Coexpression cluster:C1631

Full id: C1631_Monocytederived_Melanocyte_CD14_Macrophage_Mast_Mesenchymal_Fibroblast

Phase1 CAGE Peaks

Hg19::chr11:2920913..2920942,+	p4@SLC22A18
Hg19::chr11:844067..844158,+	p2@TSPAN4
Hg19::chr15:72668805..72668860,-	p4@HEXA
Hg19::chr18:74845649..74845670,-	p10@MBP
Hg19::chr18:74845672..74845681,-	p42@MBP

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:0007272	ensheathment of neurons	0.000345141160614551
GO:0008366	axon ensheathment	0.000345141160614551
GO:0001508	regulation of action potential	0.000361727870421891
GO:0043209	myelin sheath	0.00716883192883501
GO:0003008	system process	0.00716883192883501
GO:0050884	neuromuscular process controlling posture	0.00716883192883501
GO:0004563	beta-N-acetylhexosaminidase activity	0.00716883192883501
GO:0006689	ganglioside catabolic process	0.00716883192883501
GO:0019226	transmission of nerve impulse	0.00716883192883501
GO:0046479	glycosphingolipid catabolic process	0.00716883192883501
GO:0019377	glycolipid catabolic process	0.00716883192883501
GO:0019915	sequestering of lipid	0.00716883192883501
GO:0001573	ganglioside metabolic process	0.00716883192883501
GO:0007628	adult walking behavior	0.00716883192883501
GO:0015904	tetracycline transport	0.00716883192883501
GO:0015520	tetracycline:hydrogen antiporter activity	0.00716883192883501
GO:0015307	drug:hydrogen antiporter activity	0.00716883192883501
GO:0044459	plasma membrane part	0.00716883192883501
GO:0015101	organic cation transmembrane transporter activity	0.00716883192883501
GO:0042895	antibiotic transporter activity	0.00716883192883501
GO:0046677	response to antibiotic	0.00716883192883501
GO:0008493	tetracycline transporter activity	0.00716883192883501
GO:0019911	structural constituent of myelin sheath	0.00754252487059236
GO:0008344	adult locomotory behavior	0.00919837608377269
GO:0030149	sphingolipid catabolic process	0.00946076904077037
GO:0015929	hexosaminidase activity	0.00978570597354006
GO:0015893	drug transport	0.00978570597354006
GO:0007267	cell-cell signaling	0.00978570597354006
GO:0050885	neuromuscular process controlling balance	0.00978570597354006
GO:0006687	glycosphingolipid metabolic process	0.00998460349909566
GO:0007040	lysosome organization and biogenesis	0.0101706240274497
GO:0007399	nervous system development	0.0101996367455477
GO:0007033	vacuole organization and biogenesis	0.0101996367455477
GO:0015238	drug transporter activity	0.0101996367455477
GO:0050905	neuromuscular process	0.0103581346894914
GO:0046466	membrane lipid catabolic process	0.0105077885383775
GO:0042552	myelination	0.0109104886857533
GO:0015299	solute:hydrogen antiporter activity	0.0109104886857533
GO:0030534	adult behavior	0.0109104886857533
GO:0006664	glycolipid metabolic process	0.0114246970871211
GO:0006672	ceramide metabolic process	0.0122974558044596
GO:0046519	sphingoid metabolic process	0.0131283565550644
GO:0065008	regulation of biological quality	0.0141560905259556
GO:0007588	excretion	0.0150332874311201
GO:0005886	plasma membrane	0.0151829793304564
GO:0032501	multicellular organismal process	0.0151829793304564
GO:0015298	solute:cation antiporter activity	0.0154113469493529
GO:0044242	cellular lipid catabolic process	0.0157428993076182
GO:0030203	glycosaminoglycan metabolic process	0.0157428993076182
GO:0006022	aminoglycan metabolic process	0.0157428993076182
GO:0015300	solute:solute antiporter activity	0.0157428993076182
GO:0016020	membrane	0.0174546116642479
GO:0042493	response to drug	0.0187033419075893
GO:0050877	neurological system process	0.0191020292066077
GO:0016324	apical plasma membrane	0.0191020292066077
GO:0006665	sphingolipid metabolic process	0.0191020292066077
GO:0045177	apical part of cell	0.0237157522220542
GO:0015297	antiporter activity	0.0246564633342525
GO:0046982	protein heterodimerization activity	0.0279502739579866
GO:0048731	system development	0.028044494614052
GO:0050954	sensory perception of mechanical stimulus	0.0333974226952198
GO:0007605	sensory perception of sound	0.0333974226952198
GO:0016042	lipid catabolic process	0.0363307499073583
GO:0048856	anatomical structure development	0.0403753673555447
GO:0007626	locomotory behavior	0.0435868571927119
GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	0.045042994673342
GO:0005764	lysosome	0.0464547052074452
GO:0000323	lytic vacuole	0.0464547052074452
GO:0001501	skeletal development	0.0473532810576143
GO:0007275	multicellular organismal development	0.0479593152336682
GO:0016798	hydrolase activity, acting on glycosyl bonds	0.0484179111847522

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
granulocyte monocyte progenitor cell	1.67e-55	67
myeloid lineage restricted progenitor cell	9.80e-55	66
monopoietic cell	3.02e-52	59
monocyte	3.02e-52	59
monoblast	3.02e-52	59
promonocyte	3.02e-52	59
myeloid leukocyte	1.74e-51	72
macrophage dendritic cell progenitor	8.89e-50	61
defensive cell	3.35e-43	48
phagocyte	3.35e-43	48
myeloid cell	5.36e-42	108
common myeloid progenitor	5.36e-42	108
stuff accumulating cell	4.05e-38	87
classical monocyte	3.96e-36	42
CD14-positive, CD16-negative classical monocyte	3.96e-36	42
hematopoietic stem cell	1.84e-22	168
angioblastic mesenchymal cell	1.84e-22	168
hematopoietic lineage restricted progenitor cell	3.79e-21	120
leukocyte	9.36e-21	136
hematopoietic oligopotent progenitor cell	1.26e-20	161
hematopoietic multipotent progenitor cell	1.26e-20	161
nongranular leukocyte	1.90e-20	115
hematopoietic cell	6.33e-20	177
motile cell	1.04e-10	386
mesenchymal cell	1.59e-10	354
connective tissue cell	9.91e-10	361
macrophage	1.70e-08	6

Uber Anatomy

Ontology term	p-value	n
bone marrow	6.18e-51	76
hematopoietic system	4.90e-47	98
blood island	4.90e-47	98
immune system	3.58e-46	93
bone element	2.68e-45	82
hemolymphoid system	1.05e-43	108
skeletal element	5.52e-39	90
skeletal system	1.14e-34	100
lateral plate mesoderm	1.56e-23	203
musculoskeletal system	9.14e-18	167
mesoderm	4.87e-16	315
mesoderm-derived structure	4.87e-16	315
presumptive mesoderm	4.87e-16	315
connective tissue	1.49e-09	371

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
REST#5978	3	5.79001722967681	0.00946878869443394	0.0356878680064232

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.