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MCL coexpression mm9:2724: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.064513712786576,0,0,0,0,0,0,0.142192289944826,0,0.0913378685245542,0,0,0,0.0381374153436364,0,0,0,0.137752753485788,0.21184111718518,0,0,0.320603293911714,0.100783889465809,0.052910950483632,0.00935238411803013,0,0,0,0,0,0.00233991318290855,0,0,1.22655268700907,0,0,0,0.785895263843559,0.708616848002359,0.715015868241689,0.906269184425653,0.893786989762577,0.592516742194489,0.0514985917256918,0.0419359757688424,0,0,0,0.0862481039219708,0,0.0568996784870888,0,0.205641481482089,0,0.206098325658926,0,0,0,0,0,0,0.126730149241647,0,0.344597319699726,0,0.110573610505032,0.113809739605487,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0742309351586685,0.0317017435824471,0,0.198582584603541,0,0,0,0,0,0.132254735273165,0.0683455646190839,0.134608044866859,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0.0104437170133993,0,0.0482820047261801,0,0,0.0586534975690397,0,0.121735003810417,0.132425697882635,0,0,0,0,0,0.427715163864743,0.531429216089254,0.304611539604267,0,0,0,0,0,0,0,0,0.12328796408469,0,0,0,0,0,0.00630510898658659,0,0,0.0388988969149198,0,0,0,0,0,0,0,0.149217990160949,0,0.231013950740173,0.359216700371906,0.195436618912525,0,0,0,0,0,0,0,0,0.0911499572672242,0,0,0,0,0.0861996515928926,0,0,0.0425379529581421,0,0,0,0,0,0,0,0.0572743750294433,0,0,0,0.0677708782739053,0,0.173377600528259,0,0.0679903333974345,0,0.00852518881109759,0,0,0.0769870445726752,0,0.0935628271990917,0.0597943799295356,0,0,0,0,0,0,0.0307102389316169,0.093833775061694,0.098514232005992,0.109813392994768,0,0.10536076625968,0,0,0,0,0,0,0,0,0,0.0680912293502604,0,0,0,0.0774164737207147,0.0635717028550276,0,0,0,0,0.0586723554240733,0,0.188620766046218,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0,0,0,0,0,0,0.0998284739419172,0,0.0424497355965798,0,0,0,0.0322207743744536,0,0,0,0,0.0712812415377886,0,0.00839055543798123,0.0140936158828662,0,0,0,0,0,0,0,0.111087966368681,0,0,0,0.24074341674033,0.138850957170371,0.055643654597214,0.0577886293227683,0.431329067459534,0.546434834245551,0.575649554305725,0,0,0,0,0.151730312771305,0,0.054943952156948,0.0962007932069227,0,0.0529304404135566,0,0,0,0,0,0,0,0,0.13524179901164,0,0,0,0,0.0305647820272683,0,0,0.0715236385554987,0,0,0.0348998976877272,0,0,0,0.0220604268802213,0,0,0,0,0,0,0,0,0.0730404042754446,0.154952218286625,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0379298636111562,0.073294297058821,0.00281490404353757,0,0,0,0,0,0.0388749848471105,0.0189256172517734,0.0472245945615809,0.111992206152069,0.0368455920972252,0,0,0.112067779638927,0,0,0,0.0589368614163519,0.0390607415003592,0.0352754493378881,0.0846152339991821,0,0.0167605867078419,0,0,0,0,0,0,0,0,0.0845301845292944,0,0,0
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|gostat_on_MCL_coexpression=GO:0007016;cytoskeletal anchoring;0.0221826630104089;21894!GO:0007044;cell-substrate junction assembly;0.0221826630104089;21894!GO:0030866;cortical actin cytoskeleton organization and biogenesis;0.0221826630104089;21894!GO:0030865;cortical cytoskeleton organization and biogenesis;0.0221826630104089;21894!GO:0007028;cytoplasm organization and biogenesis;0.030162635176774;21894!GO:0005925;focal adhesion;0.0344827269484544;21894!GO:0005924;cell-substrate adherens junction;0.0344827269484544;21894!GO:0001726;ruffle;0.0344827269484544;21894!GO:0030055;cell-matrix junction;0.0344827269484544;21894!
|gostat_on_MCL_coexpression=GO:0007016;cytoskeletal anchoring;0.0221826630104089;21894!GO:0007044;cell-substrate junction assembly;0.0221826630104089;21894!GO:0030866;cortical actin cytoskeleton organization and biogenesis;0.0221826630104089;21894!GO:0030865;cortical cytoskeleton organization and biogenesis;0.0221826630104089;21894!GO:0007028;cytoplasm organization and biogenesis;0.030162635176774;21894!GO:0005925;focal adhesion;0.0344827269484544;21894!GO:0005924;cell-substrate adherens junction;0.0344827269484544;21894!GO:0001726;ruffle;0.0344827269484544;21894!GO:0030055;cell-matrix junction;0.0344827269484544;21894!
|ontology_enrichment_celltype=CL:0002320!7.73e-07!46;CL:0000134!7.73e-07!46
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!7.73e-07!46
}}
}}

Revision as of 18:55, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:82684589..82684600,-p9@Rffl
Mm9::chr2:38392125..38392136,+p@chr2:38392125..38392136
+
Mm9::chr4:43575033..43575044,-p7@Tln1


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:0007016cytoskeletal anchoring0.0221826630104089
GO:0007044cell-substrate junction assembly0.0221826630104089
GO:0030866cortical actin cytoskeleton organization and biogenesis0.0221826630104089
GO:0030865cortical cytoskeleton organization and biogenesis0.0221826630104089
GO:0007028cytoplasm organization and biogenesis0.030162635176774
GO:0005925focal adhesion0.0344827269484544
GO:0005924cell-substrate adherens junction0.0344827269484544
GO:0001726ruffle0.0344827269484544
GO:0030055cell-matrix junction0.0344827269484544



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><br>

Cell Type
Ontology termp-valuen
connective tissue cell7.73e-0746
mesenchymal cell7.73e-0746

Uber Anatomy
Ontology termp-valuen
connective tissue7.73e-0746


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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