_immature_CD8
|full_id=C898_CD14_Mast_Basophils_Natural_CD19_immature_CD8
|gostat_on_coexpression_clusters=GO:0042053!regulation of dopamine metabolic process!0.0100078001646933!4929$GO:0042069!regulation of catecholamine metabolic process!0.0100078001646933!4929$GO:0042417!dopamine metabolic process!0.0183457432124587!4929$GO:0006584!catecholamine metabolic process!0.0266764682822135!4929$GO:0018958!phenol metabolic process!0.0266764682822135!4929$GO:0042133!neurotransmitter metabolic process!0.0266764682822135!4929$GO:0006576!biogenic amine metabolic process!0.0450359718763971!4929$GO:0001505!regulation of neurotransmitter levels!0.0450359718763971!4929$GO:0006575!amino acid derivative metabolic process!0.0450359718763971!4929$GO:0003707!steroid hormone receptor activity!0.0450359718763971!4929$GO:0045944!positive regulation of transcription from RNA polymerase II promoter!0.0450359718763971!4929$GO:0004879!ligand-dependent nuclear receptor activity!0.0450359718763971!4929$GO:0006355!regulation of transcription, DNA-dependent!0.0450359718763971!65986;4929$GO:0006351!transcription, DNA-dependent!0.0450359718763971!65986;4929$GO:0032774!RNA biosynthetic process!0.0450359718763971!65986;4929$GO:0003677!DNA binding!0.0450359718763971!65986;4929$GO:0006725!aromatic compound metabolic process!0.0450359718763971!4929$GO:0045449!regulation of transcription!0.0450359718763971!65986;4929$GO:0019219!regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0450359718763971!65986;4929$GO:0030182!neuron differentiation!0.0450359718763971!4929$GO:0006350!transcription!0.0450359718763971!65986;4929$GO:0010468!regulation of gene expression!0.0450359718763971!65986;4929$GO:0045893!positive regulation of transcription, DNA-dependent!0.0450359718763971!4929$GO:0031323!regulation of cellular metabolic process!0.0450359718763971!65986;4929$GO:0048699!generation of neurons!0.0450359718763971!4929$GO:0019222!regulation of metabolic process!0.0450359718763971!65986;4929$GO:0016070!RNA metabolic process!0.0450359718763971!65986;4929$GO:0008270!zinc ion binding!0.0450359718763971!65986;4929$GO:0022008!neurogenesis!0.0450359718763971!4929$GO:0045941!positive regulation of transcription!0.0451569455497714!4929$GO:0045935!positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process!0.0451569455497714!4929$GO:0007268!synaptic transmission!0.0451569455497714!4929$GO:0019226!transmission of nerve impulse!0.049798892575355!4929
|id=C898
|id=C898
}}
}}

Revision as of 17:42, 18 May 2012


Full id: C898_CD14_Mast_Basophils_Natural_CD19_immature_CD8



Phase1 CAGE Peaks

Hg19::chr12:7052974..7052985,+p1@RNU7-1
p4@C12orf57
Hg19::chr14:35343199..35343210,-p@chr14:35343199..35343210
-
Hg19::chr17:56736656..56736674,-p1@ENST00000365207
Hg19::chr19:49382363..49382367,+p@chr19:49382363..49382367
+
Hg19::chr19:49383883..49383887,+p@chr19:49383883..49383887
+
Hg19::chr2:157189617..157189667,-p4@NR4A2
Hg19::chr2:224702739..224702758,+p@chr2:224702739..224702758
+
Hg19::chr8:81397820..81397836,+p2@ZBTB10
Hg19::chrX:139014487..139014499,+p@chrX:139014487..139014499
+


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:0042053regulation of dopamine metabolic process0.0100078001646933
GO:0042069regulation of catecholamine metabolic process0.0100078001646933
GO:0042417dopamine metabolic process0.0183457432124587
GO:0006584catecholamine metabolic process0.0266764682822135
GO:0018958phenol metabolic process0.0266764682822135
GO:0042133neurotransmitter metabolic process0.0266764682822135
GO:0006576biogenic amine metabolic process0.0450359718763971
GO:0001505regulation of neurotransmitter levels0.0450359718763971
GO:0006575amino acid derivative metabolic process0.0450359718763971
GO:0003707steroid hormone receptor activity0.0450359718763971
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.0450359718763971
GO:0004879ligand-dependent nuclear receptor activity0.0450359718763971
GO:0006355regulation of transcription, DNA-dependent0.0450359718763971
GO:0006351transcription, DNA-dependent0.0450359718763971
GO:0032774RNA biosynthetic process0.0450359718763971
GO:0003677DNA binding0.0450359718763971
GO:0006725aromatic compound metabolic process0.0450359718763971
GO:0045449regulation of transcription0.0450359718763971
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0450359718763971
GO:0030182neuron differentiation0.0450359718763971
GO:0006350transcription0.0450359718763971
GO:0010468regulation of gene expression0.0450359718763971
GO:0045893positive regulation of transcription, DNA-dependent0.0450359718763971
GO:0031323regulation of cellular metabolic process0.0450359718763971
GO:0048699generation of neurons0.0450359718763971
GO:0019222regulation of metabolic process0.0450359718763971
GO:0016070RNA metabolic process0.0450359718763971
GO:0008270zinc ion binding0.0450359718763971
GO:0022008neurogenesis0.0450359718763971
GO:0045941positive regulation of transcription0.0451569455497714
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0451569455497714
GO:0007268synaptic transmission0.0451569455497714
GO:0019226transmission of nerve impulse0.049798892575355



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.