Coexpression cluster:C3833

Full id: C3833_Dendritic_lymph_dura_CD14_duodenum_vein_left

Phase1 CAGE Peaks

Hg19::chr19:7805780..7805799,-	p@chr19:7805780..7805799 -
Hg19::chr19:7807611..7807619,-	p1@AK057212
Hg19::chr19:7812412..7812426,-	p2@CD209

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:0046795	intracellular virion transport	0.0010891322265395
GO:0046794	virion transport	0.0010891322265395
GO:0046968	peptide antigen transport	0.0010891322265395
GO:0042607	exogenous peptide antigen binding	0.0010891322265395
GO:0019062	virion attachment to host cell surface receptor	0.0013069586718474
GO:0046790	virion binding	0.00140946523434524
GO:0007159	leukocyte adhesion	0.00140946523434524
GO:0044409	entry into host	0.00140946523434524
GO:0030260	entry into host cell	0.00140946523434524
GO:0046718	entry of virus into host cell	0.00140946523434524
GO:0007157	heterophilic cell adhesion	0.00140946523434524
GO:0052126	movement in host environment	0.00140946523434524
GO:0019048	virus-host interaction	0.00140946523434524
GO:0051828	entry into other organism during symbiotic interaction	0.00140946523434524
GO:0019059	initiation of viral infection	0.00140946523434524
GO:0051806	entry into cell of other organism during symbiotic interaction	0.00140946523434524
GO:0052192	movement in environment of other organism during symbiotic interaction	0.00140946523434524
GO:0005537	mannose binding	0.00145217630205267
GO:0009405	pathogenesis	0.00149039146789616
GO:0009988	cell-cell recognition	0.0015247851171553
GO:0048029	monosaccharide binding	0.00176335693820681
GO:0042605	peptide antigen binding	0.001782216370701
GO:0051701	interaction with host	0.00208355730294514
GO:0019079	viral genome replication	0.00263206954747047
GO:0044403	symbiosis, encompassing mutualism through parasitism	0.00268094086532801
GO:0044419	interspecies interaction between organisms	0.00268094086532801
GO:0008037	cell recognition	0.0030340112025029
GO:0015833	peptide transport	0.0030340112025029
GO:0019058	viral infectious cycle	0.0037556283673776
GO:0022415	viral reproductive process	0.00413870246085011
GO:0048002	antigen processing and presentation of peptide antigen	0.00737799250236437
GO:0003823	antigen binding	0.0120485252560932
GO:0010324	membrane invagination	0.012621120507546
GO:0006897	endocytosis	0.012621120507546
GO:0042277	peptide binding	0.0129451144640124
GO:0016044	membrane organization and biogenesis	0.0171840862409566
GO:0022414	reproductive process	0.0179559637348405
GO:0051704	multi-organism process	0.0188964441304604
GO:0016337	cell-cell adhesion	0.0188964441304604
GO:0005529	sugar binding	0.0188964441304604
GO:0019882	antigen processing and presentation	0.0220482865372631
GO:0030246	carbohydrate binding	0.0247907240136135
GO:0016192	vesicle-mediated transport	0.0306983315945553
GO:0046907	intracellular transport	0.0450504693704976
GO:0022610	biological adhesion	0.0454594320642575
GO:0007155	cell adhesion	0.0454594320642575

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
monopoietic cell	1.32e-08	63
monocyte	1.32e-08	63
monoblast	1.32e-08	63
promonocyte	1.32e-08	63
macrophage dendritic cell progenitor	3.80e-08	65
myeloid lineage restricted progenitor cell	8.52e-08	70
granulocyte monocyte progenitor cell	1.35e-07	71

Uber Anatomy

Ontology term	p-value	n
adult organism	1.77e-51	115
organ	6.41e-12	511
neural tube	1.13e-10	57
neural rod	1.13e-10	57
future spinal cord	1.13e-10	57
neural keel	1.13e-10	57
multi-cellular organism	8.72e-10	659
brainstem	9.94e-10	8
embryo	2.02e-09	612
anatomical system	3.77e-09	625
anatomical group	4.38e-09	626
neural plate	4.39e-09	86
presumptive neural plate	4.39e-09	86
embryonic structure	8.47e-09	605
developing anatomical structure	8.47e-09	605
germ layer	2.47e-08	604
embryonic tissue	2.47e-08	604
presumptive structure	2.47e-08	604
epiblast (generic)	2.47e-08	604
neurectoderm	2.53e-08	90
regional part of brain	2.76e-08	59
immune system	6.25e-07	115
posterior neural tube	7.25e-07	15
chordal neural plate	7.25e-07	15

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.