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MCL coexpression mm9:464: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0008021;synaptic vesicle;0.00973174846942184;20980,75209!GO:0030136;clathrin-coated vesicle;0.00973174846942184;20980,75209!GO:0005057;receptor signaling protein activity;0.00973174846942184;12568,27387!GO:0030546;receptor activator activity;0.00973174846942184;12568!GO:0030549;acetylcholine receptor activator activity;0.00973174846942184;12568!GO:0014012;axon regeneration in the peripheral nervous system;0.00973174846942184;18039!GO:0043125;ErbB-3 class receptor binding;0.00973174846942184;12568!GO:0030135;coated vesicle;0.00973174846942184;20980,75209!GO:0005176;ErbB-2 class receptor binding;0.0153816653953618;12568!GO:0005068;transmembrane receptor protein tyrosine kinase adaptor protein activity;0.0153816653953618;27387!GO:0031133;regulation of axon diameter;0.0161440679945559;18039!GO:0045110;intermediate filament bundle assembly;0.0161440679945559;18039!GO:0014044;Schwann cell development;0.0161440679945559;12568!GO:0007409;axonogenesis;0.0161440679945559;12568,18039!GO:0048667;neuron morphogenesis during differentiation;0.0161440679945559;12568,18039!GO:0048812;neurite morphogenesis;0.0161440679945559;12568,18039!GO:0030548;acetylcholine receptor regulator activity;0.0161440679945559;12568!GO:0000904;cellular morphogenesis during differentiation;0.0161440679945559;12568,18039!GO:0016023;cytoplasmic membrane-bound vesicle;0.0161440679945559;20980,75209!GO:0007268;synaptic transmission;0.0161440679945559;12568,75209!GO:0031988;membrane-bound vesicle;0.0161440679945559;20980,75209!GO:0031103;axon regeneration;0.0161440679945559;18039!GO:0031102;neurite regeneration;0.0161440679945559;18039!GO:0031175;neurite development;0.0161440679945559;12568,18039!GO:0005883;neurofilament;0.0177383537688552;18039!GO:0048678;response to axon injury;0.0177383537688552;18039!GO:0048666;neuron development;0.0178843840841467;12568,18039!GO:0019226;transmission of nerve impulse;0.0183547129593702;12568,75209!GO:0014037;Schwann cell differentiation;0.0185513690271993;12568!GO:0030545;receptor regulator activity;0.0189410615211977;12568!GO:0005066;transmembrane receptor protein tyrosine kinase signaling protein activity;0.0189410615211977;27387!GO:0060053;neurofilament cytoskeleton;0.0189410615211977;18039!GO:0060052;neurofilament cytoskeleton organization and biogenesis;0.0189410615211977;18039!GO:0008045;motor axon guidance;0.0189410615211977;12568!GO:0045109;intermediate filament organization;0.0189410615211977;18039!GO:0032990;cell part morphogenesis;0.0189410615211977;12568,18039!GO:0048858;cell projection morphogenesis;0.0189410615211977;12568,18039!GO:0030030;cell projection organization and biogenesis;0.0189410615211977;12568,18039!GO:0021782;glial cell development;0.0192384216766405;12568!GO:0030182;neuron differentiation;0.0192384216766405;12568,18039!GO:0031099;regeneration;0.0192384216766405;18039!GO:0042246;tissue regeneration;0.0192384216766405;18039!GO:0043113;receptor clustering;0.0192384216766405;12568!GO:0031410;cytoplasmic vesicle;0.0192384216766405;20980,75209!GO:0031982;vesicle;0.0196092906005297;20980,75209!GO:0050772;positive regulation of axonogenesis;0.0196092906005297;18039!GO:0060078;regulation of postsynaptic membrane potential;0.0196092906005297;12568!GO:0048699;generation of neurons;0.0199660593857038;12568,18039!GO:0030175;filopodium;0.0199660593857038;12568!GO:0007172;signal complex