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MCL coexpression mm9:3070: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0022891;substrate-specific transmembrane transporter activity;0.00250991568074336;28080,12866,30057!GO:0015078;hydrogen ion transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0015077;monovalent inorganic cation transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0022857;transmembrane transporter activity;0.00250991568074336;28080,12866,30057!GO:0022892;substrate-specific transporter activity;0.00250991568074336;28080,12866,30057!GO:0005739;mitochondrion;0.00250991568074336;28080,12866,30057!GO:0015399;primary active transmembrane transporter activity;0.00250991568074336;28080,30057!GO:0015405;P-P-bond-hydrolysis-driven transmembrane transporter activity;0.00250991568074336;28080,30057!GO:0022890;inorganic cation transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0005743;mitochondrial inner membrane;0.0057225342407789;12866,30057!GO:0019866;organelle inner membrane;0.0057225342407789;12866,30057!GO:0031966;mitochondrial membrane;0.0057225342407789;12866,30057!GO:0005740;mitochondrial envelope;0.0057225342407789;12866,30057!GO:0042719;mitochondrial intermembrane space protein transporter complex;0.0057225342407789;30057!GO:0007007;inner mitochondrial membrane organization and biogenesis;0.0057225342407789;30057!GO:0045039;protein import into mitochondrial inner membrane;0.0057225342407789;30057!GO:0043681;protein import into mitochondrion;0.0057225342407789;30057!GO:0022804;active transmembrane transporter activity;0.00690195750783833;28080,30057!GO:0044429;mitochondrial part;0.00690195750783833;12866,30057!GO:0045261;proton-transporting ATP synthase complex, catalytic core F(1);0.00729543162843668;28080!GO:0006626;protein targeting to mitochondrion;0.00768195958890141;30057!GO:0033178;proton-transporting two-sector ATPase complex, catalytic domain;0.00768195958890141;28080!GO:0031975;envelope;0.00768195958890141;12866,30057!GO:0031967;organelle envelope;0.00768195958890141;12866,30057!GO:0006091;generation of precursor metabolites and energy;0.00876348180750257;28080,12866!GO:0005758;mitochondrial intermembrane space;0.0100713616879707;30057!GO:0008324;cation transmembrane transporter activity;0.0100713616879707;28080,12866!GO:0022884;macromolecule transmembrane transporter activity;0.0105338042889815;30057!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0105338042889815;30057!GO:0007006;mitochondrial membrane organization and biogenesis;0.0105338042889815;30057!GO:0031090;organelle membrane;0.011469811440207;12866,30057!GO:0045259;proton-transporting ATP synthase complex;0.013083604919028;28080!GO:0008320;protein transmembrane transporter activity;0.013083604919028;30057!GO:0015075;ion transmembrane transporter activity;0.013083604919028;28080,12866!GO:0004129;cytochrome-c oxidase activity;0.013083604919028;12866!GO:0031970;organelle envelope lumen;0.013083604919028;30057!GO:0016676;oxidoreductase activity, acting on heme group of donors, oxygen as acceptor;0.013083604919028;12866!GO:0015002;heme-copper terminal oxidase activity;0.013083604919028;12866!GO:0016675;oxidoreductase activity, acting on heme group of donors;0.013083604919028;12866!GO:0006839;mitochondrial transport;0.0133632354221828;30057!GO:0008553;hydrogen-exporting ATPase activity, phosphorylative mechanism;0.014220953171138;28080!GO:0005746;mitochondrial respiratory chain;0.016171419771992;12866!GO:0044444;cytoplasmic part;0.016171419771992;28080,12866,30057!GO:0015985;energy coupled proton transport, down electrochemical gradient;0.016729534515831;28080!GO:0015986;ATP synthesis coupled proton transport;0.016729534515831;28080!GO:0006754;ATP biosynthetic process;0.0179648478012853;28080!GO:0006753;nucleoside phosphate metabolic process;0.0179648478012853;28080!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0179648478012853;28080!GO:0016469;proton-transporting two-sector ATPase complex;0.0179648478012853;28080!