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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1752_left_heart_diaphragm_tongue_skeletal_nonsmall_chronic
|full_id=C1752_left_heart_diaphragm_tongue_skeletal_nonsmall_chronic
|gostat_on_coexpression_clusters=GO:0005743!mitochondrial inner membrane!7.2853062072682e-09!6390;9377;7386;4706;518$GO:0019866!organelle inner membrane!7.2853062072682e-09!6390;9377;7386;4706;518$GO:0031966!mitochondrial membrane!1.38927723826689e-08!6390;9377;7386;4706;518$GO:0005740!mitochondrial envelope!1.38927723826689e-08!6390;9377;7386;4706;518$GO:0044429!mitochondrial part!5.02766866119338e-08!6390;9377;7386;4706;518$GO:0031967!organelle envelope!5.02766866119338e-08!6390;9377;7386;4706;518$GO:0031975!envelope!5.02766866119338e-08!6390;9377;7386;4706;518$GO:0006091!generation of precursor metabolites and energy!3.39472935653337e-07!6390;9377;7386;4706;518$GO:0005739!mitochondrion!4.15840126942672e-07!6390;9377;7386;4706;518$GO:0031090!organelle membrane!2.95776471166315e-06!6390;9377;7386;4706;518$GO:0044455!mitochondrial membrane part!6.8159481496038e-06!7386;4706;518$GO:0006118!electron transport!1.44109041859651e-05!6390;9377;7386;4706$GO:0051537!2 iron, 2 sulfur cluster binding!2.07294526011205e-05!6390;7386$GO:0015078!hydrogen ion transmembrane transporter activity!2.5453239825651e-05!9377;7386;518$GO:0015077!monovalent inorganic cation transmembrane transporter activity!2.94318430339811e-05!9377;7386;518$GO:0009055!electron carrier activity!4.31458558391117e-05!6390;9377;4706$GO:0022890!inorganic cation transmembrane transporter activity!5.15813345278657e-05!9377;7386;518$GO:0016491!oxidoreductase activity!0.00020066728170363!6390;9377;7386;4706$GO:0044446!intracellular organelle part!0.000226561805997089!6390;9377;7386;4706;518$GO:0044422!organelle part!0.000226561805997089!6390;9377;7386;4706;518$GO:0005506!iron ion binding!0.000256993805734495!6390;9377;7386$GO:0022892!substrate-specific transporter activity!0.000271153402186825!9377;7386;4706;518$GO:0044444!cytoplasmic part!0.00033485274735131!6390;9377;7386;4706;518$GO:0005746!mitochondrial respiratory chain!0.000350378200014024!7386;4706$GO:0051536!iron-sulfur cluster binding!0.000454123761373975!6390;7386$GO:0051540!metal cluster binding!0.000454123761373975!6390;7386$GO:0000036!acyl carrier activity!0.000898849472674975!4706$GO:0051538!3 iron, 4 sulfur cluster binding!0.000898849472674975!6390$GO:0008324!cation transmembrane transporter activity!0.000952869621391505!9377;7386;518$GO:0006119!oxidative phosphorylation!0.00122936405546985!4706;518$GO:0008177!succinate dehydrogenase (ubiquinone) activity!0.00157289396957018!6390$GO:0016635!oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor!0.00157289396957018!6390$GO:0005737!cytoplasm!0.00268233112191118!6390;9377;7386;4706;518$GO:0015075!ion transmembrane transporter activity!0.00278155976828436!9377;7386;518$GO:0005750!mitochondrial respiratory chain complex III!0.00279592670347524!7386$GO:0045275!respiratory chain complex III!0.00279592670347524!7386$GO:0006732!coenzyme metabolic process!0.00325469978139115!6390;518$GO:0022891!substrate-specific transmembrane transporter activity!0.00376566803596882!9377;7386;518$GO:0051186!cofactor metabolic process!0.00436798411105563!6390;518$GO:0022857!transmembrane transporter activity!0.00442111345383874!9377;7386;518$GO:0043231!intracellular membrane-bound organelle!0.0048177319164742!6390;9377;7386;4706;518$GO:0043227!membrane-bound organelle!0.0048177319164742!6390;9377;7386;4706;518$GO:0005753!mitochondrial proton-transporting ATP synthase complex!0.00701902077007293!518$GO:0016020!membrane!0.00755048581224576!6390;9377;7386;4706;518$GO:0045263!proton-transporting