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MCL coexpression mm9:1975: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0048342;paraxial mesodermal cell differentiation;0.0106004162834652;22416!GO:0048343;paraxial mesodermal cell fate commitment;0.0106004162834652;22416!GO:0001710;mesodermal cell fate commitment;0.0106004162834652;22416!GO:0048333;mesodermal cell differentiation;0.0106004162834652;22416!GO:0048341;paraxial mesoderm formation;0.0141327267521486;22416!GO:0048103;somatic stem cell division;0.0141327267521486;22416!GO:0017145;stem cell division;0.0158980107671366;22416!GO:0048340;paraxial mesoderm morphogenesis;0.0158980107671366;22416!GO:0048339;paraxial mesoderm development;0.017661552343417;22416!GO:0001947;heart looping;0.017661552343417;22416!GO:0005247;voltage-gated chloride channel activity;0.017661552343417;69454!GO:0022844;voltage-gated anion channel activity;0.017661552343417;69454!GO:0007223;Wnt receptor signaling pathway, calcium modulating pathway;0.0217343166641928;22416!GO:0030879;mammary gland development;0.0221988350799632;22416!GO:0001707;mesoderm formation;0.0224331808841688;22416!GO:0048332;mesoderm morphogenesis;0.0224331808841688;22416!GO:0001704;formation of primary germ layer;0.0224331808841688;22416!GO:0001756;somitogenesis;0.0224660190724778;22416!GO:0007368;determination of left/right symmetry;0.0224660190724778;22416!GO:0003007;heart morphogenesis;0.0224660190724778;22416!GO:0009799;determination of symmetry;0.0224660190724778;22416!GO:0009855;determination of bilateral symmetry;0.0224660190724778;22416!GO:0035282;segmentation;0.0257821332254141;22416!GO:0007498;mesoderm development;0.027313195137404;22416!GO:0031404;chloride ion binding;0.027313195137404;69454!GO:0043168;anion binding;0.027313195137404;69454!GO:0042472;inner ear morphogenesis;0.027313195137404;22416!GO:0005254;chloride channel activity;0.027313195137404;69454!GO:0006821;chloride transport;0.027313195137404;69454!GO:0042471;ear morphogenesis;0.027313195137404;22416!GO:0005253;anion channel activity;0.027313195137404;69454!GO:0007369;gastrulation;0.0273401459490074;22416!GO:0048839;inner ear development;0.0297785356500678;22416!GO:0048732;gland development;0.0297785356500678;22416!GO:0048729;tissue morphogenesis;0.0297785356500678;22416!GO:0043583;ear development;0.0297785356500678;22416!GO:0009952;anterior/posterior pattern formation;0.0358181979770001;22416!GO:0045165;cell fate commitment;0.0370956030094531;22416!GO:0008509;anion transmembrane transporter activity;0.0404684219415818;69454!GO:0001701;in utero embryonic development;0.0415773641297031;22416!GO:0016055;Wnt receptor signaling pathway;0.0415773641297031;22416!GO:0015698;inorganic anion transport;0.0468974151382522;69454!GO:0003002;regionalization;0.0468974151382522;22416!GO:0045595;regulation of cell differentiation;0.0468974151382522;22416!GO:0007409;axonogenesis;0.0468974151382522;22416!GO:0048667;neuron morphogenesis during differentiation;0.0468974151382522;22416!GO:0048812;neurite morphogenesis;0.0468974151382522;22416!GO:0006820;anion transport;0.0468974151382522;69454!GO:0022832;voltage-gated channel activity;0.0468974151382522;69454!GO:0005244;voltage-gated ion channel activity;0.0468974151382522;69454!GO:0007507;heart development;0.0468974151382522;22416!GO:0000904;cellular morphogenesis during differentiation;0.0484393228132578;22416!GO:0007423;sensory organ development;0.0484393228132578;22416!GO:0048646;anatomical structure formation;0.0484393228132578;22416!GO:0031175;neurite development;0.0498474753391753;22416!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005178!2.95e-09!17;UBERON:0005181!2.95e-09!17;UBERON:0002224!2.95e-09!17;UBERON:0000915!2.95e-09!17;UBERON:0008947!2.95e-09!17;UBERON:0003258!2.95e-09!17;UBERON:0002048!1.82e-08!14;UBERON:0000117!1.82e-08!14;UBERON:0000171!1.82e-08!14;UBERON:0000170!1.82e-08!14;UBERON:0005597!1.82e-08!14;UBERON:0000118!1.82e-08!14;UBERON:0005153!4.03e-07!17;UBERON:0000464!6.07e-07!57
}}
}}

