Coexpression cluster:C161

Full id: C161_mesothelioma_Mesothelial_acute_mesenchymal_extraskeletal_renal_placenta

Phase1 CAGE Peaks

Hg19::chr11:117150581..117150628,+	p@chr11:117150581..117150628 +
Hg19::chr11:117150669..117150717,+	p@chr11:117150669..117150717 +
Hg19::chr11:117152141..117152162,+	p10@RNF214
Hg19::chr11:117152220..117152232,+	p11@RNF214
Hg19::chr11:117152916..117152936,+	p9@RNF214
Hg19::chr11:22707203..22707221,+	p@chr11:22707203..22707221 +
Hg19::chr11:65629516..65629528,-	p29@CFL1
Hg19::chr11:65629672..65629698,+	p@chr11:65629672..65629698 +
Hg19::chr11:7506790..7506795,+	p9@OLFML1
Hg19::chr11:79794715..79794718,-	p@chr11:79794715..79794718 -
Hg19::chr11:90224851..90224891,+	p1@AB593165
Hg19::chr12:120502465..120502470,+	p12@CCDC64
Hg19::chr12:80838009..80838023,+	p3@PTPRQ
Hg19::chr12:80838029..80838066,+	p1@PTPRQ
Hg19::chr12:80838067..80838088,+	p2@PTPRQ
Hg19::chr12:80838145..80838152,+	p9@PTPRQ
Hg19::chr12:80952271..80952274,+	p@chr12:80952271..80952274 +
Hg19::chr14:105952794..105952805,+	p18@CRIP1
Hg19::chr14:78718132..78718157,+	p@chr14:78718132..78718157 +
Hg19::chr15:83954702..83954728,-	p@chr15:83954702..83954728 -
Hg19::chr16:33408291..33408306,+	p@chr16:33408291..33408306 +
Hg19::chr16:33408523..33408542,+	p@chr16:33408523..33408542 +
Hg19::chr17:29486054..29486065,+	p12@NF1
Hg19::chr17:31107844..31107872,-	p5@MYO1D
Hg19::chr17:4623333..4623376,+	p@chr17:4623333..4623376 +
Hg19::chr17:4846101..4846106,+	p@chr17:4846101..4846106 +
Hg19::chr17:4847813..4847819,+	p@chr17:4847813..4847819 +
Hg19::chr17:55522578..55522616,+	p@chr17:55522578..55522616 +
Hg19::chr17:8639180..8639188,-	p@chr17:8639180..8639188 -
Hg19::chr18:39541931..39541944,+	p@chr18:39541931..39541944 +
Hg19::chr18:47407103..47407112,-	p@chr18:47407103..47407112 -
Hg19::chr18:60661179..60661191,+	p@chr18:60661179..60661191 +
Hg19::chr19:16199781..16199806,+	p@chr19:16199781..16199806 +
Hg19::chr19:38902076..38902104,-	p@chr19:38902076..38902104 -
Hg19::chr1:168165301..168165329,+	p@chr1:168165301..168165329 +
Hg19::chr1:168165589..168165617,+	p@chr1:168165589..168165617 +
Hg19::chr1:197099062..197099073,-	p@chr1:197099062..197099073 -
Hg19::chr1:197099076..197099083,-	p@chr1:197099076..197099083 -
Hg19::chr1:197099091..197099102,-	p@chr1:197099091..197099102 -
Hg19::chr1:39851487..39851521,+	p@chr1:39851487..39851521 +
Hg19::chr20:36713497..36713503,+	p19@RPRD1B
Hg19::chr22:43355701..43355741,-	p14@PACSIN2
Hg19::chr2:123706107..123706109,-	p@chr2:123706107..123706109 -
Hg19::chr2:135893438..135893485,+	p@chr2:135893438..135893485 +
Hg19::chr2:140624829..140624870,+	p@chr2:140624829..140624870 +
Hg19::chr2:159375045..159375057,+	p@chr2:159375045..159375057 +
Hg19::chr2:165630270..165630300,-	p10@COBLL1
Hg19::chr2:165630301..165630310,-	p39@COBLL1
Hg19::chr2:165630313..165630339,-	p11@COBLL1
Hg19::chr2:165650899..165650926,-	p@chr2:165650899..165650926 -
Hg19::chr2:170115546..170115580,-	p@chr2:170115546..170115580 -
Hg19::chr2:170664937..170664947,+	p13@SSB
Hg19::chr2:204266094..204266122,+	p@chr2:204266094..204266122 +
Hg19::chr3:111812180..111812186,+	p@chr3:111812180..111812186 +
Hg19::chr3:120188917..120188936,+	p@chr3:120188917..120188936 +
