Coexpression cluster:C775

Full id: C775_hepatic_Preadipocyte_Mallassezderived_mesenchymal_Smooth_spindle_pagetoid

Phase1 CAGE Peaks

Hg19::chr7:41726036..41726056,-	p@chr7:41726036..41726056 -
Hg19::chr7:41726322..41726338,-	p1@AK001903
Hg19::chr7:41727482..41727524,-	p@chr7:41727482..41727524 -
Hg19::chr7:41728018..41728036,-	p@chr7:41728018..41728036 -
Hg19::chr7:41728212..41728233,-	p@chr7:41728212..41728233 -
Hg19::chr7:41728926..41728940,-	p@chr7:41728926..41728940 -
Hg19::chr7:41729199..41729236,-	p@chr7:41729199..41729236 -
Hg19::chr7:41729382..41729394,-	p11@INHBA
Hg19::chr7:41729687..41729699,-	p15@INHBA
Hg19::chr7:41742660..41742695,-	p1@INHBA
Hg19::chr7:41742697..41742714,-	p2@INHBA

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0048180	activin complex	0.00126574826327564
GO:0043509	activin A complex	0.00126574826327564
GO:0043511	inhibin complex	0.00126574826327564
GO:0043512	inhibin A complex	0.00126574826327564
GO:0045077	negative regulation of interferon-gamma biosynthetic process	0.00126574826327564
GO:0045650	negative regulation of macrophage differentiation	0.00126574826327564
GO:0032278	positive regulation of gonadotropin secretion	0.00126574826327564
GO:0046881	positive regulation of follicle-stimulating hormone secretion	0.00126574826327564
GO:0045578	negative regulation of B cell differentiation	0.00126574826327564
GO:0032276	regulation of gonadotropin secretion	0.00126574826327564
GO:0046880	regulation of follicle-stimulating hormone secretion	0.00126574826327564
GO:0046887	positive regulation of hormone secretion	0.00126574826327564
GO:0048184	follistatin binding	0.00126574826327564
GO:0046882	negative regulation of follicle-stimulating hormone secretion	0.00126574826327564
GO:0042541	hemoglobin biosynthetic process	0.00126574826327564
GO:0045620	negative regulation of lymphocyte differentiation	0.00126574826327564
GO:0032277	negative regulation of gonadotropin secretion	0.00126574826327564
GO:0017106	activin inhibitor activity	0.00126574826327564
GO:0045649	regulation of macrophage differentiation	0.00126574826327564
GO:0032925	regulation of activin receptor signaling pathway	0.00126574826327564
GO:0032274	gonadotropin secretion	0.00126574826327564
GO:0020027	hemoglobin metabolic process	0.00126574826327564
GO:0032924	activin receptor signaling pathway	0.00126574826327564
GO:0046884	follicle-stimulating hormone secretion	0.00126574826327564
GO:0045648	positive regulation of erythrocyte differentiation	0.00126574826327564
GO:0050869	negative regulation of B cell activation	0.00146047876531804
GO:0045577	regulation of B cell differentiation	0.00187518261226021
GO:0002762	negative regulation of myeloid leukocyte differentiation	0.00203423828026442
GO:0030225	macrophage differentiation	0.002175504827505
GO:0005160	transforming growth factor beta receptor binding	0.002175504827505
GO:0046888	negative regulation of hormone secretion	0.002175504827505
GO:0045646	regulation of erythrocyte differentiation	0.002175504827505
GO:0045072	regulation of interferon-gamma biosynthetic process	0.00222361181386261
GO:0042326	negative regulation of phosphorylation	0.00222361181386261
GO:0045639	positive regulation of myeloid cell differentiation	0.00222361181386261
GO:0042095	interferon-gamma biosynthetic process	0.00222361181386261
GO:0045936	negative regulation of phosphate metabolic process	0.00222361181386261
GO:0002761	regulation of myeloid leukocyte differentiation	0.00249818736172823
GO:0045619	regulation of lymphocyte differentiation	0.00253149652655128
GO:0042036	negative regulation of cytokine biosynthetic process	0.00253149652655128
GO:0051048	negative regulation of secretion	0.00258903053851835
GO:0001541	ovarian follicle development	0.00258903053851835
GO:0032609	interferon-gamma production	0.00258903053851835
GO:0045638	negative regulation of myeloid cell differentiation	0.00258903053851835
GO:0046883	regulation of hormone secretion	0.00261404532633012
GO:0051250	negative regulation of lymphocyte activation	0.00261404532633012
GO:0051047	positive regulation of secretion	0.002827735481786
GO:0022601	menstrual cycle phase	0.00316437065818909
GO:0022602	menstrual cycle process	0.0031643706581891
GO:0050864	regulation of B cell activation	0.0031643706581891
GO:0008585	female gonad development	0.00335051010867081
GO:0030183	B cell differentiation	0.00339876848472162
GO:0046545	development of primary female sexual characteristics	0.00339876848472162
GO:0046660	female sex differentiation	0.00339876848472162
GO:0002573	myeloid leukocyte differentiation	0.00345204071802447
GO:0030218	erythrocyte differentiation	0.00358628674594764
GO:0042698	menstrual cycle	0.00358628674594764
GO:0045637	regulation of myeloid cell differentiation	0.00358628674594764
GO:0000082	G1/S transition of mitotic cell cycle	0.00358628674594764
GO:0046879	hormone secretion	0.00358628674594764
GO:0017148	negative regulation of translation	0.00425374416346731
GO:0031327	negative regulation of cellular biosynthetic process	0.00459344127801643
GO:0045597	positive regulation of cell differentiation	0.00472144193444087
GO:0009890	negative regulation of biosynthetic process	0.00498628103714645
GO:0008406	gonad development	0.00498628103714645
GO:0048608	reproductive structure development	0.00498628103714645
GO:0030308	negative regulation of cell growth	0.00500631775773201
GO:0045792	negative regulation of cell size	0.00502576516300621
GO:0051046	regulation of secretion	0.00514737627065426
GO:0045137	development of primary sexual characteristics	0.00514737627065426
GO:0042035	regulation of cytokine biosynthetic process	0.00514737627065426
GO:0048609	reproductive process in a multicellular organism	0.00514737627065426
GO:0032504	multicellular organism reproduction	0.00514737627065426