ATP synthase complex, coupling factor F(o)!0.00929238040428365!518$GO:0033177!proton-transporting two-sector ATPase complex, proton-transporting domain!0.00929238040428365!518$GO:0043229!intracellular organelle!0.0113906628961492!6390;9377;7386;4706;518$GO:0043226!organelle!0.0113906628961492!6390;9377;7386;4706;518$GO:0045259!proton-transporting ATP synthase complex!0.0117981586232232!518$GO:0016681!oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor!0.0125653841763755!7386$GO:0008121!ubiquinol-cytochrome-c reductase activity!0.0125653841763755!7386$GO:0016679!oxidoreductase activity, acting on diphenols and related substances as donors!0.0125653841763755!7386$GO:0031177!phosphopantetheine binding!0.0128017131677387!4706$GO:0043234!protein complex!0.0168600035498525!7386;4706;518$GO:0043169!cation binding!0.0168600035498525!6390;9377;7386;4706$GO:0006099!tricarboxylic acid cycle!0.0168600035498525!6390$GO:0051539!4 iron, 4 sulfur cluster binding!0.0168600035498525!6390$GO:0046356!acetyl-CoA catabolic process!0.0168600035498525!6390$GO:0030964!NADH dehydrogenase complex (quinone)!0.0168600035498525!4706$GO:0045271!respiratory chain complex I!0.0168600035498525!4706$GO:0005747!mitochondrial respiratory chain complex I!0.0168600035498525!4706$GO:0006084!acetyl-CoA metabolic process!0.0168600035498525!6390$GO:0004129!cytochrome-c oxidase activity!0.0168600035498525!9377$GO:0009109!coenzyme catabolic process!0.0168600035498525!6390$GO:0016676!oxidoreductase activity, acting on heme group of donors, oxygen as acceptor!0.0168600035498525!9377$GO:0015002!heme-copper terminal oxidase activity!0.0168600035498525!9377$GO:0016675!oxidoreductase activity, acting on heme group of donors!0.0168600035498525!9377$GO:0046872!metal ion binding!0.0173435949224824!6390;9377;7386;4706$GO:0051187!cofactor catabolic process!0.0179616079764488!6390$GO:0043167!ion binding!0.0179616079764488!6390;9377;7386;4706$GO:0009060!aerobic respiration!0.0180251282075584!6390$GO:0006120!mitochondrial electron transport, NADH to ubiquinone!0.0188170305774173!4706$GO:0044424!intracellular part!0.0189038473447777!6390;9377;7386;4706;518$GO:0045333!cellular respiration!0.0196600140575334!6390$GO:0050136!NADH dehydrogenase (quinone) activity!0.022868458163971!4706$GO:0008137!NADH dehydrogenase (ubiquinone) activity!0.022868458163971!4706$GO:0003954!NADH dehydrogenase activity!0.022868458163971!4706$GO:0006633!fatty acid biosynthetic process!0.022868458163971!4706$GO:0046933!hydrogen ion transporting ATP synthase activity, rotational mechanism!0.022868458163971!518$GO:0046961!hydrogen ion transporting ATPase activity, rotational mechanism!0.022868458163971!518$GO:0042775!organelle ATP synthesis coupled electron transport!0.0229192437815628!4706$GO:0016655!oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor!0.0229192437815628!4706$GO:0042773!ATP synthesis coupled electron transport!0.0230985066008147!4706$GO:0015985!energy coupled proton transport, down electrochemical gradient!0.0230985066008147!518$GO:0015986!ATP synthesis coupled proton transport!0.0230985066008147!518$GO:0046394!carboxylic acid biosynthetic process!0.0230985066008147!4706$GO:0006754!ATP biosynthetic process!0.0230985066008147!518$GO:0006753!nucleoside phosphate metabolic process!0.0230985066008147!518$GO:0016627!oxidoreductase activity, acting on the CH-CH group of donors!0.0230985066008147!6390$GO:0016053!organic acid biosynthetic process!0.0230985066008147!4706$GO:0032991!macromolecular complex!0.0234562649297863!7386;4706;518$GO:0046034!ATP metabolic process!0.0252954145620041!518$GO:0019829!cation-transporting ATPase activity!0.0252954145620041!518$GO:0006810!transport!0.0252954145620041!6390;7386;518$GO:0051234!establishment