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MCL coexpression mm9:799: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0007035;vacuolar acidification;0.0157769315378812;11984!GO:0045851;pH reduction;0.0157769315378812;11984!GO:0051452;cellular pH reduction;0.0157769315378812;11984!GO:0051453;regulation of cellular pH;0.0157769315378812;11984!GO:0007042;lysosomal lumen acidification;0.0157769315378812;11984!GO:0030641;cellular hydrogen ion homeostasis;0.0197195436675489;11984!GO:0004630;phospholipase D activity;0.0250893514230226;18807!GO:0033176;proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0016471;vacuolar proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0030004;cellular monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0055067;monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0045309;protein phosphorylated amino acid binding;0.0262819222260888;19261!GO:0006910;phagocytosis, recognition;0.0331763951638302;19261!GO:0051219;phosphoprotein binding;0.0331763951638302;19261!GO:0006911;phagocytosis, engulfment;0.0331763951638302;19261!GO:0007040;lysosome organization and biogenesis;0.0331763951638302;11984!GO:0050766;positive regulation of phagocytosis;0.0331763951638302;19261!GO:0050764;regulation of phagocytosis;0.0331763951638302;19261!GO:0005774;vacuolar membrane;0.0331763951638302;11984!GO:0006885;regulation of pH;0.035451443793266;11984!GO:0007033;vacuole organization and biogenesis;0.0356360882026992;11984!GO:0044437;vacuolar part;0.0358036526335401;11984!GO:0045807;positive regulation of endocytosis;0.0359563649399432;19261!GO:0008553;hydrogen-exporting ATPase activity, phosphorylative mechanism;0.0393710703231679;11984!GO:0015985;energy coupled proton transport, down electrochemical gradient;0.0426270730378642;11984!GO:0015986;ATP synthesis coupled proton transport;0.0426270730378642;11984!GO:0051050;positive regulation of transport;0.0426270730378642;19261!GO:0030100;regulation of endocytosis;0.0426270730378642;19261!GO:0006754;ATP biosynthetic process;0.0426270730378642;11984!GO:0006753;nucleoside phosphate metabolic process;0.0426270730378642;11984!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0426270730378642;11984!GO:0016469;proton-transporting two-sector ATPase complex;0.0426270730378642;11984!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0426270730378642;11984!GO:0006909;phagocytosis;0.0426270730378642;19261!GO:0007015;actin filament organization;0.0426270730378642;19261!GO:0046034;ATP metabolic process;0.0426270730378642;11984!GO:0008037;cell recognition;0.0426270730378642;19261!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0004620;phospholipase activity;0.0426270730378642;18807!GO:0019829;cation-transporting ATPase activity;0.0426270730378642;11984!GO:0009142;nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0009199;ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0006119;oxidative phosphorylation;0.0426270730378642;11984!GO:0009144;purine nucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0015992;proton transport;0.0432289395035572;11984!GO:0006752;group transfer coenzyme metabolic process;0.0432289395035572;11984!GO:0009141;nucleoside triphosphate metabolic process;0.0432289395035572;11984!GO:0009152;purine ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0006818;hydrogen transport;0.0432289395035572;11984!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0432289395035572;11984!GO:0009260;ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0016298;lipase activity;0.0432289395035572;18807!GO:0007160;cell-matrix adhesion;0.0432289395035572;19261!GO:0009150;purine ribonucleotide metabolic process;0.0432289395035572;11984!GO:0008081;phosphoric diester hydrolase activity;0.0432289395035572;18807!GO:0006164;purine nucleotide biosynthetic process;0.0432289395035572;11984!GO:0031589;cell-substrate adhesion;0.0438092038771068;19261!GO:0009259;ribonucleotide metabolic process;0.0450093633137073;11984!GO:0006163;purine nucleotide metabolic process;0.0467984890472701;11984!