assembly;0.0199660593857038;12568!GO:0007267;cell-cell signaling;0.0207466497552354;12568,75209!GO:0007264;small GTPase mediated signal transduction;0.0213254175566963;276952,27387!GO:0022008;neurogenesis;0.0213254175566963;12568,18039!GO:0050769;positive regulation of neurogenesis;0.0213254175566963;18039!GO:0045104;intermediate filament cytoskeleton organization and biogenesis;0.0235730400710741;18039!GO:0042995;cell projection;0.0235730400710741;12568,18039!GO:0022607;cellular component assembly;0.0240352414148993;12568,18039!GO:0030054;cell junction;0.0247094857841336;20980,75209!GO:0005544;calcium-dependent phospholipid binding;0.0247094857841336;20980!GO:0045103;intermediate filament-based process;0.0255729826199389;18039!GO:0007422;peripheral nervous system development;0.0284485638868522;12568!GO:0043524;negative regulation of neuron apoptosis;0.0284485638868522;18039!GO:0043112;receptor metabolic process;0.0304231868708594;12568!GO:0000902;cell morphogenesis;0.0319966118086197;12568,18039!GO:0032989;cellular structure morphogenesis;0.0319966118086197;12568,18039!GO:0050770;regulation of axonogenesis;0.034304754781197;18039!GO:0004693;cyclin-dependent protein kinase activity;0.034304754781197;12568!GO:0050885;neuromuscular process controlling balance;0.0360437513677712;18039!GO:0043523;regulation of neuron apoptosis;0.037731129007329;18039!GO:0005622;intracellular;0.0393759908222754;20980,276952,12568,27387,75209,18039!GO:0051402;neuron apoptosis;0.0403908683748798;18039!GO:0010001;glial cell differentiation;0.0403908683748798;12568!GO:0050877;neurological system process;0.0411317890707139;12568,75209,18039!GO:0043623;cellular protein complex assembly;0.0413562758033976;12568!GO:0042063;gliogenesis;0.0418192535023569;12568!GO:0042391;regulation of membrane potential;0.0422697727458422;12568!GO:0060090;molecular adaptor activity;0.0436955521739576;27387!GO:0050767;regulation of neurogenesis;0.0441096615291231;18039!GO:0050905;neuromuscular process;0.044575348617974;18039!GO:0006836;neurotransmitter transport;0.044575348617974;75209!GO:0048589;developmental growth;0.044575348617974;18039!GO:0007399;nervous system development;0.044575348617974;12568,18039!GO:0003008;system process;0.044575348617974;12568,75209,18039!GO:0030027;lamellipodium;0.044575348617974;12568!GO:0030334;regulation of cell migration;0.046728730596565;12568!}}
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0008021;synaptic vesicle;0.00973174846942184;20980,75209!GO:0030136;clathrin-coated vesicle;0.00973174846942184;20980,75209!GO:0005057;receptor signaling protein activity;0.00973174846942184;12568,27387!GO:0030546;receptor activator activity;0.00973174846942184;12568!GO:0030549;acetylcholine receptor activator activity;0.00973174846942184;12568!GO:0014012;axon regeneration in the peripheral nervous system;0.00973174846942184;18039!GO:0043125;ErbB-3 class receptor binding;0.00973174846942184;12568!GO:0030135;coated vesicle;0.00973174846942184;20980,75209!GO:0005176;ErbB-2 class receptor binding;0.0153816653953618;12568!GO:0005068;transmembrane receptor protein tyrosine kinase adaptor protein activity;0.0153816653953618;27387!GO:0031133;regulation of axon diameter;0.0161440679945559;18039!GO:0045110;intermediate filament bundle assembly;0.0161440679945559;18039!GO:0014044;Schwann cell development;0.0161440679945559;12568!GO:0007409;axonogenesis;0.0161440679945559;12568,18039!GO:0048667;neuron morphogenesis during differentiation;0.0161440679945559;12568,18039!GO:0048812;neurite