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0179648478012853;28080!GO:0046034;ATP metabolic process;0.0190375126296127;28080!GO:0044455;mitochondrial membrane part;0.0198541431756748;12866!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0019829;cation-transporting ATPase activity;0.0202814394360515;28080!GO:0009142;nucleoside triphosphate biosynthetic process;0.0202814394360515;28080!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0009199;ribonucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0006119;oxidative phosphorylation;0.0202814394360515;28080!GO:0009144;purine nucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0015992;proton transport;0.0204644825670295;28080!GO:0065002;intracellular protein transport across a membrane;0.0204644825670295;30057!GO:0006752;group transfer coenzyme metabolic process;0.0204644825670295;28080!GO:0009141;nucleoside triphosphate metabolic process;0.0208936356106975;28080!GO:0009152;purine ribonucleotide biosynthetic process;0.020943364298783;28080!GO:0006818;hydrogen transport;0.020991568887858;28080!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0213937248210542;28080!GO:0009260;ribonucleotide biosynthetic process;0.0214338896913356;28080!GO:0009150;purine ribonucleotide metabolic process;0.0218509542515154;28080!GO:0017038;protein import;0.0218509542515154;30057!GO:0006164;purine nucleotide biosynthetic process;0.0218829475959845;28080!GO:0007005;mitochondrion organization and biogenesis;0.022244838478027;30057!GO:0009259;ribonucleotide metabolic process;0.0229230373481143;28080!GO:0006163;purine nucleotide metabolic process;0.0239045732786988;28080!GO:0042625;ATPase activity, coupled to transmembrane movement of ions;0.0258116144597875;28080!GO:0009108;coenzyme biosynthetic process;0.0261025808848761;28080!GO:0051188;cofactor biosynthetic process;0.0297826186884842;28080!GO:0043492;ATPase activity, coupled to movement of substances;0.0346164408385876;28080!GO:0042626;ATPase activity, coupled to transmembrane movement of substances;0.0346164408385876;28080!GO:0016820;hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances;0.0346164408385876;28080!GO:0009165;nucleotide biosynthetic process;0.0359511133638621;28080!GO:0043234;protein complex;0.0367369378447161;28080,30057!GO:0009055;electron carrier activity;0.0390923774018828;12866!GO:0008565;protein transporter activity;0.040605287285226;30057!GO:0005737;cytoplasm;0.0424474218572633;28080,12866,30057!GO:0006732;coenzyme metabolic process;0.044071881129752;28080!GO:0009117;nucleotide metabolic process;0.0495398307059036;28080!}}
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0022891;substrate-specific transmembrane transporter activity;0.00250991568074336;28080,12866,30057!GO:0015078;hydrogen ion transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0015077;monovalent inorganic cation transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0022857;transmembrane transporter activity;0.00250991568074336;28080,12866,30057!GO:0022892;substrate-specific transporter activity;0.00250991568074336;28080,12866,30057!GO:0005739;mitochondrion;0.00250991568074336;28080,12866,30057!GO:0015399;primary active transmembrane transporter activity;0.00250991568074336;28080,30057!GO:0015405;P-P-bond-hydrolysis-driven transmembrane transporter activity;0.00250991568074336;28080,30057!GO:0022890;inorganic cation transmembrane transporter activity;0.00250991568074336;28080,12866!GO:0005743;mitochondrial inner membrane;0.0057225342407789;12866,30057!GO:0019866;organelle inner membrane;0.0057225342407789;12866,30057!GO:0031966;mitochondrial membrane;0.0057225342407789;12866,30057!GO:0005740;mitochondrial envelope;0.0057225342407789;12866,30057!GO:0042719;mitochondrial intermembrane space protein transporter complex;0.0057225342407789;30057!GO:0007007;inner mitochondrial membrane organization and biogenesis;0.0057225342407789;30057!GO:0045039;protein