Coexpression cluster:C1308

Full id: C1308_CD14_CD4_Basophils_Peripheral_Neutrophils_Eosinophils_CD8

Phase1 CAGE Peaks

Hg19::chr10:23727926..23727957,+	p4@OTUD1
Hg19::chr10:23727989..23728040,+	p2@OTUD1
Hg19::chr10:23728041..23728084,+	p3@OTUD1
Hg19::chr15:63796779..63796863,+	p1@USP3
Hg19::chr15:63796867..63796887,+	p2@USP3
Hg19::chr15:63796904..63796916,+	p4@USP3

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:0004221	ubiquitin thiolesterase activity	0.0316849169904627
GO:0004843	ubiquitin-specific protease activity	0.0316849169904627
GO:0019783	small conjugating protein-specific protease activity	0.0316849169904627
GO:0016790	thiolester hydrolase activity	0.0316849169904627
GO:0006511	ubiquitin-dependent protein catabolic process	0.0316849169904627
GO:0043632	modification-dependent macromolecule catabolic process	0.0316849169904627
GO:0019941	modification-dependent protein catabolic process	0.0316849169904627
GO:0051603	proteolysis involved in cellular protein catabolic process	0.0316849169904627
GO:0044257	cellular protein catabolic process	0.0316849169904627
GO:0008234	cysteine-type peptidase activity	0.0316849169904627
GO:0030163	protein catabolic process	0.0342956231334896
GO:0043285	biopolymer catabolic process	0.0400918403391028
GO:0044265	cellular macromolecule catabolic process	0.0415552303577736
GO:0006512	ubiquitin cycle	0.0415552303577736
GO:0009057	macromolecule catabolic process	0.0441540091840339

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	1.10e-39	140
hematopoietic lineage restricted progenitor cell	3.21e-32	124
nongranular leukocyte	6.21e-32	119
myeloid leukocyte	2.55e-30	76
CD14-positive, CD16-negative classical monocyte	7.82e-27	42
granulocyte monocyte progenitor cell	1.15e-26	71
classical monocyte	5.60e-26	45
hematopoietic stem cell	2.85e-25	172
angioblastic mesenchymal cell	2.85e-25	172
macrophage dendritic cell progenitor	3.03e-25	65
myeloid lineage restricted progenitor cell	1.96e-24	70
monopoietic cell	2.39e-24	63
monocyte	2.39e-24	63
monoblast	2.39e-24	63
promonocyte	2.39e-24	63
hematopoietic oligopotent progenitor cell	2.46e-23	165
hematopoietic multipotent progenitor cell	2.46e-23	165
hematopoietic cell	2.72e-21	182
myeloid cell	1.31e-15	112
common myeloid progenitor	1.31e-15	112
mature alpha-beta T cell	7.56e-09	18
alpha-beta T cell	7.56e-09	18
immature T cell	7.56e-09	18
mature T cell	7.56e-09	18
immature alpha-beta T cell	7.56e-09	18
lymphoid lineage restricted progenitor cell	4.97e-08	52
lymphocyte	1.37e-07	53
common lymphoid progenitor	1.37e-07	53
intermediate monocyte	9.66e-07	9
CD14-positive, CD16-positive monocyte	9.66e-07	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	2.83e-25	102
blood island	2.83e-25	102
hemolymphoid system	1.49e-23	112
bone marrow	9.04e-21	80
bone element	3.92e-19	86
immune system	9.24e-16	115
skeletal element	3.85e-13	101
skeletal system	3.85e-13	101
adult organism	2.08e-07	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.