|gostat_on_MCL_coexpression=GO:0007035;vacuolar acidification;0.0157769315378812;11984!GO:0045851;pH reduction;0.0157769315378812;11984!GO:0051452;cellular pH reduction;0.0157769315378812;11984!GO:0051453;regulation of cellular pH;0.0157769315378812;11984!GO:0007042;lysosomal lumen acidification;0.0157769315378812;11984!GO:0030641;cellular hydrogen ion homeostasis;0.0197195436675489;11984!GO:0004630;phospholipase D activity;0.0250893514230226;18807!GO:0033176;proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0016471;vacuolar proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0030004;cellular monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0055067;monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0045309;protein phosphorylated amino acid binding;0.0262819222260888;19261!GO:0006910;phagocytosis, recognition;0.0331763951638302;19261!GO:0051219;phosphoprotein binding;0.0331763951638302;19261!GO:0006911;phagocytosis, engulfment;0.0331763951638302;19261!GO:0007040;lysosome organization and biogenesis;0.0331763951638302;11984!GO:0050766;positive regulation of phagocytosis;0.0331763951638302;19261!GO:0050764;regulation of phagocytosis;0.0331763951638302;19261!GO:0005774;vacuolar membrane;0.0331763951638302;11984!GO:0006885;regulation of pH;0.035451443793266;11984!GO:0007033;vacuole organization and biogenesis;0.0356360882026992;11984!GO:0044437;vacuolar part;0.0358036526335401;11984!GO:0045807;positive regulation of endocytosis;0.0359563649399432;19261!GO:0008553;hydrogen-exporting ATPase activity, phosphorylative mechanism;0.0393710703231679;11984!GO:0015985;energy coupled proton transport, down electrochemical gradient;0.0426270730378642;11984!GO:0015986;ATP synthesis coupled proton transport;0.0426270730378642;11984!GO:0051050;positive regulation of transport;0.0426270730378642;19261!GO:0030100;regulation of endocytosis;0.0426270730378642;19261!GO:0006754;ATP biosynthetic process;0.0426270730378642;11984!GO:0006753;nucleoside phosphate metabolic process;0.0426270730378642;11984!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0426270730378642;11984!GO:0016469;proton-transporting two-sector ATPase complex;0.0426270730378642;11984!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0426270730378642;11984!GO:0006909;phagocytosis;0.0426270730378642;19261!GO:0007015;actin filament organization;0.0426270730378642;19261!GO:0046034;ATP metabolic process;0.0426270730378642;11984!GO:0008037;cell recognition;0.0426270730378642;19261!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0004620;phospholipase activity;0.0426270730378642;18807!GO:0019829;cation-transporting ATPase activity;0.0426270730378642;11984!GO:0009142;nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0009199;ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0006119;oxidative phosphorylation;0.0426270730378642;11984!GO:0009144;purine nucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0015992;proton transport;0.0432289395035572;11984!GO:0006752;group transfer coenzyme metabolic process;0.0432289395035572;11984!GO:0009141;nucleoside triphosphate metabolic process;0.0432289395035572;11984!GO:0009152;purine ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0006818;hydrogen transport;0.0432289395035572;11984!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0432289395035572;11984!GO:0009260;ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0016298;lipase activity;0.0432289395035572;18807!GO:0007160;cell-matrix adhesion;0.0432289395035572;19261!GO:0009150;purine ribonucleotide metabolic process;0.0432289395035572;11984!GO:0008081;phosphoric diester hydrolase activity;0.0432289395035572;18807!GO:0006164;purine nucleotide biosynthetic process;0.0432289395035572;11984!GO:0031589;cell-substrate adhesion;0.0438092038771068;19261!GO:0009259;ribonucleotide metabolic process;0.0450093633137073;11984!GO:0006163;purine nucleotide metabolic process;0.0467984890472701;11984!
