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Coexpression cluster:C125

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Full id: C125_mucinous_alveolar_mesothelioma_Smooth_lung_CD14_Nucleus



Phase1 CAGE Peaks

  Short description
Hg19::chr10:32872106..32872117,+ p@chr10:32872106..32872117
+
Hg19::chr10:34987997..34988013,- p@chr10:34987997..34988013
-
Hg19::chr10:34988014..34988029,- p@chr10:34988014..34988029
-
Hg19::chr10:34988093..34988129,- p@chr10:34988093..34988129
-
Hg19::chr10:44801889..44801898,- p@chr10:44801889..44801898
-
Hg19::chr10:5060201..5060211,- p5@AKR1C2
Hg19::chr10:5136509..5136521,+ p4@AKR1C3
Hg19::chr10:70992187..70992196,- p3@ENST00000450995
Hg19::chr10:70992213..70992241,- p1@ENST00000450995
Hg19::chr10:70992318..70992353,+ p2@HKDC1
Hg19::chr10:70992359..70992379,+ p5@HKDC1
Hg19::chr10:76969764..76969775,+ p9@VDAC2
Hg19::chr11:108800179..108800190,+ p9@DDX10
Hg19::chr11:76480789..76480811,- p@chr11:76480789..76480811
-
Hg19::chr11:76480816..76480852,- p@chr11:76480816..76480852
-
Hg19::chr11:93465296..93465301,- p1@SNORA1
Hg19::chr12:104671230..104671232,- p@chr12:104671230..104671232
-
Hg19::chr12:104674641..104674651,- p6@ENST00000549807
Hg19::chr12:104982622..104982628,+ p13@CHST11
Hg19::chr12:10771068..10771102,- p@chr12:10771068..10771102
-
Hg19::chr12:13025302..13025313,+ p@chr12:13025302..13025313
+
Hg19::chr12:15815689..15815698,- p29@EPS8
Hg19::chr12:15815728..15815729,- p37@EPS8
Hg19::chr12:15815732..15815744,- p21@EPS8
Hg19::chr12:1609586..1609598,+ p5@LOC100292680
Hg19::chr12:21791511..21791535,- p8@LDHB
Hg19::chr12:21791552..21791567,- p7@LDHB
Hg19::chr12:21791577..21791608,- p6@LDHB
Hg19::chr12:50641120..50641132,+ p@chr12:50641120..50641132
+
Hg19::chr12:60015797..60015821,+ p@chr12:60015797..60015821
+
Hg19::chr12:61513089..61513090,+ p@chr12:61513089..61513090
+
Hg19::chr12:75214368..75214385,+ p@chr12:75214368..75214385
+
Hg19::chr12:88693740..88693754,+ p@chr12:88693740..88693754
+
Hg19::chr12:88693779..88693791,+ p@chr12:88693779..88693791
+
Hg19::chr12:88739033..88739034,+ p@chr12:88739033..88739034
+
Hg19::chr12:95571339..95571343,- p@chr12:95571339..95571343
-
Hg19::chr12:98416778..98416782,- p@chr12:98416778..98416782
-
Hg19::chr13:37363331..37363344,- p@chr13:37363331..37363344
-
Hg19::chr13:37363350..37363364,- p@chr13:37363350..37363364
-
Hg19::chr13:73458552..73458595,+ p6@PIBF1
Hg19::chr14:29706068..29706072,- p@chr14:29706068..29706072
-
Hg19::chr14:55913197..55913206,- p@chr14:55913197..55913206
-
Hg19::chr14:80683203..80683212,- p@chr14:80683203..80683212
-
Hg19::chr14:80683293..80683297,- p@chr14:80683293..80683297
-
Hg19::chr14:89297734..89297738,+ p@chr14:89297734..89297738
+
Hg19::chr17:79881409..79881423,- p8@MAFG
Hg19::chr18:21574704..21574720,- p@chr18:21574704..21574720
-
Hg19::chr18:63273310..63273317,+ p@chr18:63273310..63273317
+
Hg19::chr18:71363277..71363286,- p@chr18:71363277..71363286
-
Hg19::chr19:39182748..39182750,+ p@chr19:39182748..39182750
+
Hg19::chr1:10480357..10480375,+ p@chr1:10480357..10480375
+
Hg19::chr1:10480469..10480472,+ p@chr1:10480469..10480472
+
Hg19::chr1:246469336..246469344,- p15@SMYD3
Hg19::chr1:45988542..45988573,- p2@PRDX1
Hg19::chr1:62072099..62072122,+ p@chr1:62072099..62072122
+
Hg19::chr1:8933951..8933957,- p@chr1:8933951..8933957
-
Hg19::chr1:94502511..94502519,+ p@chr1:94502511..94502519
+
Hg19::chr21:45671797..45671832,- p@chr21:45671797..45671832
-
Hg19::chr2:117844646..117844651,+ p@chr2:117844646..117844651
+
Hg19::chr2:117844694..117844699,+ p@chr2:117844694..117844699
+
Hg19::chr2:123150473..123150496,+ p@chr2:123150473..123150496
+
Hg19::chr2:173417533..173417537,- p@chr2:173417533..173417537
-
Hg19::chr2:19985345..19985386,- p@chr2:19985345..19985386
-
Hg19::chr2:224873590..224873601,+ p@chr2:224873590..224873601
+
Hg19::chr2:225434513..225434523,- p29@CUL3
Hg19::chr2:225434538..225434545,- p43@CUL3
Hg19::chr2:234398623..234398628,- p20@USP40
Hg19::chr2:235903637..235903654,+ p@chr2:235903637..235903654
+