morphogenesis;0.0161440679945559;12568,18039!GO:0030548;acetylcholine receptor regulator activity;0.0161440679945559;12568!GO:0000904;cellular morphogenesis during differentiation;0.0161440679945559;12568,18039!GO:0016023;cytoplasmic membrane-bound vesicle;0.0161440679945559;20980,75209!GO:0007268;synaptic transmission;0.0161440679945559;12568,75209!GO:0031988;membrane-bound vesicle;0.0161440679945559;20980,75209!GO:0031103;axon regeneration;0.0161440679945559;18039!GO:0031102;neurite regeneration;0.0161440679945559;18039!GO:0031175;neurite development;0.0161440679945559;12568,18039!GO:0005883;neurofilament;0.0177383537688552;18039!GO:0048678;response to axon injury;0.0177383537688552;18039!GO:0048666;neuron development;0.0178843840841467;12568,18039!GO:0019226;transmission of nerve impulse;0.0183547129593702;12568,75209!GO:0014037;Schwann cell differentiation;0.0185513690271993;12568!GO:0030545;receptor regulator activity;0.0189410615211977;12568!GO:0005066;transmembrane receptor protein tyrosine kinase signaling protein activity;0.0189410615211977;27387!GO:0060053;neurofilament cytoskeleton;0.0189410615211977;18039!GO:0060052;neurofilament cytoskeleton organization and biogenesis;0.0189410615211977;18039!GO:0008045;motor axon guidance;0.0189410615211977;12568!GO:0045109;intermediate filament organization;0.0189410615211977;18039!GO:0032990;cell part morphogenesis;0.0189410615211977;12568,18039!GO:0048858;cell projection morphogenesis;0.0189410615211977;12568,18039!GO:0030030;cell projection organization and biogenesis;0.0189410615211977;12568,18039!GO:0021782;glial cell development;0.0192384216766405;12568!GO:0030182;neuron differentiation;0.0192384216766405;12568,18039!GO:0031099;regeneration;0.0192384216766405;18039!GO:0042246;tissue regeneration;0.0192384216766405;18039!GO:0043113;receptor clustering;0.0192384216766405;12568!GO:0031410;cytoplasmic vesicle;0.0192384216766405;20980,75209!GO:0031982;vesicle;0.0196092906005297;20980,75209!GO:0050772;positive regulation of axonogenesis;0.0196092906005297;18039!GO:0060078;regulation of postsynaptic membrane potential;0.0196092906005297;12568!GO:0048699;generation of neurons;0.0199660593857038;12568,18039!GO:0030175;filopodium;0.0199660593857038;12568!GO:0007172;signal complex assembly;0.0199660593857038;12568!GO:0007267;cell-cell signaling;0.0207466497552354;12568,75209!GO:0007264;small GTPase mediated signal transduction;0.0213254175566963;276952,27387!GO:0022008;neurogenesis;0.0213254175566963;12568,18039!GO:0050769;positive regulation of neurogenesis;0.0213254175566963;18039!GO:0045104;intermediate filament cytoskeleton organization and biogenesis;0.0235730400710741;18039!GO:0042995;cell projection;0.0235730400710741;12568,18039!GO:0022607;cellular component assembly;0.0240352414148993;12568,18039!GO:0030054;cell junction;0.0247094857841336;20980,75209!GO:0005544;calcium-dependent phospholipid binding;0.0247094857841336;20980!GO:0045103;intermediate filament-based process;0.0255729826199389;18039!GO:0007422;peripheral nervous system development;0.0284485638868522;12568!GO:0043524;negative regulation of neuron apoptosis;0.0284485638868522;18039!GO:0043112;receptor metabolic process;0.0304231868708594;12568!GO:0000902;cell morphogenesis;0.0319966118086197;12568,18039!GO:0032989;cellular structure morphogenesis;0.0319966118086197;12568,18039!GO:0050770;regulation of axonogenesis;0.034304754781197;18039!GO:0004693;cyclin-dependent protein kinase