Coexpression cluster:C233

Full id: C233_uterus_cervix_ovary_epididymis_colon_rectum_MCF7

Phase1 CAGE Peaks

Hg19::chr11:100935059..100935062,-	p9@PGR
Hg19::chr11:100978593..100978596,-	p@chr11:100978593..100978596 -
Hg19::chr11:100996790..100996823,-	p10@PGR
Hg19::chr11:100999679..100999686,-	p11@PGR
Hg19::chr11:100999697..100999708,-	p7@PGR
Hg19::chr11:100999775..100999800,-	p2@PGR
Hg19::chr11:100999802..100999819,-	p4@PGR
Hg19::chr11:100999848..100999858,-	p6@PGR
Hg19::chr11:101000445..101000465,-	p5@PGR
Hg19::chr11:101000524..101000535,-	p3@PGR
Hg19::chr11:101000537..101000553,-	p1@PGR
Hg19::chr11:106475101..106475144,-	p@chr11:106475101..106475144 -
Hg19::chr12:11586047..11586051,-	p@chr12:11586047..11586051 -
Hg19::chr14:52066633..52066647,-	p1@ENST00000557625
Hg19::chr14:52066650..52066658,-	p6@ENST00000556617
Hg19::chr14:52066664..52066674,-	p3@ENST00000556617
Hg19::chr14:52066684..52066693,-	p4@ENST00000556617
Hg19::chr14:52066704..52066710,-	p5@ENST00000556617
Hg19::chr14:52066714..52066739,-	p1@ENST00000556617
Hg19::chr14:52066745..52066774,-	p2@ENST00000556617
Hg19::chr14:52164820..52164841,+	p25@FRMD6
Hg19::chr14:68353962..68353975,+	p@chr14:68353962..68353975 +
Hg19::chr19:24140667..24140676,-	p2@uc002nrp.1
Hg19::chr19:6076501..6076505,-	p@chr19:6076501..6076505 -
Hg19::chr1:192761703..192761710,-	p@chr1:192761703..192761710 -
Hg19::chr1:202485611..202485613,-	p@chr1:202485611..202485613 -
Hg19::chr1:202508608..202508633,+	p@chr1:202508608..202508633 +
Hg19::chr1:226129114..226129123,-	p3@LEFTY2
Hg19::chr1:226129194..226129232,-	p2@LEFTY2
Hg19::chr21:17553654..17553663,+	p@chr21:17553654..17553663 +
Hg19::chr21:17553669..17553705,+	p@chr21:17553669..17553705 +
Hg19::chr21:18500690..18500701,-	p@chr21:18500690..18500701 -
Hg19::chr21:33745128..33745131,-	p@chr21:33745128..33745131 -
Hg19::chr2:177627285..177627294,-	p1@ENST00000430460
Hg19::chr2:178016016..178016026,-	p@chr2:178016016..178016026 -
Hg19::chr2:232135672..232135717,+	p5@ARMC9
Hg19::chr2:27371866..27371878,+	p3@TCF23
Hg19::chr2:27371879..27371907,+	p1@TCF23
Hg19::chr2:27371919..27371935,+	p2@TCF23
Hg19::chr2:48706616..48706634,+	p@chr2:48706616..48706634 +
Hg19::chr3:64479939..64479946,-	p@chr3:64479939..64479946 -
Hg19::chr3:69795884..69795894,+	p@chr3:69795884..69795894 +
Hg19::chr5:35230771..35230780,-	p17@PRLR
Hg19::chr6:111839306..111839347,-	p@chr6:111839306..111839347 -
Hg19::chr6:152126688..152126695,+	p22@ESR1
Hg19::chr6:152126790..152126828,+	p3@ESR1
Hg19::chr6:152126830..152126847,+	p4@ESR1
Hg19::chr6:152128325..152128339,+	p10@ESR1
Hg19::chr6:152128371..152128382,+	p14@ESR1
Hg19::chr6:152128782..152128803,+	p5@ESR1
Hg19::chr6:152128810..152128827,+	p2@ESR1
Hg19::chr6:33864685..33864698,-	p1@ENST00000533304
Hg19::chr6:56362490..56362515,-	p60@DST
Hg19::chr7:38042854..38042870,+	p@chr7:38042854..38042870 +
Hg19::chr7:38042894..38042903,+	p@chr7:38042894..38042903 +
Hg19::chr9:15846687..15846709,+	p@chr9:15846687..15846709 +
Hg19::chr9:15846755..15846764,+	p@chr9:15846755..15846764 +
Hg19::chr9:16575347..16575359,-	p12@BNC2
Hg19::chr9:16575389..16575395,-	p49@BNC2
Hg19::chrX:9165216..9165223,-	p@chrX:9165216..9165223 -
Hg19::chrX:9165234..9165241,-	p@chrX:9165234..9165241 -

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

---

p.value	FDR	nGenes	nPathway	Name
6.17526981842456e-05	0.0195447289753137	2	38	Nuclear Receptors (Wikipathways):WP170
4.08931644966022e-05	0.0195447289753137	2	31	Ovarian Infertility Genes (Wikipathways):WP34

