Coexpression cluster:C173

Full id: C173_Adipocyte_mature_skin_left_Hepatocyte_Osteoblast_adipose

Phase1 CAGE Peaks

Hg19::chr10:102107148..102107161,+	p9@SCD
Hg19::chr10:102107168..102107180,+	p11@SCD
Hg19::chr10:102107191..102107209,+	p7@SCD
Hg19::chr10:102107808..102107865,+	p8@SCD
Hg19::chr10:102107884..102107910,+	p13@SCD
Hg19::chr10:102112119..102112137,+	p@chr10:102112119..102112137 +
Hg19::chr10:102112150..102112189,+	p@chr10:102112150..102112189 +
Hg19::chr10:102112191..102112213,+	p@chr10:102112191..102112213 +
Hg19::chr10:102114285..102114307,+	p@chr10:102114285..102114307 +
Hg19::chr10:102114326..102114340,+	p@chr10:102114326..102114340 +
Hg19::chr10:102116281..102116301,+	p@chr10:102116281..102116301 +
Hg19::chr10:102116352..102116360,+	p@chr10:102116352..102116360 +
Hg19::chr10:102116406..102116419,+	p@chr10:102116406..102116419 +
Hg19::chr10:102120488..102120498,+	p@chr10:102120488..102120498 +
Hg19::chr10:102120684..102120716,+	p@chr10:102120684..102120716 +
Hg19::chr10:102120837..102120873,+	p@chr10:102120837..102120873 +
Hg19::chr10:102121513..102121533,+	p2@ENST00000537595
Hg19::chr10:102122141..102122176,+	p@chr10:102122141..102122176 +
Hg19::chr10:102122225..102122259,+	p@chr10:102122225..102122259 +
Hg19::chr10:102122388..102122405,+	p@chr10:102122388..102122405 +
Hg19::chr10:102122643..102122654,+	p@chr10:102122643..102122654 +
Hg19::chr10:102122663..102122689,+	p@chr10:102122663..102122689 +
Hg19::chr10:102123464..102123502,+	p2@AF113690
Hg19::chr10:102123593..102123621,+	p1@AF113690
Hg19::chr10:113915737..113915754,-	p@chr10:113915737..113915754 -
Hg19::chr10:113928643..113928689,-	p@chr10:113928643..113928689 -
Hg19::chr10:114136055..114136067,+	p13@ACSL5
Hg19::chr10:53458765..53458768,+	p@chr10:53458765..53458768 +
Hg19::chr10:53458769..53458785,+	p@chr10:53458769..53458785 +
Hg19::chr11:111888022..111888037,+	p17@DIXDC1
Hg19::chr11:111888043..111888056,+	p22@DIXDC1
Hg19::chr11:111896321..111896332,+	p4@DLAT
Hg19::chr11:111896671..111896691,+	p@chr11:111896671..111896691 +
Hg19::chr11:111896693..111896701,+	p@chr11:111896693..111896701 +
Hg19::chr11:35232781..35232791,+	p1@U94903
Hg19::chr11:43702302..43702318,+	p3@HSD17B12
Hg19::chr11:46615803..46615814,-	p5@AMBRA1
Hg19::chr11:62439379..62439382,-	p22@C11orf48
Hg19::chr11:62439729..62439747,-	p2@C11orf48
Hg19::chr11:75271468..75271477,+	p@chr11:75271468..75271477 +
Hg19::chr11:77775063..77775072,+	p4@THRSP
Hg19::chr11:77775379..77775389,-	p@chr11:77775379..77775389 -
Hg19::chr11:822386..822401,+	p10@PNPLA2
Hg19::chr11:82828304..82828309,-	p@chr11:82828304..82828309 -
Hg19::chr11:86667004..86667031,-	p@chr11:86667004..86667031 -
Hg19::chr12:109665191..109665193,+	p16@ACACB
Hg19::chr12:50503643..50503660,+	p@chr12:50503643..50503660 +
Hg19::chr12:53224219..53224221,-	p3@KRT79