Revision as of 17:44, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:59104248..59104260,-p1@Wnt3a
Mm9::chr1:162181568..162181612,-p@chr1:162181568..162181612
-
Mm9::chr2:25312350..25312370,+p1@Clic3
Mm9::chr5:23979973..23980002,+p@chr5:23979973..23980002
+


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:0048342paraxial mesodermal cell differentiation0.0106004162834652
GO:0048343paraxial mesodermal cell fate commitment0.0106004162834652
GO:0001710mesodermal cell fate commitment0.0106004162834652
GO:0048333mesodermal cell differentiation0.0106004162834652
GO:0048341paraxial mesoderm formation0.0141327267521486
GO:0048103somatic stem cell division0.0141327267521486
GO:0017145stem cell division0.0158980107671366
GO:0048340paraxial mesoderm morphogenesis0.0158980107671366
GO:0048339paraxial mesoderm development0.017661552343417
GO:0001947heart looping0.017661552343417
GO:0005247voltage-gated chloride channel activity0.017661552343417
GO:0022844voltage-gated anion channel activity0.017661552343417
GO:0007223Wnt receptor signaling pathway, calcium modulating pathway0.0217343166641928
GO:0030879mammary gland development0.0221988350799632
GO:0001707mesoderm formation0.0224331808841688
GO:0048332mesoderm morphogenesis0.0224331808841688
GO:0001704formation of primary germ layer0.0224331808841688
GO:0001756somitogenesis0.0224660190724778
GO:0007368determination of left/right symmetry0.0224660190724778
GO:0003007heart morphogenesis0.0224660190724778
GO:0009799determination of symmetry0.0224660190724778
GO:0009855determination of bilateral symmetry0.0224660190724778
GO:0035282segmentation0.0257821332254141
GO:0007498mesoderm development0.027313195137404
GO:0031404chloride ion binding0.027313195137404
GO:0043168anion binding0.027313195137404
GO:0042472inner ear morphogenesis0.027313195137404
GO:0005254chloride channel activity0.027313195137404
GO:0006821chloride transport0.027313195137404
GO:0042471ear morphogenesis0.027313195137404
GO:0005253anion channel activity0.027313195137404
GO:0007369gastrulation0.0273401459490074
GO:0048839inner ear development0.0297785356500678
GO:0048732gland development0.0297785356500678
GO:0048729tissue morphogenesis0.0297785356500678
GO:0043583ear development0.0297785356500678
GO:0009952anterior/posterior pattern formation0.0358181979770001
GO:0045165cell fate commitment0.0370956030094531
GO:0008509anion transmembrane transporter activity0.0404684219415818
GO:0001701in utero embryonic development0.0415773641297031
GO:0016055Wnt receptor signaling pathway0.0415773641297031
GO:0015698inorganic anion transport0.0468974151382522
GO:0003002regionalization0.0468974151382522
GO:0045595regulation of cell differentiation0.0468974151382522
GO:0007409axonogenesis0.0468974151382522
GO:0048667neuron morphogenesis during differentiation0.0468974151382522
GO:0048812neurite morphogenesis0.0468974151382522
GO:0006820anion transport0.0468974151382522
GO:0022832voltage-gated channel activity0.0468974151382522
GO:0005244voltage-gated ion channel activity0.0468974151382522
GO:0007507heart development0.0468974151382522
GO:0000904cellular morphogenesis during differentiation0.0484393228132578
GO:0007423sensory organ development0.0484393228132578
GO:0048646anatomical structure formation0.0484393228132578
GO:0031175neurite development0.0498474753391753



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
thoracic cavity element2.95e-0917
thoracic segment organ2.95e-0917
thoracic cavity2.95e-0917
thoracic segment of trunk2.95e-0917
respiratory primordium2.95e-0917
endoderm of foregut2.95e-0917
lung1.82e-0814
respiratory tube1.82e-0814
respiration organ1.82e-0814
pair of lungs1.82e-0814
lung primordium1.82e-0814
lung bud1.82e-0814
epithelial bud4.03e-0717
anatomical space6.07e-0757


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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