import into mitochondrial inner membrane;0.0057225342407789;30057!GO:0043681;protein import into mitochondrion;0.0057225342407789;30057!GO:0022804;active transmembrane transporter activity;0.00690195750783833;28080,30057!GO:0044429;mitochondrial part;0.00690195750783833;12866,30057!GO:0045261;proton-transporting ATP synthase complex, catalytic core F(1);0.00729543162843668;28080!GO:0006626;protein targeting to mitochondrion;0.00768195958890141;30057!GO:0033178;proton-transporting two-sector ATPase complex, catalytic domain;0.00768195958890141;28080!GO:0031975;envelope;0.00768195958890141;12866,30057!GO:0031967;organelle envelope;0.00768195958890141;12866,30057!GO:0006091;generation of precursor metabolites and energy;0.00876348180750257;28080,12866!GO:0005758;mitochondrial intermembrane space;0.0100713616879707;30057!GO:0008324;cation transmembrane transporter activity;0.0100713616879707;28080,12866!GO:0022884;macromolecule transmembrane transporter activity;0.0105338042889815;30057!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0105338042889815;30057!GO:0007006;mitochondrial membrane organization and biogenesis;0.0105338042889815;30057!GO:0031090;organelle membrane;0.011469811440207;12866,30057!GO:0045259;proton-transporting ATP synthase complex;0.013083604919028;28080!GO:0008320;protein transmembrane transporter activity;0.013083604919028;30057!GO:0015075;ion transmembrane transporter activity;0.013083604919028;28080,12866!GO:0004129;cytochrome-c oxidase activity;0.013083604919028;12866!GO:0031970;organelle envelope lumen;0.013083604919028;30057!GO:0016676;oxidoreductase activity, acting on heme group of donors, oxygen as acceptor;0.013083604919028;12866!GO:0015002;heme-copper terminal oxidase activity;0.013083604919028;12866!GO:0016675;oxidoreductase activity, acting on heme group of donors;0.013083604919028;12866!GO:0006839;mitochondrial transport;0.0133632354221828;30057!GO:0008553;hydrogen-exporting ATPase activity, phosphorylative mechanism;0.014220953171138;28080!GO:0005746;mitochondrial respiratory chain;0.016171419771992;12866!GO:0044444;cytoplasmic part;0.016171419771992;28080,12866,30057!GO:0015985;energy coupled proton transport, down electrochemical gradient;0.016729534515831;28080!GO:0015986;ATP synthesis coupled proton transport;0.016729534515831;28080!GO:0006754;ATP biosynthetic process;0.0179648478012853;28080!GO:0006753;nucleoside phosphate metabolic process;0.0179648478012853;28080!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0179648478012853;28080!GO:0016469;proton-transporting two-sector ATPase complex;0.0179648478012853;28080!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0179648478012853;28080!GO:0046034;ATP metabolic process;0.0190375126296127;28080!GO:0044455;mitochondrial membrane part;0.0198541431756748;12866!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0198541431756748;28080!GO:0019829;cation-transporting ATPase activity;0.0202814394360515;28080!GO:0009142;nucleoside triphosphate biosynthetic process;0.0202814394360515;28080!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0009199;ribonucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0006119;oxidative phosphorylation;0.0202814394360515;28080!GO:0009144;purine nucleoside triphosphate metabolic process;0.0202814394360515;28080!GO:0015992;proton transport;0.0204644825670295;28080!GO:0065002;intracellular protein transport across a membrane;0.0204644825670295;30057!GO:0006752;group transfer coenzyme metabolic process;0.0204644825670295;28080!GO:0009141;nucleoside triphosphate metabolic process;0.0208936356106975;28080!GO:0009152;purine ribonucleotide biosynthetic process;0.020943364298783;28080!GO:0006818;hydrogen transport;0.020991568887858;28080!