Hg19::chr3:145881495..145881517,-	p11@PLOD2
Hg19::chr3:145959753..145959785,-	p@chr3:145959753..145959785 -
Hg19::chr3:165535017..165535020,-	p@chr3:165535017..165535020 -
Hg19::chr3:165535021..165535029,-	p@chr3:165535021..165535029 -
Hg19::chr3:191074565..191074573,+	p@chr3:191074565..191074573 +
Hg19::chr3:191074587..191074598,+	p@chr3:191074587..191074598 +
Hg19::chr3:191074642..191074664,+	p@chr3:191074642..191074664 +
Hg19::chr3:191074675..191074688,+	p@chr3:191074675..191074688 +
Hg19::chr3:191074968..191074971,+	p@chr3:191074968..191074971 +
Hg19::chr3:191074978..191074992,+	p@chr3:191074978..191074992 +
Hg19::chr3:191075002..191075014,+	p@chr3:191075002..191075014 +
Hg19::chr3:191075031..191075040,+	p@chr3:191075031..191075040 +
Hg19::chr3:191075256..191075261,+	p@chr3:191075256..191075261 +
Hg19::chr3:37986042..37986090,-	p@chr3:37986042..37986090 -
Hg19::chr4:106656882..106656914,+	p@chr4:106656882..106656914 +
Hg19::chr4:44869447..44869474,+	p@chr4:44869447..44869474 +
Hg19::chr4:71108300..71108323,+	p1@CSN3
Hg19::chr4:73435069..73435082,-	p@chr4:73435069..73435082 -
Hg19::chr4:79475019..79475042,+	p6@ANXA3
Hg19::chr4:79475120..79475133,+	p5@ANXA3
Hg19::chr5:107631924..107631930,-	p@chr5:107631924..107631930 -
Hg19::chr5:107631933..107631940,-	p@chr5:107631933..107631940 -
Hg19::chr5:107631942..107631951,-	p@chr5:107631942..107631951 -
Hg19::chr5:13428853..13428866,+	p@chr5:13428853..13428866 +
Hg19::chr5:145427166..145427178,+	p@chr5:145427166..145427178 +
Hg19::chr5:179894479..179894489,+	p@chr5:179894479..179894489 +
Hg19::chr5:80434077..80434082,+	p@chr5:80434077..80434082 +
Hg19::chr6:126135900..126135924,+	p22@NCOA7
Hg19::chr6:168251020..168251028,+	p@chr6:168251020..168251028 +
Hg19::chr6:168251039..168251042,+	p@chr6:168251039..168251042 +
Hg19::chr6:19154273..19154282,-	p@chr6:19154273..19154282 -
Hg19::chr6:19154283..19154295,-	p@chr6:19154283..19154295 -
Hg19::chr6:30449373..30449383,-	p@chr6:30449373..30449383 -
Hg19::chr6:45917165..45917177,-	p@chr6:45917165..45917177 -
Hg19::chr6:45917192..45917193,-	p@chr6:45917192..45917193 -
Hg19::chr6:53658203..53658215,-	p@chr6:53658203..53658215 -
Hg19::chr6:64999168..64999210,+	p@chr6:64999168..64999210 +
Hg19::chr7:152166747..152166750,+	p@chr7:152166747..152166750 +
Hg19::chr7:152166833..152166847,+	p@chr7:152166833..152166847 +
Hg19::chr7:33397558..33397583,+	p@chr7:33397558..33397583 +
Hg19::chr7:33397752..33397755,+	p@chr7:33397752..33397755 +
Hg19::chr7:80365907..80365910,-	p@chr7:80365907..80365910 -
Hg19::chr7:80365917..80365926,-	p@chr7:80365917..80365926 -
Hg19::chr7:80365936..80365942,-	p@chr7:80365936..80365942 -
Hg19::chr8:37728955..37729014,-	p@chr8:37728955..37729014 -
Hg19::chr9:123128390..123128421,-	p@chr9:123128390..123128421 -
Hg19::chr9:3330877..3330914,-	p@chr9:3330877..3330914 -
Hg19::chr9:88939319..88939326,-	p25@ZCCHC6
Hg19::chrX:117553200..117553220,+	p@chrX:117553200..117553220 +
Hg19::chrX:140048723..140048740,+	p@chrX:140048723..140048740 +
Hg19::chrX:32584018..32584035,-	p@chrX:32584018..32584035 -
Hg19::chrX:32584039..32584049,-	p@chrX:32584039..32584049 -
Hg19::chrX:64898352..64898387,+	p10@MSN
Hg19::chrY:8692267..8692276,-	p@chrY:8692267..8692276 -