Hg19::chr12:56710279..56710303,-	p9@CNPY2
Hg19::chr12:57543246..57543251,+	p@chr12:57543246..57543251 +
Hg19::chr12:89744674..89744686,+	p6@LOC100131490
Hg19::chr15:83330979..83330982,-	p23@AP3B2
Hg19::chr15:83330983..83330997,-	p10@AP3B2
Hg19::chr16:68325453..68325473,+	p@chr16:68325453..68325473 +
Hg19::chr16:69176140..69176147,+	p@chr16:69176140..69176147 +
Hg19::chr16:85319990..85319997,+	p@chr16:85319990..85319997 +
Hg19::chr17:20687806..20687810,+	p3@SCDP1
Hg19::chr17:20688364..20688394,+	p2@SCDP1
Hg19::chr17:20688808..20688832,+	p@chr17:20688808..20688832 +
Hg19::chr17:22026633..22026638,+	p@chr17:22026633..22026638 +
Hg19::chr17:41008915..41008925,+	p@chr17:41008915..41008925 +
Hg19::chr17:48503603..48503622,+	p1@ACSF2
Hg19::chr19:4512807..4512811,-	p2@PLIN4
Hg19::chr1:109939715..109939728,+	p@chr1:109939715..109939728 +
Hg19::chr1:9129347..9129370,-	p11@SLC2A5
Hg19::chr1:9129735..9129762,-	p4@SLC2A5
Hg19::chr20:42939371..42939377,+	p@chr20:42939371..42939377 +
Hg19::chr21:47648451..47648462,-	p3@LSS
Hg19::chr22:39916888..39916894,+	p12@ATF4
Hg19::chr2:65356996..65357005,+	p@chr2:65356996..65357005 +
Hg19::chr3:12190006..12190011,+	p19@SYN2
Hg19::chr3:12190041..12190062,+	p6@SYN2
Hg19::chr3:126008710..126008714,-	p@chr3:126008710..126008714 -
Hg19::chr3:154797843..154797858,+	p15@MME
Hg19::chr3:186570986..186570997,+	p3@ADIPOQ
Hg19::chr3:186572016..186572028,+	p@chr3:186572016..186572028 +
Hg19::chr3:186572114..186572128,+	p@chr3:186572114..186572128 +
Hg19::chr3:186572221..186572231,+	p@chr3:186572221..186572231 +
Hg19::chr3:186572288..186572301,+	p@chr3:186572288..186572301 +
Hg19::chr3:186575301..186575315,+	p@chr3:186575301..186575315 +
Hg19::chr3:186575349..186575368,+	p@chr3:186575349..186575368 +
Hg19::chr3:52269260..52269269,-	p@chr3:52269260..52269269 -
Hg19::chr3:52821997..52822012,+	p3@ITIH1
Hg19::chr3:9911748..9911751,-	p@chr3:9911748..9911751 -
Hg19::chr3:9911902..9911905,-	p@chr3:9911902..9911905 -
Hg19::chr5:150138790..150138796,-	p18@DCTN4
Hg19::chr5:74806597..74806605,+	p@chr5:74806597..74806605 +
Hg19::chr5:76435093..76435109,+	p1@ENST00000511547 p1@ENST00000515356
Hg19::chr5:80528491..80528513,+	p@chr5:80528491..80528513 +
Hg19::chr6:127663543..127663559,-	p5@ECHDC1
Hg19::chr6:127664628..127664661,-	p4@ECHDC1
Hg19::chr6:53305337..53305366,-	p@chr6:53305337..53305366 -
Hg19::chr6:83947539..83947555,-	p@chr6:83947539..83947555 -
Hg19::chr8:19823146..19823158,+	p@chr8:19823146..19823158 +
Hg19::chr8:27168021..27168026,+	p@chr8:27168021..27168026 +
Hg19::chr8:82391082..82391095,-	p@chr8:82391082..82391095 -
Hg19::chr8:82391711..82391737,-	p2@FABP4
Hg19::chr8:82392752..82392769,-	p@chr8:82392752..82392769 -
Hg19::chr9:95004537..95004561,-	p@chr9:95004537..95004561 -
Hg19::chrX:151999438..151999444,-	p3@CETN2