GO:0042113	B cell activation	0.00514737627065426
GO:0045926	negative regulation of growth	0.00514737627065426
GO:0042325	regulation of phosphorylation	0.00526025252270395
GO:0030098	lymphocyte differentiation	0.00526025252270395
GO:0045596	negative regulation of cell differentiation	0.00526124278108549
GO:0042089	cytokine biosynthetic process	0.00526124278108549
GO:0042107	cytokine metabolic process	0.00526124278108549
GO:0051094	positive regulation of developmental process	0.00526124278108549
GO:0051174	regulation of phosphorus metabolic process	0.00526124278108549
GO:0019220	regulation of phosphate metabolic process	0.00526124278108549
GO:0003001	generation of a signal involved in cell-cell signaling	0.00527395109698183
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.00553764865183092
GO:0051249	regulation of lymphocyte activation	0.00553764865183092
GO:0030099	myeloid cell differentiation	0.00553764865183092
GO:0051093	negative regulation of developmental process	0.00553764865183092
GO:0050865	regulation of cell activation	0.00568875623944107
GO:0007548	sex differentiation	0.00569586718474037
GO:0051329	interphase of mitotic cell cycle	0.00591146166914447
GO:0003006	reproductive developmental process	0.00598478798396633
GO:0002521	leukocyte differentiation	0.00605943317525571
GO:0051325	interphase	0.00605943317525571
GO:0007050	cell cycle arrest	0.00672845129425471
GO:0051248	negative regulation of protein metabolic process	0.00685613642607637
GO:0001816	cytokine production	0.0073726574098014
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.00897648003037315
GO:0045595	regulation of cell differentiation	0.00920544191473192
GO:0046649	lymphocyte activation	0.0098095490403862
GO:0030097	hemopoiesis	0.0100515303260124
GO:0001558	regulation of cell growth	0.0100515303260124
GO:0048534	hemopoietic or lymphoid organ development	0.0106298276478974
GO:0045321	leukocyte activation	0.0109535907398853
GO:0002520	immune system development	0.0109698182817222
GO:0006417	regulation of translation	0.0109857396435244
GO:0031326	regulation of cellular biosynthetic process	0.0116704312347891
GO:0016049	cell growth	0.0116704312347891
GO:0040008	regulation of growth	0.0116704312347891
GO:0008361	regulation of cell size	0.0118098833493129
GO:0001501	skeletal development	0.0118098833493129
GO:0001775	cell activation	0.0118098833493129
GO:0006917	induction of apoptosis	0.0118247535121803
GO:0012502	induction of programmed cell death	0.0118247535121803
GO:0005179	hormone activity	0.0118391109108109
GO:0009889	regulation of biosynthetic process	0.0118391109108109
GO:0045893	positive regulation of transcription, DNA-dependent	0.0120624727654046
GO:0045786	negative regulation of progression through cell cycle	0.0120675152219076
GO:0050793	regulation of developmental process	0.0125511172324811
GO:0008083	growth factor activity	0.013343096275364
GO:0043065	positive regulation of apoptosis	0.0133837316362752
GO:0043068	positive regulation of programmed cell death	0.0133837316362752
GO:0051239	regulation of multicellular organismal process	0.0142396679618509
GO:0045941	positive regulation of transcription	0.0142396679618509
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0146320499234664
GO:0007167	enzyme linked receptor protein signaling pathway	0.0150684317056624
GO:0022414	reproductive process	0.0151989456810657
GO:0005125	cytokine activity	0.0153274203756034
GO:0000278	mitotic cell cycle	0.0159935633266612
GO:0000074	regulation of progression through cell cycle	0.0171849668052423
GO:0051726	regulation of cell cycle	0.0173436498670211
GO:0042802	identical protein binding	0.0173683502291582
GO:0031325	positive regulation of cellular metabolic process	0.0173683502291582
GO:0022403	cell cycle phase	0.0174276533264444
GO:0031324	negative regulation of cellular metabolic process	0.0178611143817785
GO:0046903	secretion	0.0178693872462443
GO:0009893	positive regulation of metabolic process	0.0180623201073275
GO:0051246	regulation of protein metabolic process	0.0192594070275394
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0192594070275394
GO:0009892	negative regulation of metabolic process	0.0197095086710064
GO:0000902	cell morphogenesis	0.021303791191752
GO:0032989	cellular structure morphogenesis	0.021303791191752
GO:0005615	extracellular space	0.0233676602450887
GO:0042981	regulation of apoptosis	0.0250512677106637
GO:0043067	regulation of programmed cell death	0.0251403792981644
GO:0006952	defense response	0.0253149652655128
GO:0022402	cell cycle process	0.0269079137601113
GO:0009605	response to external stimulus	0.0270026296165469
GO:0007267	cell-cell signaling	0.0270026296165469
GO:0006366	transcription from RNA polymerase II promoter	0.0270026296165469
GO:0007399	nervous system development	0.0300091310101112
GO:0009966	regulation of signal transduction	0.0333091648230431
GO:0007049	cell cycle	0.0347046664342569
GO:0006915	apoptosis	0.035136843022749
GO:0012501	programmed cell death	0.0351959678368903
GO:0008219	cell death	0.0364503455563554
GO:0016265	death	0.0364503455563554
GO:0044421	extracellular region part	0.0364503455563554
GO:0065008	regulation of biological quality	0.037735120098905
GO:0048522	positive regulation of cellular process	0.037735120098905
GO:0005102	receptor binding	0.0407633835098397
GO:0009653	anatomical structure morphogenesis	0.0409024207299257
GO:0048518	positive regulation of biological process	0.0412338851410653
GO:0048523	negative regulation of cellular process	0.0437642051029546
GO:0048513	organ development	0.0437642051029546
GO:0048519	negative regulation of biological process	0.0450636881684279
GO:0006412	translation	0.0457412620890328
GO:0048468	cell development	0.0467874804460816