activity;0.034304754781197;12568!GO:0050885;neuromuscular process controlling balance;0.0360437513677712;18039!GO:0043523;regulation of neuron apoptosis;0.037731129007329;18039!GO:0005622;intracellular;0.0393759908222754;20980,276952,12568,27387,75209,18039!GO:0051402;neuron apoptosis;0.0403908683748798;18039!GO:0010001;glial cell differentiation;0.0403908683748798;12568!GO:0050877;neurological system process;0.0411317890707139;12568,75209,18039!GO:0043623;cellular protein complex assembly;0.0413562758033976;12568!GO:0042063;gliogenesis;0.0418192535023569;12568!GO:0042391;regulation of membrane potential;0.0422697727458422;12568!GO:0060090;molecular adaptor activity;0.0436955521739576;27387!GO:0050767;regulation of neurogenesis;0.0441096615291231;18039!GO:0050905;neuromuscular process;0.044575348617974;18039!GO:0006836;neurotransmitter transport;0.044575348617974;75209!GO:0048589;developmental growth;0.044575348617974;18039!GO:0007399;nervous system development;0.044575348617974;12568,18039!GO:0003008;system process;0.044575348617974;12568,75209,18039!GO:0030027;lamellipodium;0.044575348617974;12568!GO:0030334;regulation of cell migration;0.046728730596565;12568!
}}

Revision as of 11:09, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:83222718..83222791,+p2@Rasl10b
Mm9::chr13:96727565..96727567,-p@chr13:96727565..96727567
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Mm9::chr13:96902476..96902485,-p5@Sv2c
Mm9::chr13:96902498..96902522,-p2@Sv2c
Mm9::chr13:96902523..96902583,-p1@Sv2c
Mm9::chr13:96902624..96902642,-p3@Sv2c
Mm9::chr13:96902655..96902666,-p4@Sv2c
Mm9::chr14:33274087..33274102,-p1@Chat
Mm9::chr14:68701910..68701927,+p1@Nefl
Mm9::chr1:136543278..136543288,+p5@Syt2
Mm9::chr1:33964526..33964536,-p5@Bend6
Mm9::chr4:119165152..119165166,-p2@Rimkla
Mm9::chr5:125342609..125342620,-p9@Ccdc92
Mm9::chr5:23929310..23929319,-p3@Cdk5
Mm9::chr8:107995347..107995358,-p3@Tppp3
Mm9::chr8:107995381..107995387,-p5@Tppp3


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:0008021synaptic vesicle0.00973174846942184
GO:0030136clathrin-coated vesicle0.00973174846942184
GO:0005057receptor signaling protein activity0.00973174846942184
GO:0030546receptor activator activity0.00973174846942184
GO:0030549acetylcholine receptor activator activity0.00973174846942184
GO:0014012axon regeneration in the peripheral nervous system0.00973174846942184
GO:0043125ErbB-3 class receptor binding0.00973174846942184
GO:0030135coated vesicle0.00973174846942184
GO:0005176ErbB-2 class receptor binding0.0153816653953618
GO:0005068transmembrane receptor protein tyrosine kinase adaptor protein activity0.0153816653953618
GO:0031133regulation of axon diameter0.0161440679945559
GO:0045110intermediate filament bundle assembly0.0161440679945559
GO:0014044Schwann cell development0.0161440679945559
GO:0007409axonogenesis0.0161440679945559
GO:0048667neuron morphogenesis during differentiation0.0161440679945559
GO:0048812neurite morphogenesis0.0161440679945559
GO:0030548acetylcholine receptor regulator activity0.0161440679945559
GO:0000904cellular morphogenesis during differentiation0.0161440679945559
GO:0016023cytoplasmic membrane-bound vesicle0.0161440679945559
GO:0007268synaptic transmission0.0161440679945559
GO:0031988membrane-bound vesicle0.0161440679945559
GO:0031103axon regeneration0.0161440679945559
GO:0031102neurite regeneration0.0161440679945559
GO:0031175neurite development0.0161440679945559
GO:0005883neurofilament0.0177383537688552