Hg19::chr2:235903707..235903722,+ p@chr2:235903707..235903722
+
Hg19::chr2:29353400..29353413,+ p28@CLIP4
Hg19::chr2:60642094..60642124,+ p@chr2:60642094..60642124
+
Hg19::chr2:72855783..72855788,+ p@chr2:72855783..72855788
+
Hg19::chr2:75466400..75466410,+ p@chr2:75466400..75466410
+
Hg19::chr2:75466431..75466447,+ p@chr2:75466431..75466447
+
Hg19::chr3:124826952..124826996,- p7@SLC12A8
Hg19::chr3:139199576..139199582,- p5@RBP2
Hg19::chr3:139199589..139199596,- p4@RBP2
Hg19::chr3:139199602..139199615,- p2@RBP2
Hg19::chr3:139199640..139199652,- p3@RBP2
Hg19::chr3:153697368..153697372,+ p@chr3:153697368..153697372
+
Hg19::chr3:177364707..177364717,+ p@chr3:177364707..177364717
+
Hg19::chr3:27235576..27235597,- p5@NEK10
Hg19::chr3:46204959..46204979,+ p3@CCR3
Hg19::chr3:46205262..46205283,+ p5@CCR3
Hg19::chr3:54081801..54081827,+ p@chr3:54081801..54081827
+
Hg19::chr3:54081908..54081914,+ p@chr3:54081908..54081914
+
Hg19::chr3:58631596..58631603,- p@chr3:58631596..58631603
-
Hg19::chr4:102152036..102152041,- p@chr4:102152036..102152041
-
Hg19::chr4:116100188..116100192,- p@chr4:116100188..116100192
-
Hg19::chr4:137426576..137426593,+ p@chr4:137426576..137426593
+
Hg19::chr5:10288678..10288702,- p@chr5:10288678..10288702
-
Hg19::chr5:13859633..13859640,+ p@chr5:13859633..13859640
+
Hg19::chr5:13860511..13860548,+ p1@ENST00000503244
Hg19::chr5:13986147..13986157,+ p@chr5:13986147..13986157
+
Hg19::chr5:173822039..173822053,+ p@chr5:173822039..173822053
+
Hg19::chr5:179246687..179246707,+ p@chr5:179246687..179246707
+
Hg19::chr5:29793807..29793849,+ p@chr5:29793807..29793849
+
Hg19::chr5:34526058..34526105,+ p@chr5:34526058..34526105
+
Hg19::chr5:34728676..34728679,+ p26@RAI14
Hg19::chr5:72141549..72141572,+ p@chr5:72141549..72141572
+
Hg19::chr5:72141725..72141727,+ p@chr5:72141725..72141727
+
Hg19::chr5:72141969..72142012,+ p@chr5:72141969..72142012
+
Hg19::chr5:78439900..78439935,- p@chr5:78439900..78439935
-
Hg19::chr5:84591097..84591104,- p@chr5:84591097..84591104
-
Hg19::chr5:91690025..91690036,+ p@chr5:91690025..91690036
+
Hg19::chr6:113330168..113330197,- p@chr6:113330168..113330197
-
Hg19::chr6:125589278..125589288,+ p@chr6:125589278..125589288
+
Hg19::chr6:135196569..135196573,- p@chr6:135196569..135196573
-
Hg19::chr6:141742789..141742801,+ p@chr6:141742789..141742801
+
Hg19::chr6:141743015..141743025,+ p@chr6:141743015..141743025
+
Hg19::chr6:14777773..14777808,- p@chr6:14777773..14777808
-
Hg19::chr6:158461610..158461622,+ p@chr6:158461610..158461622
+
Hg19::chr6:161724933..161724947,+ p@chr6:161724933..161724947
+
Hg19::chr6:83673328..83673334,- p@chr6:83673328..83673334
-
Hg19::chr7:134212226..134212234,+ p5@AKR1B10
Hg19::chr7:39636570..39636595,- p@chr7:39636570..39636595
-
Hg19::chr7:83045406..83045430,+ p@chr7:83045406..83045430
+
Hg19::chr8:103549284..103549319,- p@chr8:103549284..103549319
-
Hg19::chr8:117415998..117416010,- p1@ENST00000523110
Hg19::chr8:117416058..117416064,- p2@ENST00000523110
Hg19::chr8:17663434..17663445,- p@chr8:17663434..17663445
-
Hg19::chr8:23918084..23918100,- p@chr8:23918084..23918100
-
Hg19::chr8:32579302..32579316,+ p9@NRG1
Hg19::chr8:32579321..32579340,+ p10@NRG1
Hg19::chr8:32579341..32579372,+ p2@NRG1
Hg19::chr8:62789354..62789363,- p@chr8:62789354..62789363
-
Hg19::chr8:74573966..74573994,- p@chr8:74573966..74573994
-
Hg19::chr9:123163075..123163103,- p17@CDK5RAP2
Hg19::chr9:123163148..123163176,- p18@CDK5RAP2
Hg19::chr9:123165453..123165477,- p6@CDK5RAP2
Hg19::chr9:123165478..123165498,- p2@CDK5RAP2
Hg19::chr9:123165508..123165509,- p20@CDK5RAP2
Hg19::chr9:123165545..123165560,- p3@CDK5RAP2
Hg19::chr9:123165695..123165711,- p11@CDK5RAP2
Hg19::chr9:123165748..123165770,- p5@CDK5RAP2
Hg19::chr9:123165778..123165799,- p8@CDK5RAP2
Hg19::chr9:33233082..33233096,+ p@chr9:33233082..33233096
+
Hg19::chr9:98577619..98577666,+ p@chr9:98577619..98577666
+
Hg19::chrX:153770412..153770420,+ p22@IKBKG
Hg19::chrX:38429930..38429939,+ p12@TSPAN7
Hg19::chrX:38429941..38429957,+ p6@TSPAN7
Hg19::chrX:38429964..38429975,+ p11@TSPAN7


