Coexpression cluster:C3073

Full id: C3073_Eosinophils_Neutrophils_granulocyte_cerebellum_CD14_parietal_vagina

Phase1 CAGE Peaks

Hg19::chr11:10315741..10315773,-	p1@SBF2
Hg19::chr12:116715460..116715476,-	p4@MED13L
Hg19::chr12:116715483..116715524,-	p1@MED13L

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:0051262	protein tetramerization	0.0255556082703558
GO:0046839	phospholipid dephosphorylation	0.0255556082703558
GO:0019902	phosphatase binding	0.0255556082703558
GO:0000119	mediator complex	0.0255556082703558
GO:0042552	myelination	0.0255556082703558
GO:0007272	ensheathment of neurons	0.0255556082703558
GO:0008366	axon ensheathment	0.0255556082703558
GO:0001508	regulation of action potential	0.0275084560595357
GO:0030258	lipid modification	0.0275084560595357
GO:0004437	inositol or phosphatidylinositol phosphatase activity	0.0275084560595357
GO:0051259	protein oligomerization	0.0275084560595357
GO:0005774	vacuolar membrane	0.0275084560595357
GO:0044437	vacuolar part	0.0275084560595357
GO:0019208	phosphatase regulator activity	0.0327190157182835
GO:0016591	DNA-directed RNA polymerase II, holoenzyme	0.0428065030946804

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
CD14-positive, CD16-negative classical monocyte	9.69e-22	42
classical monocyte	4.01e-19	45
myeloid leukocyte	1.62e-16	76
macrophage dendritic cell progenitor	6.63e-15	65
monopoietic cell	3.89e-14	63
monocyte	3.89e-14	63
monoblast	3.89e-14	63
promonocyte	3.89e-14	63
granulocyte monocyte progenitor cell	7.87e-14	71
myeloid lineage restricted progenitor cell	1.74e-11	70
myeloid cell	9.59e-07	112
common myeloid progenitor	9.59e-07	112

Uber Anatomy

Ontology term	p-value	n
adult organism	5.01e-29	115
hematopoietic system	1.07e-13	102
blood island	1.07e-13	102
neural tube	1.13e-13	57
neural rod	1.13e-13	57
future spinal cord	1.13e-13	57
neural keel	1.13e-13	57
regional part of brain	3.79e-13	59
central nervous system	1.63e-12	82
brain	1.73e-12	69
future brain	1.73e-12	69
hemolymphoid system	3.95e-12	112
organ	4.62e-12	511
anterior neural tube	6.74e-12	42
regional part of nervous system	8.83e-12	94
nervous system	8.83e-12	94
bone marrow	1.21e-11	80
bone element	1.55e-11	86
skeletal element	1.85e-11	101
skeletal system	1.85e-11	101
regional part of forebrain	2.24e-11	41
forebrain	2.24e-11	41
future forebrain	2.24e-11	41
telencephalon	1.89e-09	34
multi-cellular organism	2.29e-09	659
regional part of telencephalon	3.55e-09	33
gray matter	3.79e-09	34
brain grey matter	3.79e-09	34
anterior region of body	4.81e-09	129
craniocervical region	4.81e-09	129
anatomical system	5.74e-09	625
anatomical group	7.71e-09	626
cerebral hemisphere	7.72e-09	32
head	1.03e-08	123
neural plate	1.26e-08	86
presumptive neural plate	1.26e-08	86
ectoderm	1.32e-08	173
presumptive ectoderm	1.32e-08	173
neurectoderm	1.43e-08	90
ectoderm-derived structure	1.47e-08	169
immune system	2.30e-07	115
cerebral cortex	5.92e-07	25
pallium	5.92e-07	25
regional part of cerebral cortex	7.41e-07	22

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.