of localization!0.0268075628635383!6390;7386;518$GO:0016310!phosphorylation!0.027561748733795!4706;518$GO:0016469!proton-transporting two-sector ATPase complex!0.027561748733795!518$GO:0016651!oxidoreductase activity, acting on NADH or NADPH!0.027561748733795!4706$GO:0005622!intracellular!0.0280800180736992!6390;9377;7386;4706;518$GO:0015980!energy derivation by oxidation of organic compounds!0.0292458890931553!6390$GO:0009145!purine nucleoside triphosphate biosynthetic process!0.0293578898059736!518$GO:0009206!purine ribonucleoside triphosphate biosynthetic process!0.0293578898059736!518$GO:0009201!ribonucleoside triphosphate biosynthetic process!0.0293578898059736!518$GO:0009142!nucleoside triphosphate biosynthetic process!0.0302681620625602!518$GO:0051179!localization!0.0303555756583221!6390;7386;518$GO:0009205!purine ribonucleoside triphosphate metabolic process!0.0305242924512726!518$GO:0009144!purine nucleoside triphosphate metabolic process!0.0305242924512726!518$GO:0009199!ribonucleoside triphosphate metabolic process!0.0305242924512726!518$GO:0015992!proton transport!0.0306450127356899!518$GO:0006818!hydrogen transport!0.0306450127356899!518$GO:0006752!group transfer coenzyme metabolic process!0.0310383140586656!518$GO:0009141!nucleoside triphosphate metabolic process!0.032460169643806!518$GO:0009152!purine ribonucleotide biosynthetic process!0.032460169643806!518$GO:0006793!phosphorus metabolic process!0.0334633945678108!4706;518$GO:0006796!phosphate metabolic process!0.0334633945678108!4706;518$GO:0009150!purine ribonucleotide metabolic process!0.0334633945678108!518$GO:0009260!ribonucleotide biosynthetic process!0.0334633945678108!518$GO:0006164!purine nucleotide biosynthetic process!0.0335985227240659!518$GO:0046914!transition metal ion binding!0.0343342368163303!6390;9377;7386$GO:0006163!purine nucleotide metabolic process!0.034805727032307!518$GO:0009259!ribonucleotide metabolic process!0.034805727032307!518$GO:0006631!fatty acid metabolic process!0.0389637183680753!4706$GO:0009108!coenzyme biosynthetic process!0.0394470093840013!518$GO:0044249!cellular biosynthetic process!0.0399590195081676!4706;518$GO:0042625!ATPase activity, coupled to transmembrane movement of ions!0.0411754249305958!518$GO:0051188!cofactor biosynthetic process!0.043380794214328!518$GO:0019842!vitamin binding!0.0478595387983076!4706$GO:0009165!nucleotide biosynthetic process!0.0493947362250097!518
|id=C1752
|id=C1752
}}
}}

Revision as of 17:35, 18 May 2012


Full id: C1752_left_heart_diaphragm_tongue_skeletal_nonsmall_chronic



Phase1 CAGE Peaks

Hg19::chr15:75230368..75230470,-p1@COX5A
Hg19::chr16:23607619..23607645,-p1@NDUFAB1
Hg19::chr19:29704017..29704086,-p1@UQCRFS1
Hg19::chr1:17380510..17380541,-p1@SDHB
Hg19::chr2:176046426..176046445,-p1@ATP5G3


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 IDGO nameFDR corrected p-value
GO:0005743mitochondrial inner membrane7.2853062072682e-09
GO:0019866organelle inner membrane7.2853062072682e-09
GO:0031966mitochondrial membrane1.38927723826689e-08
GO:0005740mitochondrial envelope1.38927723826689e-08
GO:0044429mitochondrial part5.02766866119338e-08
GO:0031967organelle envelope5.02766866119338e-08
GO:0031975envelope5.02766866119338e-08
GO:0006091generation of precursor metabolites and energy3.39472935653337e-07
GO:0005739mitochondrion4.15840126942672e-07
GO:0031090organelle membrane2.95776471166315e-06
GO:0044455mitochondrial membrane part6.8159481496038e-06
GO:0006118electron transport1.44109041859651e-05
GO:00515372 iron, 2 sulfur cluster binding2.07294526011205e-05
GO:0015078hydrogen ion transmembrane transporter activity2.5453239825651e-05
GO:0015077monovalent inorganic cation transmembrane transporter activity2.94318430339811e-05