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:0030036	actin cytoskeleton organization and biogenesis	0.0201157464163886
GO:0030029	actin filament-based process	0.0201157464163886
GO:0001666	response to hypoxia	0.0201157464163886
GO:0014065	phosphoinositide 3-kinase cascade	0.0201157464163886
GO:0048715	negative regulation of oligodendrocyte differentiation	0.0201157464163886
GO:0021897	forebrain astrocyte development	0.0201157464163886
GO:0021896	forebrain astrocyte differentiation	0.0201157464163886
GO:0048745	smooth muscle development	0.0201157464163886
GO:0048485	sympathetic nervous system development	0.0201157464163886
GO:0048713	regulation of oligodendrocyte differentiation	0.0201157464163886
GO:0022011	myelination in the peripheral nervous system	0.0201157464163886
GO:0048854	brain morphogenesis	0.0201157464163886
GO:0032292	ensheathment of axons in the peripheral nervous system	0.0201157464163886
GO:0048853	forebrain morphogenesis	0.0201157464163886
GO:0043409	negative regulation of MAPKKK cascade	0.0201157464163886
GO:0048844	artery morphogenesis	0.0201157464163886
GO:0014014	negative regulation of gliogenesis	0.0201157464163886
GO:0045686	negative regulation of glial cell differentiation	0.0201157464163886
GO:0043535	regulation of blood vessel endothelial cell migration	0.0201157464163886
GO:0008334	histone mRNA metabolic process	0.0201157464163886
GO:0019834	phospholipase A2 inhibitor activity	0.0201157464163886
GO:0008475	procollagen-lysine 5-dioxygenase activity	0.0201157464163886
GO:0007406	negative regulation of neuroblast proliferation	0.0201157464163886
GO:0014044	Schwann cell development	0.0201157464163886
GO:0048483	autonomic nervous system development	0.0201157464163886
GO:0014037	Schwann cell differentiation	0.0201157464163886
GO:0021987	cerebral cortex development	0.0232400732033849
GO:0050890	cognition	0.0232400732033849
GO:0043534	blood vessel endothelial cell migration	0.0232400732033849
GO:0014002	astrocyte development	0.0232400732033849
GO:0008092	cytoskeletal protein binding	0.0264037330716217
GO:0008486	diphosphoinositol-polyphosphate diphosphatase activity	0.0264037330716217
GO:0030325	adrenal gland development	0.0264037330716217
GO:0045124	regulation of bone resorption	0.0307290422170373
GO:0021543	pallium development	0.0307290422170373
GO:0045685	regulation of glial cell differentiation	0.0307290422170373
GO:0014013	regulation of gliogenesis	0.0307290422170373
GO:0032320	positive regulation of Ras GTPase activity	0.0307290422170373
GO:0008542	visual learning	0.0307290422170373
GO:0007010	cytoskeleton organization and biogenesis	0.0307290422170373
GO:0048708	astrocyte differentiation	0.0339818460437372
GO:0043525	positive regulation of neuron apoptosis	0.0373116614685102
GO:0007632	visual behavior	0.0375400593471159
GO:0001889	liver development	0.0375400593471159
GO:0030199	collagen fibril organization	0.0375400593471159
GO:0021510	spinal cord development	0.0375400593471159
GO:0030867	rough endoplasmic reticulum membrane	0.0375400593471159
GO:0021537	telencephalon development	0.0375400593471159
GO:0042308	negative regulation of protein import into nucleus	0.0375400593471159
GO:0042992	negative regulation of transcription factor import into nucleus	0.0375400593471159
GO:0048709	oligodendrocyte differentiation	0.0375400593471159
GO:0050768	negative regulation of neurogenesis	0.0376951644035807
GO:0001937	negative regulation of endothelial cell proliferation	0.0376951644035807
GO:0046823	negative regulation of nucleocytoplasmic transport	0.0376951644035807