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0213937248210542;28080!GO:0009260;ribonucleotide biosynthetic process;0.0214338896913356;28080!GO:0009150;purine ribonucleotide metabolic process;0.0218509542515154;28080!GO:0017038;protein import;0.0218509542515154;30057!GO:0006164;purine nucleotide biosynthetic process;0.0218829475959845;28080!GO:0007005;mitochondrion organization and biogenesis;0.022244838478027;30057!GO:0009259;ribonucleotide metabolic process;0.0229230373481143;28080!GO:0006163;purine nucleotide metabolic process;0.0239045732786988;28080!GO:0042625;ATPase activity, coupled to transmembrane movement of ions;0.0258116144597875;28080!GO:0009108;coenzyme biosynthetic process;0.0261025808848761;28080!GO:0051188;cofactor biosynthetic process;0.0297826186884842;28080!GO:0043492;ATPase activity, coupled to movement of substances;0.0346164408385876;28080!GO:0042626;ATPase activity, coupled to transmembrane movement of substances;0.0346164408385876;28080!GO:0016820;hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances;0.0346164408385876;28080!GO:0009165;nucleotide biosynthetic process;0.0359511133638621;28080!GO:0043234;protein complex;0.0367369378447161;28080,30057!GO:0009055;electron carrier activity;0.0390923774018828;12866!GO:0008565;protein transporter activity;0.040605287285226;30057!GO:0005737;cytoplasm;0.0424474218572633;28080,12866,30057!GO:0006732;coenzyme metabolic process;0.044071881129752;28080!GO:0009117;nucleotide metabolic process;0.0495398307059036;28080!
}}

Revision as of 11:43, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:91931888..91931899,-p2@Atp5o
Mm9::chr9:50412012..50412057,+p1@Timm8b
Mm9::chr9:79607562..79607579,-p2@Cox7a2


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


GO IDGO nameFDR corrected p-value
GO:0022891substrate-specific transmembrane transporter activity0.00250991568074336
GO:0015078hydrogen ion transmembrane transporter activity0.00250991568074336
GO:0015077monovalent inorganic cation transmembrane transporter activity0.00250991568074336
GO:0022857transmembrane transporter activity0.00250991568074336
GO:0022892substrate-specific transporter activity0.00250991568074336
GO:0005739mitochondrion0.00250991568074336
GO:0015399primary active transmembrane transporter activity0.00250991568074336
GO:0015405P-P-bond-hydrolysis-driven transmembrane transporter activity0.00250991568074336
GO:0022890inorganic cation transmembrane transporter activity0.00250991568074336
GO:0005743mitochondrial inner membrane0.0057225342407789
GO:0019866organelle inner membrane0.0057225342407789
GO:0031966mitochondrial membrane0.0057225342407789
GO:0005740mitochondrial envelope0.0057225342407789
GO:0042719mitochondrial intermembrane space protein transporter complex0.0057225342407789
GO:0007007inner mitochondrial membrane organization and biogenesis0.0057225342407789
GO:0045039protein import into mitochondrial inner membrane0.0057225342407789
GO:0043681protein import into mitochondrion0.0057225342407789
GO:0022804active transmembrane transporter activity0.00690195750783833
GO:0044429mitochondrial part0.00690195750783833
GO:0045261proton-transporting ATP synthase complex, catalytic core F(1)0.00729543162843668
GO:0006626protein targeting to mitochondrion0.00768195958890141
GO:0033178proton-transporting two-sector ATPase complex, catalytic domain0.00768195958890141
GO:0031975envelope0.00768195958890141
GO:0031967organelle envelope0.00768195958890141
GO:0006091generation of precursor metabolites and energy0.00876348180750257
GO:0005758mitochondrial intermembrane space0.0100713616879707
GO:0008324cation transmembrane transporter activity0.0100713616879707
GO:0022884macromolecule transmembrane transporter activity0.0105338042889815
GO:0015450P-P-bond-hydrolysis-driven protein transmembrane transporter activity0.0105338042889815
GO:0007006mitochondrial membrane organization and biogenesis0.0105338042889815
GO:0031090organelle membrane0.011469811440207
GO:0045259proton-transporting ATP synthase complex0.013083604919028
GO:0008320protein transmembrane transporter activity0.013083604919028
GO:0015075ion transmembrane transporter activity0.013083604919028