GO:0048678response to axon injury0.0177383537688552
GO:0048666neuron development0.0178843840841467
GO:0019226transmission of nerve impulse0.0183547129593702
GO:0014037Schwann cell differentiation0.0185513690271993
GO:0030545receptor regulator activity0.0189410615211977
GO:0005066transmembrane receptor protein tyrosine kinase signaling protein activity0.0189410615211977
GO:0060053neurofilament cytoskeleton0.0189410615211977
GO:0060052neurofilament cytoskeleton organization and biogenesis0.0189410615211977
GO:0008045motor axon guidance0.0189410615211977
GO:0045109intermediate filament organization0.0189410615211977
GO:0032990cell part morphogenesis0.0189410615211977
GO:0048858cell projection morphogenesis0.0189410615211977
GO:0030030cell projection organization and biogenesis0.0189410615211977
GO:0021782glial cell development0.0192384216766405
GO:0030182neuron differentiation0.0192384216766405
GO:0031099regeneration0.0192384216766405
GO:0042246tissue regeneration0.0192384216766405
GO:0043113receptor clustering0.0192384216766405
GO:0031410cytoplasmic vesicle0.0192384216766405
GO:0031982vesicle0.0196092906005297
GO:0050772positive regulation of axonogenesis0.0196092906005297
GO:0060078regulation of postsynaptic membrane potential0.0196092906005297
GO:0048699generation of neurons0.0199660593857038
GO:0030175filopodium0.0199660593857038
GO:0007172signal complex assembly0.0199660593857038
GO:0007267cell-cell signaling0.0207466497552354
GO:0007264small GTPase mediated signal transduction0.0213254175566963
GO:0022008neurogenesis0.0213254175566963
GO:0050769positive regulation of neurogenesis0.0213254175566963
GO:0045104intermediate filament cytoskeleton organization and biogenesis0.0235730400710741
GO:0042995cell projection0.0235730400710741
GO:0022607cellular component assembly0.0240352414148993
GO:0030054cell junction0.0247094857841336
GO:0005544calcium-dependent phospholipid binding0.0247094857841336
GO:0045103intermediate filament-based process0.0255729826199389
GO:0007422peripheral nervous system development0.0284485638868522
GO:0043524negative regulation of neuron apoptosis0.0284485638868522
GO:0043112receptor metabolic process0.0304231868708594
GO:0000902cell morphogenesis0.0319966118086197
GO:0032989cellular structure morphogenesis0.0319966118086197
GO:0050770regulation of axonogenesis0.034304754781197
GO:0004693cyclin-dependent protein kinase activity0.034304754781197
GO:0050885neuromuscular process controlling balance0.0360437513677712
GO:0043523regulation of neuron apoptosis0.037731129007329
GO:0005622intracellular0.0393759908222754
GO:0051402neuron apoptosis0.0403908683748798
GO:0010001glial cell differentiation0.0403908683748798
GO:0050877neurological system process0.0411317890707139
GO:0043623cellular protein complex assembly0.0413562758033976
GO:0042063gliogenesis0.0418192535023569
GO:0042391regulation of membrane potential0.0422697727458422
GO:0060090molecular adaptor activity0.0436955521739576
GO:0050767regulation of neurogenesis0.0441096615291231
GO:0050905neuromuscular process0.044575348617974
GO:0006836neurotransmitter transport0.044575348617974
GO:0048589developmental growth0.044575348617974
GO:0007399nervous system development0.044575348617974
GO:0003008system process0.044575348617974
GO:0030027lamellipodium0.044575348617974
GO:0030334regulation of cell migration0.046728730596565



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)

{{{tfbs_overrepresentation_jaspar}}}

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