GO:0009055electron carrier activity4.31458558391117e-05
GO:0022890inorganic cation transmembrane transporter activity5.15813345278657e-05
GO:0016491oxidoreductase activity0.00020066728170363
GO:0044446intracellular organelle part0.000226561805997089
GO:0044422organelle part0.000226561805997089
GO:0005506iron ion binding0.000256993805734495
GO:0022892substrate-specific transporter activity0.000271153402186825
GO:0044444cytoplasmic part0.00033485274735131
GO:0005746mitochondrial respiratory chain0.000350378200014024
GO:0051536iron-sulfur cluster binding0.000454123761373975
GO:0051540metal cluster binding0.000454123761373975
GO:0000036acyl carrier activity0.000898849472674975
GO:00515383 iron, 4 sulfur cluster binding0.000898849472674975
GO:0008324cation transmembrane transporter activity0.000952869621391505
GO:0006119oxidative phosphorylation0.00122936405546985
GO:0008177succinate dehydrogenase (ubiquinone) activity0.00157289396957018
GO:0016635oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor0.00157289396957018
GO:0005737cytoplasm0.00268233112191118
GO:0015075ion transmembrane transporter activity0.00278155976828436
GO:0005750mitochondrial respiratory chain complex III0.00279592670347524
GO:0045275respiratory chain complex III0.00279592670347524
GO:0006732coenzyme metabolic process0.00325469978139115
GO:0022891substrate-specific transmembrane transporter activity0.00376566803596882
GO:0051186cofactor metabolic process0.00436798411105563
GO:0022857transmembrane transporter activity0.00442111345383874
GO:0043231intracellular membrane-bound organelle0.0048177319164742
GO:0043227membrane-bound organelle0.0048177319164742
GO:0005753mitochondrial proton-transporting ATP synthase complex0.00701902077007293
GO:0016020membrane0.00755048581224576
GO:0045263proton-transporting ATP synthase complex, coupling factor F(o)0.00929238040428365
GO:0033177proton-transporting two-sector ATPase complex, proton-transporting domain0.00929238040428365
GO:0043229intracellular organelle0.0113906628961492
GO:0043226organelle0.0113906628961492
GO:0045259proton-transporting ATP synthase complex0.0117981586232232
GO:0016681oxidoreductase activity, acting on diphenols and related substances as donors, cytochrome as acceptor0.0125653841763755
GO:0008121ubiquinol-cytochrome-c reductase activity0.0125653841763755
GO:0016679oxidoreductase activity, acting on diphenols and related substances as donors0.0125653841763755
GO:0031177phosphopantetheine binding0.0128017131677387
GO:0043234protein complex0.0168600035498525
GO:0043169cation binding0.0168600035498525
GO:0006099tricarboxylic acid cycle0.0168600035498525
GO:00515394 iron, 4 sulfur cluster binding0.0168600035498525
GO:0046356acetyl-CoA catabolic process0.0168600035498525
GO:0030964NADH dehydrogenase complex (quinone)0.0168600035498525
GO:0045271respiratory chain complex I0.0168600035498525
GO:0005747mitochondrial respiratory chain complex I0.0168600035498525
GO:0006084acetyl-CoA metabolic process0.0168600035498525
GO:0004129cytochrome-c oxidase activity0.0168600035498525
GO:0009109coenzyme catabolic process0.0168600035498525
GO:0016676oxidoreductase activity, acting on heme group of donors, oxygen as acceptor0.0168600035498525
GO:0015002heme-copper terminal oxidase activity0.0168600035498525
GO:0016675oxidoreductase activity, acting on heme group of donors0.0168600035498525
GO:0046872metal ion binding0.0173435949224824
GO:0051187cofactor catabolic process0.0179616079764488
GO:0043167ion binding0.0179616079764488
GO:0009060aerobic respiration0.0180251282075584
GO:0006120mitochondrial electron transport, NADH to ubiquinone0.0188170305774173
GO:0044424intracellular part0.0189038473447777