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>disease_data<br>

---

Cell Type

Ontology term	p-value	n
non-terminally differentiated cell	4.65e-18	180
vascular associated smooth muscle cell	1.26e-11	32
smooth muscle cell	1.53e-11	42
smooth muscle myoblast	1.53e-11	42
muscle precursor cell	1.83e-11	57
myoblast	1.83e-11	57
multi-potent skeletal muscle stem cell	1.83e-11	57
muscle cell	4.81e-11	54
contractile cell	5.13e-10	59
electrically responsive cell	1.34e-09	60
electrically active cell	1.34e-09	60
somatic cell	1.49e-09	591
fibroblast	2.22e-08	75
embryonic cell	3.25e-08	248
preadipocyte	1.21e-07	12
mesodermal cell	2.80e-07	119
animal cell	5.77e-07	679
eukaryotic cell	5.77e-07	679

Uber Anatomy

Ontology term	p-value	n
multi-cellular organism	2.61e-14	659
somite	3.03e-13	83
paraxial mesoderm	3.03e-13	83
presomitic mesoderm	3.03e-13	83
presumptive segmental plate	3.03e-13	83
trunk paraxial mesoderm	3.03e-13	83
presumptive paraxial mesoderm	3.03e-13	83
multilaminar epithelium	3.57e-13	82
anatomical system	1.25e-11	625
anatomical group	2.29e-11	626
dermomyotome	4.52e-11	70
skeletal muscle tissue	6.55e-11	61
striated muscle tissue	6.55e-11	61
myotome	6.55e-11	61
muscle tissue	1.37e-10	63
musculature	1.37e-10	63
musculature of body	1.37e-10	63
trunk mesenchyme	1.81e-10	143
trunk	7.46e-10	216
embryonic structure	1.16e-09	605
developing anatomical structure	1.16e-09	605
artery	1.29e-09	42
arterial blood vessel	1.29e-09	42
arterial system	1.29e-09	42
germ layer	1.30e-09	604
embryonic tissue	1.30e-09	604
presumptive structure	1.30e-09	604
epiblast (generic)	1.30e-09	604
splanchnic layer of lateral plate mesoderm	2.05e-09	84
organism subdivision	2.95e-09	365
embryo	4.27e-09	612
vasculature	8.03e-09	79
vascular system	8.03e-09	79
systemic artery	1.38e-08	33
systemic arterial system	1.38e-08	33
musculoskeletal system	1.70e-08	167
blood vessel	3.74e-08	60
epithelial tube open at both ends	3.74e-08	60
blood vasculature	3.74e-08	60
vascular cord	3.74e-08	60
epithelial tube	6.61e-08	118
mesoderm	9.11e-08	448
mesoderm-derived structure	9.11e-08	448
presumptive mesoderm	9.11e-08	448
vessel	1.51e-07	69
surface structure	2.08e-07	95
cell layer	5.76e-07	312
epithelium	9.02e-07	309

Disease

Ontology term	p-value	n
ovarian cancer	9.51e-07	14

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

---

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

---

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

---

This analysis result is provided for C0 - C305 clusters.