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


p.valueFDRnGenesnPathwayName
3.08879411926494e-050.0097760333874735429Benzo(a)pyrene metabolism (Wikipathways):WP696
2.14511302572539e-050.009776033387473544175metapathway biotransformation (Wikipathways):WP702
0.0001789219686142740.0377525353776118221{POU2F1,21} (Static Module):NA



Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:00470263-alpha-hydroxysteroid dehydrogenase (A-specific) activity0.000196426050335292
GO:0047115trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity0.000294517646387335
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor0.000495130272441399
GO:0016614oxidoreductase activity, acting on CH-OH group of donors0.000495130272441399
GO:0004033aldo-keto reductase activity0.00258215931067551
GO:0016628oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor0.00331866359094554
GO:0006693prostaglandin metabolic process0.00331866359094554
GO:0006692prostanoid metabolic process0.00331866359094554
GO:0005737cytoplasm0.00908720129811135
GO:0016229steroid dehydrogenase activity0.00962304248041086
GO:0044265cellular macromolecule catabolic process0.0158728621380326
GO:0006690icosanoid metabolic process0.0196592456954908
GO:0047017prostaglandin-F synthase activity0.0233314313144762
GO:0009057macromolecule catabolic process0.0243425548611502
GO:0032052bile acid binding0.0384079954882468
GO:0016627oxidoreductase activity, acting on the CH-CH group of donors0.0384079954882468
GO:0008283cell proliferation0.0384079954882468
GO:0007586digestion0.0395363767192471
GO:0044248cellular catabolic process0.0395363767192471
GO:0042808neuronal Cdc2-like kinase binding0.0395363767192471
GO:0030297transmembrane receptor protein tyrosine kinase activator activity0.0395363767192471
GO:0047045testosterone 17-beta-dehydrogenase (NADP+) activity0.0395363767192471
GO:0047756chondroitin 4-sulfotransferase activity0.0395363767192471
GO:0032501multicellular organismal process0.046617552219066
GO:0050327testosterone 17-beta-dehydrogenase activity0.046617552219066
GO:0030971receptor tyrosine kinase binding0.046617552219066



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data

disease_data


Cell Type
Ontology termp-valuen
mucus secreting cell5.42e-1951
seromucus secreting cell1.55e-982
secretory cell5.81e-0736
Disease
Ontology termp-valuen
mucinous adenocarcinoma5.42e-1951
adenocarcinoma2.15e-0925


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


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

TF#promotersEnrichmentp-valueq-value
CEBPB#1051462.582202752027765.9558087765293e-105.71183391011886e-08
EP300#2033492.337486933696743.79787354777007e-093.11583751339795e-07
FOS#2353382.407903533366111.9390957584687e-071.05477719749329e-05
FOSL1#8061113.076404062535940.0009971516741837160.0071491400906208
FOSL2#2355161.907628237133710.009977440276803980.037426689356696
JUN#3725332.907911009486612.03666225375693e-081.45093430504856e-06
JUNB#3726132.802381863223060.0008245495891319770.00627524116733619
JUND#3727542.659942625781942.55805097394752e-123.44722949249168e-10
MAFF#23764155.948805263022384.40808559252356e-082.88999404392698e-06
MAFK#7975366.870608401139983.18013373121331e-208.18054154566962e-18
NFE2#4778179.242763599138696.73642927467144e-128.59030448128707e-10
NR3C1#2908404.217753051034663.38099307939824e-156.04636192156288e-13
STAT3#6774352.592825879580271.17357416348617e-076.77165260001836e-06
TFAP2C#7022221.674669221245950.01145256104528040.04189911454822



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data