}}
}}

Revision as of 12:47, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:95574072..95574082,-p1@ENSMUST00000155531
p1@uc007lao.1
Mm9::chr15:98571806..98571818,-p@chr15:98571806..98571818
-
Mm9::chr16:4879810..4879836,-p1@Fam100a
Mm9::chr17:24306359..24306395,-p1@Atp6v0c
Mm9::chr17:24306593..24306658,-p2@Atp6v0c
Mm9::chr2:129419264..129419336,+p2@Sirpa
Mm9::chr5:139960374..139960427,-p1@Zfand2a
Mm9::chr7:28326103..28326131,+p@chr7:28326103..28326131
+
Mm9::chr7:28327793..28327828,-p1@Pld3


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:0007035vacuolar acidification0.0157769315378812
GO:0045851pH reduction0.0157769315378812
GO:0051452cellular pH reduction0.0157769315378812
GO:0051453regulation of cellular pH0.0157769315378812
GO:0007042lysosomal lumen acidification0.0157769315378812
GO:0030641cellular hydrogen ion homeostasis0.0197195436675489
GO:0004630phospholipase D activity0.0250893514230226
GO:0033176proton-transporting V-type ATPase complex0.0250893514230226
GO:0016471vacuolar proton-transporting V-type ATPase complex0.0250893514230226
GO:0030004cellular monovalent inorganic cation homeostasis0.0250893514230226
GO:0055067monovalent inorganic cation homeostasis0.0250893514230226
GO:0045309protein phosphorylated amino acid binding0.0262819222260888
GO:0006910phagocytosis, recognition0.0331763951638302
GO:0051219phosphoprotein binding0.0331763951638302
GO:0006911phagocytosis, engulfment0.0331763951638302
GO:0007040lysosome organization and biogenesis0.0331763951638302
GO:0050766positive regulation of phagocytosis0.0331763951638302
GO:0050764regulation of phagocytosis0.0331763951638302
GO:0005774vacuolar membrane0.0331763951638302
GO:0006885regulation of pH0.035451443793266
GO:0007033vacuole organization and biogenesis0.0356360882026992
GO:0044437vacuolar part0.0358036526335401
GO:0045807positive regulation of endocytosis0.0359563649399432
GO:0008553hydrogen-exporting ATPase activity, phosphorylative mechanism0.0393710703231679
GO:0015985energy coupled proton transport, down electrochemical gradient0.0426270730378642
GO:0015986ATP synthesis coupled proton transport0.0426270730378642
GO:0051050positive regulation of transport0.0426270730378642
GO:0030100regulation of endocytosis0.0426270730378642
GO:0006754ATP biosynthetic process0.0426270730378642
GO:0006753nucleoside phosphate metabolic process0.0426270730378642
GO:0046933hydrogen ion transporting ATP synthase activity, rotational mechanism0.0426270730378642
GO:0016469proton-transporting two-sector ATPase complex0.0426270730378642
GO:0046961hydrogen ion transporting ATPase activity, rotational mechanism0.0426270730378642
GO:0006909phagocytosis0.0426270730378642
GO:0007015actin filament organization0.0426270730378642
GO:0046034ATP metabolic process0.0426270730378642
GO:0008037cell recognition0.0426270730378642
GO:0009145purine nucleoside triphosphate biosynthetic process0.0426270730378642
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0426270730378642
GO:0009201ribonucleoside triphosphate biosynthetic process0.0426270730378642
GO:0004620phospholipase activity0.0426270730378642
GO:0019829cation-transporting ATPase activity0.0426270730378642
GO:0009142nucleoside triphosphate biosynthetic process0.0426270730378642
GO:0009205purine ribonucleoside triphosphate metabolic process0.0426270730378642
GO:0009199ribonucleoside triphosphate metabolic process0.0426270730378642
GO:0006119oxidative phosphorylation0.0426270730378642
GO:0009144purine nucleoside triphosphate metabolic process0.0426270730378642
GO:0015992proton transport0.0432289395035572
GO:0006752group transfer coenzyme metabolic process0.0432289395035572
GO:0009141nucleoside triphosphate metabolic process0.0432289395035572
GO:0009152purine ribonucleotide biosynthetic process0.0432289395035572
GO:0006818hydrogen transport0.0432289395035572
GO:0015662ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism0.0432289395035572
GO:0009260ribonucleotide biosynthetic process0.0432289395035572
GO:0016298lipase activity0.0432289395035572
GO:0007160cell-matrix adhesion0.0432289395035572
GO:0009150purine ribonucleotide metabolic process0.0432289395035572
GO:0008081phosphoric diester hydrolase activity0.0432289395035572
GO:0006164purine nucleotide biosynthetic process0.0432289395035572
GO:0031589cell-substrate adhesion0.0438092038771068
GO:0009259ribonucleotide metabolic process0.0450093633137073
GO:0006163purine nucleotide metabolic process0.0467984890472701



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





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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