GO:0004129cytochrome-c oxidase activity0.013083604919028
GO:0031970organelle envelope lumen0.013083604919028
GO:0016676oxidoreductase activity, acting on heme group of donors, oxygen as acceptor0.013083604919028
GO:0015002heme-copper terminal oxidase activity0.013083604919028
GO:0016675oxidoreductase activity, acting on heme group of donors0.013083604919028
GO:0006839mitochondrial transport0.0133632354221828
GO:0008553hydrogen-exporting ATPase activity, phosphorylative mechanism0.014220953171138
GO:0005746mitochondrial respiratory chain0.016171419771992
GO:0044444cytoplasmic part0.016171419771992
GO:0015985energy coupled proton transport, down electrochemical gradient0.016729534515831
GO:0015986ATP synthesis coupled proton transport0.016729534515831
GO:0006754ATP biosynthetic process0.0179648478012853
GO:0006753nucleoside phosphate metabolic process0.0179648478012853
GO:0046933hydrogen ion transporting ATP synthase activity, rotational mechanism0.0179648478012853
GO:0016469proton-transporting two-sector ATPase complex0.0179648478012853
GO:0046961hydrogen ion transporting ATPase activity, rotational mechanism0.0179648478012853
GO:0046034ATP metabolic process0.0190375126296127
GO:0044455mitochondrial membrane part0.0198541431756748
GO:0009145purine nucleoside triphosphate biosynthetic process0.0198541431756748
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0198541431756748
GO:0009201ribonucleoside triphosphate biosynthetic process0.0198541431756748
GO:0019829cation-transporting ATPase activity0.0202814394360515
GO:0009142nucleoside triphosphate biosynthetic process0.0202814394360515
GO:0009205purine ribonucleoside triphosphate metabolic process0.0202814394360515
GO:0009199ribonucleoside triphosphate metabolic process0.0202814394360515
GO:0006119oxidative phosphorylation0.0202814394360515
GO:0009144purine nucleoside triphosphate metabolic process0.0202814394360515
GO:0015992proton transport0.0204644825670295
GO:0065002intracellular protein transport across a membrane0.0204644825670295
GO:0006752group transfer coenzyme metabolic process0.0204644825670295
GO:0009141nucleoside triphosphate metabolic process0.0208936356106975
GO:0009152purine ribonucleotide biosynthetic process0.020943364298783
GO:0006818hydrogen transport0.020991568887858
GO:0015662ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism0.0213937248210542
GO:0009260ribonucleotide biosynthetic process0.0214338896913356
GO:0009150purine ribonucleotide metabolic process0.0218509542515154
GO:0017038protein import0.0218509542515154
GO:0006164purine nucleotide biosynthetic process0.0218829475959845
GO:0007005mitochondrion organization and biogenesis0.022244838478027
GO:0009259ribonucleotide metabolic process0.0229230373481143
GO:0006163purine nucleotide metabolic process0.0239045732786988
GO:0042625ATPase activity, coupled to transmembrane movement of ions0.0258116144597875
GO:0009108coenzyme biosynthetic process0.0261025808848761
GO:0051188cofactor biosynthetic process0.0297826186884842
GO:0043492ATPase activity, coupled to movement of substances0.0346164408385876
GO:0042626ATPase activity, coupled to transmembrane movement of substances0.0346164408385876
GO:0016820hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances0.0346164408385876
GO:0009165nucleotide biosynthetic process0.0359511133638621
GO:0043234protein complex0.0367369378447161
GO:0009055electron carrier activity0.0390923774018828
GO:0008565protein transporter activity0.040605287285226
GO:0005737cytoplasm0.0424474218572633
GO:0006732coenzyme metabolic process0.044071881129752
GO:0009117nucleotide metabolic process0.0495398307059036



Relative expression of the co-expression cluster over median <br>Analyst:



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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


TFBS overrepresentation<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)

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