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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p.value	FDR	nGenes	nPathway	Name
0.000178921968614274	0.0188762676888059	2	21	Biosynthesis of unsaturated fatty acids (KEGG):01040
5.90386057604479e-07	0.000186857187231817	4	71	PPAR signaling pathway (KEGG):03320
3.79223521833263e-05	0.00480096978640911	3	69	Adipocytokine signaling pathway (KEGG):04920
0.000474366028421681	0.0428962422844178	2	34	Fatty Acid Beta Oxidation (Wikipathways):WP143
4.58745353739527e-09	2.90385808917121e-06	4	22	Fatty Acid Biosynthesis (Wikipathways):WP357
6.90977631174787e-06	0.0014579628017788	5	289	Metabolism of lipids and lipoproteins (Reactome):REACT_22258
1.5244952903819e-05	0.00241251379702936	3	51	{RXRA,51} (Static Module):NA

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:0032787	monocarboxylic acid metabolic process	1.73275744464493e-05
GO:0006629	lipid metabolic process	3.68303076272497e-05
GO:0006090	pyruvate metabolic process	0.000158056992643084
GO:0006631	fatty acid metabolic process	0.00093611946455349
GO:0044255	cellular lipid metabolic process	0.00093611946455349
GO:0019752	carboxylic acid metabolic process	0.00093611946455349
GO:0006082	organic acid metabolic process	0.00093611946455349
GO:0005737	cytoplasm	0.00274374696519734
GO:0008610	lipid biosynthetic process	0.00388723994990565
GO:0044444	cytoplasmic part	0.00524267132803325
GO:0006094	gluconeogenesis	0.00547635957551173
GO:0015758	glucose transport	0.00661975714474225
GO:0005975	carbohydrate metabolic process	0.00661975714474225
GO:0008645	hexose transport	0.00661975714474225
GO:0015749	monosaccharide transport	0.00661975714474225
GO:0019319	hexose biosynthetic process	0.00738804011175958
GO:0006006	glucose metabolic process	0.00738804011175958
GO:0046165	alcohol biosynthetic process	0.00738804011175958
GO:0046364	monosaccharide biosynthetic process	0.00738804011175958
GO:0005783	endoplasmic reticulum	0.00763820596210189
GO:0044262	cellular carbohydrate metabolic process	0.00763820596210189
GO:0000250	lanosterol synthase activity	0.0119816319321794
GO:0031559	oxidosqualene cyclase activity	0.0119816319321794
GO:0015755	fructose transport	0.0119816319321794
GO:0005967	mitochondrial pyruvate dehydrogenase complex	0.0119816319321794
GO:0019318	hexose metabolic process	0.0143270588232775
GO:0005996	monosaccharide metabolic process	0.0145494156568869
GO:0009058	biosynthetic process	0.0178195177213405
GO:0006633	fatty acid biosynthetic process	0.017823864636361
GO:0045254	pyruvate dehydrogenase complex	0.018714962284046
GO:0003989	acetyl-CoA carboxylase activity	0.018714962284046
GO:0045721	negative regulation of gluconeogenesis	0.018714962284046
GO:0016053	organic acid biosynthetic process	0.0196013790796282
GO:0046394	carboxylic acid biosynthetic process	0.0196013790796282
GO:0006694	steroid biosynthetic process	0.0218552600591857
GO:0004075	biotin carboxylase activity	0.0219027833096744
GO:0030523	dihydrolipoamide S-acyltransferase activity	0.0219027833096744
GO:0005353	fructose transmembrane transporter activity	0.0219027833096744
GO:0006085	acetyl-CoA biosynthetic process	0.0219027833096744
GO:0004742	dihydrolipoyllysine-residue acetyltransferase activity	0.0219027833096744
GO:0045912	negative regulation of carbohydrate metabolic process	0.0219027833096744
GO:0008643	carbohydrate transport	0.0260205847257939
GO:0006111	regulation of gluconeogenesis	0.0260205847257939
GO:0016418	S-acetyltransferase activity	0.0260205847257939
GO:0046326	positive regulation of glucose import	0.0260205847257939
GO:0004768	stearoyl-CoA 9-desaturase activity	0.0260205847257939
GO:0005886	plasma membrane	0.031762335050145
GO:0006066	alcohol metabolic process	0.0322854011259591
GO:0005813	centrosome	0.0322854011259591
GO:0005789	endoplasmic reticulum membrane	0.0322854011259591
GO:0042175	nuclear envelope-endoplasmic reticulum network	0.0322854011259591
GO:0016421	CoA carboxylase activity	0.0322854011259591
GO:0045923	positive regulation of fatty acid metabolic process	0.0322854011259591
GO:0050811	GABA receptor binding	0.0322854011259591
GO:0043255	regulation of carbohydrate biosynthetic process	0.0322854011259591
GO:0016051	carbohydrate biosynthetic process	0.0322854011259591
GO:0005815	microtubule organizing center	0.0352497886411914
GO:0030135	coated vesicle	0.0352497886411914
GO:0016885	ligase activity, forming carbon-carbon bonds	0.0354666323447513
GO:0006109	regulation of carbohydrate metabolic process	0.0363860662134483
GO:0005869	dynactin complex	0.0363860662134483
GO:0019217	regulation of fatty acid metabolic process	0.0363860662134483
GO:0046323	glucose import	0.0363860662134483
GO:0046324	regulation of glucose import	0.0363860662134483
GO:0044446	intracellular organelle part	0.0363860662134483
GO:0044432	endoplasmic reticulum part	0.0363860662134483
GO:0044422	organelle part	0.0363860662134483
GO:0016417	S-acyltransferase activity	0.0409081858716647
GO:0045834	positive regulation of lipid metabolic process	0.0409081858716647
GO:0004467	long-chain-fatty-acid-CoA ligase activity	0.0409081858716647
GO:0005811	lipid particle	0.0409081858716647
GO:0015645	fatty-acid ligase activity	0.0409081858716647
GO:0030212	hyaluronan metabolic process	0.0409081858716647
GO:0044424	intracellular part	0.0415672940808074
GO:0031405	lipoic acid binding	0.0415672940808074
GO:0009746	response to hexose stimulus	0.0415672940808074
GO:0050729	positive regulation of inflammatory response	0.0415672940808074
GO:0009749	response to glucose stimulus	0.0415672940808074
GO:0031349	positive regulation of defense response	0.0415672940808074
GO:0016717	oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water	0.044211523486239
GO:0004303	estradiol 17-beta-dehydrogenase activity	0.044211523486239
GO:0031406	carboxylic acid binding	0.049790421721825
GO:0004245	neprilysin activity	0.049790421721825
GO:0009308	amine metabolic process	0.049790421721825

