Coexpression cluster:C1903

Full id: C1903_Neutrophils_Melanocyte_melanoma_large_Eosinophils_Dendritic_smallcell

Phase1 CAGE Peaks

Hg19::chr2:37571765..37571779,+	p3@QPCT
Hg19::chr2:37571802..37571814,+	p4@QPCT
Hg19::chr2:37571815..37571841,+	p2@QPCT
Hg19::chr2:37571845..37571874,+	p1@QPCT
Hg19::chr8:41435743..41435781,+	p2@AGPAT6

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:0008415	acyltransferase activity	0.000608344126535578
GO:0016747	transferase activity, transferring groups other than amino-acyl groups	0.000608344126535578
GO:0002065	columnar/cuboidal epithelial cell differentiation	0.000608344126535578
GO:0002071	glandular epithelial cell maturation	0.000608344126535578
GO:0016603	glutaminyl-peptide cyclotransferase activity	0.000608344126535578
GO:0002069	columnar/cuboidal epithelial cell maturation	0.000608344126535578
GO:0002068	glandular epithelial cell development	0.000608344126535578
GO:0002067	glandular epithelial cell differentiation	0.000608344126535578
GO:0002066	columnar/cuboidal epithelial cell development	0.000608344126535578
GO:0016746	transferase activity, transferring acyl groups	0.000703667072152397
GO:0019432	triacylglycerol biosynthetic process	0.00182495179473819
GO:0002070	epithelial cell maturation	0.00182495179473819
GO:0002064	epithelial cell development	0.00210568261513309
GO:0046460	neutral lipid biosynthetic process	0.00239514346295391
GO:0046339	diacylglycerol metabolic process	0.00239514346295391
GO:0046463	acylglycerol biosynthetic process	0.00239514346295391
GO:0046504	glycerol ether biosynthetic process	0.00243312579766239
GO:0045017	glycerolipid biosynthetic process	0.00243312579766239
GO:0003841	1-acylglycerol-3-phosphate O-acyltransferase activity	0.00288124835526489
GO:0030879	mammary gland development	0.00383183467487036
GO:0016411	acylglycerol O-acyltransferase activity	0.004170581612032
GO:0006641	triacylglycerol metabolic process	0.00447850406949948
GO:0007595	lactation	0.00469135173158027
GO:0040014	regulation of multicellular organism growth	0.00469135173158027
GO:0006638	neutral lipid metabolic process	0.00469135173158027
GO:0006639	acylglycerol metabolic process	0.00469135173158027
GO:0035264	multicellular organism growth	0.00469135173158027
GO:0046486	glycerolipid metabolic process	0.00469135173158027
GO:0006662	glycerol ether metabolic process	0.0047182440534268
GO:0008374	O-acyltransferase activity	0.00635490193752125
GO:0030855	epithelial cell differentiation	0.00635490193752125
GO:0016755	transferase activity, transferring amino-acyl groups	0.00701083823460036
GO:0048469	cell maturation	0.00740257816787757
GO:0048732	gland development	0.00740257816787757
GO:0021700	developmental maturation	0.00828451589885018
GO:0048609	reproductive process in a multicellular organism	0.00901854013105816
GO:0032504	multicellular organism reproduction	0.00901854013105816
GO:0002009	morphogenesis of an epithelium	0.00906885145392443
GO:0016740	transferase activity	0.0220472389811176
GO:0006631	fatty acid metabolic process	0.0260704782158773
GO:0040008	regulation of growth	0.0267623173948116
GO:0032787	monocarboxylic acid metabolic process	0.0372556740871745
GO:0022414	reproductive process	0.0386612278681044
GO:0008610	lipid biosynthetic process	0.0412340501477284

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
myeloid leukocyte	3.83e-17	72
defensive cell	7.20e-17	48
phagocyte	7.20e-17	48
stuff accumulating cell	4.51e-16	87
monopoietic cell	7.27e-16	59
monocyte	7.27e-16	59
monoblast	7.27e-16	59
promonocyte	7.27e-16	59
classical monocyte	1.26e-15	42
CD14-positive, CD16-negative classical monocyte	1.26e-15	42
macrophage dendritic cell progenitor	2.09e-15	61
granulocyte monocyte progenitor cell	2.20e-12	67
myeloid lineage restricted progenitor cell	2.80e-12	66

Uber Anatomy

Ontology term	p-value	n
anatomical system	5.12e-16	624
anatomical group	9.47e-16	625
multi-cellular organism	5.06e-15	656
mesoderm	4.90e-13	315
mesoderm-derived structure	4.90e-13	315
presumptive mesoderm	4.90e-13	315
lateral plate mesoderm	8.95e-13	203
hematopoietic system	8.96e-11	98
blood island	8.96e-11	98
bone element	1.10e-10	82
embryo	1.19e-10	592
bone marrow	2.32e-10	76
hemolymphoid system	1.54e-09	108
developing anatomical structure	1.56e-09	581
musculoskeletal system	5.21e-09	167
skeletal element	9.56e-09	90
skeletal system	1.33e-08	100
embryonic structure	3.93e-08	564
germ layer	1.31e-07	560
germ layer / neural crest	1.31e-07	560
embryonic tissue	1.31e-07	560
presumptive structure	1.31e-07	560
germ layer / neural crest derived structure	1.31e-07	560
epiblast (generic)	1.31e-07	560
immune system	1.40e-07	93

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
USF1#7391	5	6.36149927720796	9.59569864925045e-05	0.00136982664192054

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.