Coexpression cluster:C874

Full id: C874_Monocytederived_CD14_Mast_Lymphatic_Smooth_Neurons_Fibroblast

Phase1 CAGE Peaks

Hg19::chr10:64575696..64575711,-	p1@CU690136
Hg19::chr17:32583229..32583324,+	p2@CCL2
Hg19::chr17:32583293..32583323,-	p@chr17:32583293..32583323 -
Hg19::chr17:32583753..32583906,+	p@chr17:32583753..32583906 +
Hg19::chr17:32583823..32583891,-	p@chr17:32583823..32583891 -
Hg19::chr17:32584045..32584055,+	p@chr17:32584045..32584055 +
Hg19::chr17:32584062..32584073,+	p@chr17:32584062..32584073 +
Hg19::chr17:32584096..32584112,+	p@chr17:32584096..32584112 +
Hg19::chr8:15997784..15997797,-	p@chr8:15997784..15997797 -

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:0019079	viral genome replication	0.0261202502901549
GO:0007259	JAK-STAT cascade	0.0261202502901549
GO:0019058	viral infectious cycle	0.0261202502901549
GO:0022415	viral reproductive process	0.0261202502901549
GO:0006959	humoral immune response	0.0261202502901549
GO:0008009	chemokine activity	0.0261202502901549
GO:0042379	chemokine receptor binding	0.0261202502901549
GO:0001664	G-protein-coupled receptor binding	0.0261202502901549
GO:0055074	calcium ion homeostasis	0.0261202502901549
GO:0006874	cellular calcium ion homeostasis	0.0261202502901549
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0261202502901549
GO:0019935	cyclic-nucleotide-mediated signaling	0.0261202502901549
GO:0006875	cellular metal ion homeostasis	0.0261202502901549
GO:0055065	metal ion homeostasis	0.0261202502901549
GO:0042330	taxis	0.0267573295655245
GO:0006935	chemotaxis	0.0267573295655245
GO:0006916	anti-apoptosis	0.027100372252262
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.027100372252262
GO:0007626	locomotory behavior	0.027100372252262
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.027100372252262
GO:0030003	cellular cation homeostasis	0.027100372252262
GO:0055080	cation homeostasis	0.027100372252262
GO:0043066	negative regulation of apoptosis	0.027100372252262
GO:0043069	negative regulation of programmed cell death	0.027100372252262
GO:0055082	cellular chemical homeostasis	0.027100372252262
GO:0006873	cellular ion homeostasis	0.027100372252262
GO:0050801	ion homeostasis	0.0279285258091334
GO:0019932	second-messenger-mediated signaling	0.0279285258091334
GO:0006954	inflammatory response	0.0279285258091334
GO:0007610	behavior	0.0279285258091334
GO:0048878	chemical homeostasis	0.0279285258091334
GO:0022414	reproductive process	0.0279285258091334
GO:0005125	cytokine activity	0.0279285258091334
GO:0009887	organ morphogenesis	0.0310517157920902
GO:0019725	cellular homeostasis	0.0310517157920902
GO:0007243	protein kinase cascade	0.0310517157920902
GO:0009611	response to wounding	0.0339890402589095
GO:0042592	homeostatic process	0.0375541467586309
GO:0005615	extracellular space	0.0402503419105326
GO:0042981	regulation of apoptosis	0.0407236876333177
GO:0043067	regulation of programmed cell death	0.0407236876333177
GO:0006952	defense response	0.0407236876333177
GO:0042221	response to chemical stimulus	0.0407236876333177
GO:0009605	response to external stimulus	0.0422831874615696
GO:0007267	cell-cell signaling	0.0422831874615696

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
defensive cell	1.06e-32	48
phagocyte	1.06e-32	48
monopoietic cell	2.69e-25	59
monocyte	2.69e-25	59
monoblast	2.69e-25	59
promonocyte	2.69e-25	59
classical monocyte	2.53e-24	42
CD14-positive, CD16-negative classical monocyte	2.53e-24	42
macrophage dendritic cell progenitor	4.19e-24	61
myeloid lineage restricted progenitor cell	1.91e-21	66
granulocyte monocyte progenitor cell	5.82e-21	67
myeloid leukocyte	9.39e-19	72
stuff accumulating cell	4.30e-14	87
multi fate stem cell	3.53e-12	427
vascular associated smooth muscle cell	3.65e-12	32
somatic stem cell	1.17e-11	433
macrophage	3.54e-11	6
stem cell	5.42e-11	441
smooth muscle cell	7.28e-10	43
smooth muscle myoblast	7.28e-10	43
myeloid cell	7.78e-10	108
common myeloid progenitor	7.78e-10	108
electrically responsive cell	1.69e-09	61
electrically active cell	1.69e-09	61
nongranular leukocyte	1.27e-08	115
muscle precursor cell	3.65e-08	58
myoblast	3.65e-08	58
multi-potent skeletal muscle stem cell	3.65e-08	58
muscle cell	4.40e-08	55
hematopoietic lineage restricted progenitor cell	6.99e-08	120
cardiocyte	1.26e-07	16
aortic smooth muscle cell	1.88e-07	10
contractile cell	3.71e-07	59

Uber Anatomy

Ontology term	p-value	n
lateral plate mesoderm	1.50e-21	203
musculoskeletal system	3.90e-20	167
mesoderm	3.87e-18	315
mesoderm-derived structure	3.87e-18	315
presumptive mesoderm	3.87e-18	315
immune system	1.84e-17	93
bone marrow	3.33e-17	76
bone element	3.54e-15	82
hemolymphoid system	2.12e-13	108
skeletal system	3.94e-13	100
splanchnic layer of lateral plate mesoderm	4.69e-13	83
skeletal element	6.43e-13	90
systemic artery	6.61e-13	33
systemic arterial system	6.61e-13	33
artery	9.21e-13	42
arterial blood vessel	9.21e-13	42
arterial system	9.21e-13	42
vessel	4.52e-12	68
hematopoietic system	8.63e-12	98
blood island	8.63e-12	98
cardiovascular system	2.54e-10	109
vasculature	2.58e-10	78
vascular system	2.58e-10	78
epithelial tube open at both ends	3.25e-10	59
blood vessel	3.25e-10	59
blood vasculature	3.25e-10	59
vascular cord	3.25e-10	59
circulatory system	8.92e-10	112
epithelial tube	6.08e-08	117
germ layer	1.85e-07	560
germ layer / neural crest	1.85e-07	560
embryonic tissue	1.85e-07	560
presumptive structure	1.85e-07	560
germ layer / neural crest derived structure	1.85e-07	560
epiblast (generic)	1.85e-07	560
blood vessel smooth muscle	1.88e-07	10
arterial system smooth muscle	1.88e-07	10
artery smooth muscle tissue	1.88e-07	10
aorta smooth muscle tissue	1.88e-07	10
skeletal muscle tissue	2.91e-07	62
striated muscle tissue	2.91e-07	62
myotome	2.91e-07	62
embryonic structure	3.19e-07	564
anatomical system	6.25e-07	624
anatomical group	7.11e-07	625
muscle tissue	7.38e-07	64
musculature	7.38e-07	64
musculature of body	7.38e-07	64

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)
{{{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

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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.