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
stuff accumulating cell	3.43e-12	39
fat cell	1.55e-09	15
epithelial cell	8.09e-08	254

Uber Anatomy

Ontology term	p-value	n
organism subdivision	1.77e-21	365
multi-tissue structure	7.35e-20	347
ectoderm-derived structure	1.07e-14	169
cell layer	2.66e-14	312
epithelium	3.28e-14	309
ectoderm	5.17e-14	173
presumptive ectoderm	5.17e-14	173
head	1.90e-13	123
organ part	3.94e-12	219
organ	4.71e-12	511
anterior region of body	5.93e-12	129
craniocervical region	5.93e-12	129
anatomical cluster	1.02e-11	286
embryo	1.64e-11	612
embryonic structure	1.99e-11	605
developing anatomical structure	1.99e-11	605
germ layer	2.04e-11	604
embryonic tissue	2.04e-11	604
presumptive structure	2.04e-11	604
epiblast (generic)	2.04e-11	604
multi-cellular organism	2.57e-11	659
endoderm-derived structure	1.89e-10	169
endoderm	1.89e-10	169
presumptive endoderm	1.89e-10	169
trunk	1.27e-09	216
digestive system	3.56e-09	155
digestive tract	3.56e-09	155
primitive gut	3.56e-09	155
central nervous system	5.83e-09	82
neural plate	5.85e-09	86
presumptive neural plate	5.85e-09	86
anatomical group	6.13e-09	626
anatomical system	6.59e-09	625
regional part of brain	2.12e-08	59
mesenchyme	2.22e-08	238
entire embryonic mesenchyme	2.22e-08	238
brain	2.68e-08	69
future brain	2.68e-08	69
neurectoderm	3.19e-08	90
trunk mesenchyme	5.13e-08	143
neural tube	6.48e-08	57
neural rod	6.48e-08	57
future spinal cord	6.48e-08	57
neural keel	6.48e-08	57
regional part of nervous system	6.73e-08	94
nervous system	6.73e-08	94
anatomical conduit	2.27e-07	241
organ segment	2.77e-07	97
pre-chordal neural plate	9.03e-07	61

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
SREBF1#6720	7	3.29040946083418	0.00563551767016261	0.0254725106013205
SREBF2#6721	5	21.8471631205674	3.860722311979e-06	0.000126003117981492

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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