GO:0045333cellular respiration0.0196600140575334
GO:0050136NADH dehydrogenase (quinone) activity0.022868458163971
GO:0008137NADH dehydrogenase (ubiquinone) activity0.022868458163971
GO:0003954NADH dehydrogenase activity0.022868458163971
GO:0006633fatty acid biosynthetic process0.022868458163971
GO:0046933hydrogen ion transporting ATP synthase activity, rotational mechanism0.022868458163971
GO:0046961hydrogen ion transporting ATPase activity, rotational mechanism0.022868458163971
GO:0042775organelle ATP synthesis coupled electron transport0.0229192437815628
GO:0016655oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor0.0229192437815628
GO:0042773ATP synthesis coupled electron transport0.0230985066008147
GO:0015985energy coupled proton transport, down electrochemical gradient0.0230985066008147
GO:0015986ATP synthesis coupled proton transport0.0230985066008147
GO:0046394carboxylic acid biosynthetic process0.0230985066008147
GO:0006754ATP biosynthetic process0.0230985066008147
GO:0006753nucleoside phosphate metabolic process0.0230985066008147
GO:0016627oxidoreductase activity, acting on the CH-CH group of donors0.0230985066008147
GO:0016053organic acid biosynthetic process0.0230985066008147
GO:0032991macromolecular complex0.0234562649297863
GO:0046034ATP metabolic process0.0252954145620041
GO:0019829cation-transporting ATPase activity0.0252954145620041
GO:0006810transport0.0252954145620041
GO:0051234establishment of localization0.0268075628635383
GO:0016310phosphorylation0.027561748733795
GO:0016469proton-transporting two-sector ATPase complex0.027561748733795
GO:0016651oxidoreductase activity, acting on NADH or NADPH0.027561748733795
GO:0005622intracellular0.0280800180736992
GO:0015980energy derivation by oxidation of organic compounds0.0292458890931553
GO:0009145purine nucleoside triphosphate biosynthetic process0.0293578898059736
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0293578898059736
GO:0009201ribonucleoside triphosphate biosynthetic process0.0293578898059736
GO:0009142nucleoside triphosphate biosynthetic process0.0302681620625602
GO:0051179localization0.0303555756583221
GO:0009205purine ribonucleoside triphosphate metabolic process0.0305242924512726
GO:0009144purine nucleoside triphosphate metabolic process0.0305242924512726
GO:0009199ribonucleoside triphosphate metabolic process0.0305242924512726
GO:0015992proton transport0.0306450127356899
GO:0006818hydrogen transport0.0306450127356899
GO:0006752group transfer coenzyme metabolic process0.0310383140586656
GO:0009141nucleoside triphosphate metabolic process0.032460169643806
GO:0009152purine ribonucleotide biosynthetic process0.032460169643806
GO:0006793phosphorus metabolic process0.0334633945678108
GO:0006796phosphate metabolic process0.0334633945678108
GO:0009150purine ribonucleotide metabolic process0.0334633945678108
GO:0009260ribonucleotide biosynthetic process0.0334633945678108
GO:0006164purine nucleotide biosynthetic process0.0335985227240659
GO:0046914transition metal ion binding0.0343342368163303
GO:0006163purine nucleotide metabolic process0.034805727032307
GO:0009259ribonucleotide metabolic process0.034805727032307
GO:0006631fatty acid metabolic process0.0389637183680753
GO:0009108coenzyme biosynthetic process0.0394470093840013
GO:0044249cellular biosynthetic process0.0399590195081676
GO:0042625ATPase activity, coupled to transmembrane movement of ions0.0411754249305958
GO:0051188cofactor biosynthetic process0.043380794214328
GO:0019842vitamin binding0.0478595387983076
GO:0009165nucleotide biosynthetic process0.0493947362250097



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 termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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.