Coexpression cluster:C2428

Full id: C2428_Mast_CD14_Eosinophils_immature_CD19_CD4_CD8

Phase1 CAGE Peaks

Hg19::chr17:62502942..62502965,-	p6@DDX5
Hg19::chr2:157189180..157189290,-	p1@NR4A2
Hg19::chr2:157189298..157189305,-	p23@NR4A2
Hg19::chr9:102584128..102584144,+	p3@NR4A3

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0003707	steroid hormone receptor activity	0.00364664345425225
GO:0004879	ligand-dependent nuclear receptor activity	0.00364664345425225
GO:0042053	regulation of dopamine metabolic process	0.0106843266182394
GO:0042069	regulation of catecholamine metabolic process	0.0106843266182394
GO:0004887	thyroid hormone receptor activity	0.0195838960000424
GO:0042417	dopamine metabolic process	0.0195838960000424
GO:0016070	RNA metabolic process	0.0284680595302614
GO:0043565	sequence-specific DNA binding	0.0284680595302614
GO:0006584	catecholamine metabolic process	0.0284680595302614
GO:0018958	phenol metabolic process	0.0284680595302614
GO:0003724	RNA helicase activity	0.0284680595302614
GO:0042133	neurotransmitter metabolic process	0.0284680595302614
GO:0010467	gene expression	0.038496700016013
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0428660141712666
GO:0003700	transcription factor activity	0.0428660141712666
GO:0005634	nucleus	0.0428660141712666
GO:0006576	biogenic amine metabolic process	0.0437664922796501
GO:0003676	nucleic acid binding	0.0437664922796501
GO:0001505	regulation of neurotransmitter levels	0.0437664922796501
GO:0065007	biological regulation	0.0456741439377732
GO:0006575	amino acid derivative metabolic process	0.0456741439377732

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><br>

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Cell Type

Ontology term	p-value	n
leukocyte	1.31e-24	140
myeloid leukocyte	1.68e-24	76
CD14-positive, CD16-negative classical monocyte	5.32e-24	42
classical monocyte	8.43e-24	45
granulocyte monocyte progenitor cell	1.66e-21	71
macrophage dendritic cell progenitor	5.36e-19	65
myeloid lineage restricted progenitor cell	8.97e-19	70
hematopoietic stem cell	1.22e-18	172
angioblastic mesenchymal cell	1.22e-18	172
monopoietic cell	8.49e-18	63
monocyte	8.49e-18	63
monoblast	8.49e-18	63
promonocyte	8.49e-18	63
myeloid cell	2.41e-17	112
common myeloid progenitor	2.41e-17	112
hematopoietic lineage restricted progenitor cell	2.67e-17	124
hematopoietic oligopotent progenitor cell	1.31e-16	165
hematopoietic multipotent progenitor cell	1.31e-16	165
nongranular leukocyte	3.70e-16	119
hematopoietic cell	7.96e-16	182

Uber Anatomy

Ontology term	p-value	n
bone marrow	2.51e-18	80
bone element	1.06e-17	86
hematopoietic system	1.36e-17	102
blood island	1.36e-17	102
skeletal element	7.35e-15	101
skeletal system	7.35e-15	101
hemolymphoid system	4.23e-13	112
adult organism	1.08e-11	115
immune system	1.24e-09	115

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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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

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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

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This analysis result is provided for C0 - C305 clusters.