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:0047485	protein N-terminus binding	0.00862299819090196
GO:0005496	steroid binding	0.00862299819090196
GO:0042977	tyrosine phosphorylation of JAK2 protein	0.00862299819090196
GO:0042978	ornithine decarboxylase activator activity	0.00862299819090196
GO:0004925	prolactin receptor activity	0.00862299819090196
GO:0042976	activation of JAK protein	0.00862299819090196
GO:0065007	biological regulation	0.00862299819090196
GO:0003707	steroid hormone receptor activity	0.00987327936311198
GO:0007308	oocyte construction	0.00987327936311198
GO:0007309	oocyte axis determination	0.00987327936311198
GO:0030284	estrogen receptor activity	0.00987327936311198
GO:0004879	ligand-dependent nuclear receptor activity	0.0120644998964412
GO:0007171	transmembrane receptor protein tyrosine kinase activation (dimerization)	0.0120644998964412
GO:0006916	anti-apoptosis	0.0120644998964412
GO:0043195	terminal button	0.0120644998964412
GO:0030235	nitric-oxide synthase regulator activity	0.0120644998964412
GO:0033267	axon part	0.0120644998964412
GO:0043526	neuroprotection	0.0120644998964412
GO:0050794	regulation of cellular process	0.0127404926994134
GO:0043204	perikaryon	0.0129247279452068
GO:0030315	T-tubule	0.0129247279452068
GO:0043066	negative regulation of apoptosis	0.0136009037720845
GO:0048599	oocyte development	0.0136009037720845
GO:0043069	negative regulation of programmed cell death	0.0136009037720845
GO:0050789	regulation of biological process	0.0140702788789496
GO:0009994	oocyte differentiation	0.0140702788789496
GO:0042979	ornithine decarboxylase regulator activity	0.0140702788789496
GO:0045885	positive regulation of survival gene product activity	0.0155041960416895
GO:0007167	enzyme linked receptor protein signaling pathway	0.0184473339640376
GO:0048523	negative regulation of cellular process	0.0184473339640376
GO:0030520	estrogen receptor signaling pathway	0.0186468984701006
GO:0005160	transforming growth factor beta receptor binding	0.0186468984701006
GO:0048519	negative regulation of biological process	0.01872935275268
GO:0048468	cell development	0.0209223442115531
GO:0045104	intermediate filament cytoskeleton organization and biogenesis	0.0216905469581283
GO:0045103	intermediate filament-based process	0.0225916600030853
GO:0045884	regulation of survival gene product activity	0.0228267795774616
GO:0042383	sarcolemma	0.0228267795774616
GO:0007566	embryo implantation	0.023038068441521
GO:0048477	oogenesis	0.023038068441521
GO:0009798	axis specification	0.0237954903388163
GO:0007281	germ cell development	0.0245165410777021
GO:0007595	lactation	0.0264608312544518
GO:0043523	regulation of neuron apoptosis	0.0307705672403622
GO:0042562	hormone binding	0.031286565321858
GO:0051402	neuron apoptosis	0.0352984815400051
GO:0030424	axon	0.037782476750978
GO:0007292	female gamete generation	0.037782476750978
GO:0043025	cell soma	0.037782476750978
GO:0042981	regulation of apoptosis	0.037782476750978
GO:0043067	regulation of programmed cell death	0.037782476750978
GO:0008289	lipid binding	0.037782476750978
GO:0048869	cellular developmental process	0.037782476750978
GO:0030154	cell differentiation	0.037782476750978
GO:0007259	JAK-STAT cascade	0.038338450462916
GO:0045449	regulation of transcription	0.0388811799911008
GO:0016585	chromatin remodeling complex	0.0388811799911008
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0403349002062704
GO:0007267	cell-cell signaling	0.0406006327953373
GO:0044463	cell projection part	0.0417295745523015
GO:0006350	transcription	0.0417295745523015
GO:0010468	regulation of gene expression	0.0422068599713276
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0428548548408523
GO:0030518	steroid hormone receptor signaling pathway	0.0430238910265278
GO:0031323	regulation of cellular metabolic process	0.0440653693060164
GO:0030522	intracellular receptor-mediated signaling pathway	0.0449711386481836
GO:0048609	reproductive process in a multicellular organism	0.0483759551790002
GO:0032504	multicellular organism reproduction	0.0483759551790002

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><br>uberon_data<br><br>

---

Uber Anatomy

Ontology term	p-value	n
male genital duct	3.11e-27	3
internal male genitalia	3.11e-27	3
uterus or analog	1.53e-21	1
seminal vesicle	3.45e-21	1
seminal fluid secreting gland	3.45e-21	1
epididymis	6.31e-21	1
duct of male reproductive system	1.05e-20	4
male reproductive organ	9.29e-17	11
reproductive structure	2.97e-16	59
reproductive system	2.97e-16	59
reproductive organ	7.75e-15	48
male organism	1.06e-14	22
male reproductive system	1.06e-14	22
internal genitalia	3.66e-13	25
intermediate mesoderm	1.27e-11	28
urinary bladder	4.52e-11	2
lower urinary tract	4.52e-11	2
testis	7.67e-11	8
adult organism	9.07e-11	114
mesonephros	9.24e-10	9
pronephros	9.24e-10	9
nephrogenic cord	9.24e-10	9
pronephric mesoderm	9.24e-10	9
rostral part of nephrogenic cord	9.24e-10	9
presumptive pronephric mesoderm	9.24e-10	9
body cavity precursor	3.09e-09	54
gonad	4.08e-09	21
indifferent external genitalia	4.08e-09	21
indifferent gonad	4.08e-09	21
gonad primordium	4.08e-09	21
embryonic uterus	6.84e-09	22
external genitalia	9.94e-09	22
anatomical cavity	3.47e-08	61
urogenital ridge	3.76e-08	11
sex gland	1.47e-07	12
male reproductive gland	1.47e-07	12
intraembryonic coelom	1.52e-07	12
body cavity	3.35e-07	46
urinary system structure	4.71e-07	47
renal system	6.52e-07	48
body cavity or lining	8.91e-07	49

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

---