GO:0043542	endothelial cell migration	0.0376951644035807
GO:0048593	camera-type eye morphogenesis	0.0376951644035807
GO:0045453	bone resorption	0.0376951644035807
GO:0051224	negative regulation of protein transport	0.0376951644035807
GO:0021782	glial cell development	0.0376951644035807
GO:0001952	regulation of cell-matrix adhesion	0.0376951644035807
GO:0043408	regulation of MAPKKK cascade	0.0427637789090141
GO:0007405	neuroblast proliferation	0.0454643875921512
GO:0001936	regulation of endothelial cell proliferation	0.0454643875921512
GO:0005791	rough endoplasmic reticulum	0.0454643875921512
GO:0007612	learning	0.0454643875921512
GO:0004859	phospholipase inhibitor activity	0.0458540850453024
GO:0016998	cell wall catabolic process	0.0458540850453024
GO:0048871	multicellular organismal homeostasis	0.0458540850453024
GO:0001935	endothelial cell proliferation	0.0458540850453024
GO:0055102	lipase inhibitor activity	0.0458540850453024
GO:0030336	negative regulation of cell migration	0.0458540850453024
GO:0001894	tissue homeostasis	0.0458540850453024
GO:0010382	cell wall metabolic process	0.0469532635158058
GO:0007047	cell wall organization and biogenesis	0.0469532635158058
GO:0042990	regulation of transcription factor import into nucleus	0.0469930026170049
GO:0042991	transcription factor import into nucleus	0.0469930026170049
GO:0006400	tRNA modification	0.0469930026170049
GO:0042306	regulation of protein import into nucleus	0.0469930026170049
GO:0045229	external encapsulating structure organization and biogenesis	0.0469930026170049
GO:0031418	L-ascorbic acid binding	0.0469930026170049
GO:0033157	regulation of intracellular protein transport	0.0469930026170049
GO:0051271	negative regulation of cell motility	0.0469930026170049
GO:0000049	tRNA binding	0.0469930026170049
GO:0007422	peripheral nervous system development	0.0469930026170049
GO:0043407	negative regulation of MAP kinase activity	0.0469930026170049
GO:0040013	negative regulation of locomotion	0.0469930026170049
GO:0046850	regulation of bone remodeling	0.0469930026170049
GO:0001656	metanephros development	0.0469930026170049
GO:0001649	osteoblast differentiation	0.0469930026170049
GO:0043523	regulation of neuron apoptosis	0.0469930026170049
GO:0032386	regulation of intracellular transport	0.0469930026170049
GO:0048592	eye morphogenesis	0.0469930026170049
GO:0051349	positive regulation of lyase activity	0.0469930026170049
GO:0042552	myelination	0.0469930026170049
GO:0045762	positive regulation of adenylate cyclase activity	0.0469930026170049
GO:0031281	positive regulation of cyclase activity	0.0469930026170049
GO:0006928	cell motility	0.0485635400987374
GO:0051674	localization of cell	0.0485635400987374
GO:0051223	regulation of protein transport	0.0485635400987374
GO:0006383	transcription from RNA polymerase III promoter	0.0485635400987374
GO:0046822	regulation of nucleocytoplasmic transport	0.0493015702913813
GO:0010001	glial cell differentiation	0.0493015702913813

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>

---

Cell Type

Ontology term	p-value	n
mesothelial cell	9.38e-12	19

Uber Anatomy

Ontology term	p-value	n
multi-tissue structure	4.07e-09	347
organ	8.38e-07	511

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

---

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

TF	#promoters	Enrichment	p-value	q-value
GATA2#2624	17	1.9877416465176	0.00491918026539417	0.0229908828308199
NR3C1#2908	15	2.06050779786785	0.00600135946615624	0.0269048755703079

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

---

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.