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MCL coexpression mm9:1674: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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}}
}}

Revision as of 13:01, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr15:102809727..102809760,-p@chr15:102809727..102809760
-
Mm9::chr15:77776195..77776210,-p5@Foxred2
Mm9::chr6:117118584..117118602,+p1@Cxcl12
Mm9::chr6:117123590..117123595,+p@chr6:117123590..117123595
+
Mm9::chr6:6831986..6832007,-p4@Dlx5


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:0007409axonogenesis0.00901934359550232
GO:0048667neuron morphogenesis during differentiation0.00901934359550232
GO:0048812neurite morphogenesis0.00901934359550232
GO:0000904cellular morphogenesis during differentiation0.00901934359550232
GO:0031175neurite development0.00901934359550232
GO:0048666neuron development0.00901934359550232
GO:0032990cell part morphogenesis0.00901934359550232
GO:0048858cell projection morphogenesis0.00901934359550232
GO:0030030cell projection organization and biogenesis0.00901934359550232
GO:0001667ameboidal cell migration0.00901934359550232
GO:0030182neuron differentiation0.00901934359550232
GO:0048699generation of neurons0.00901934359550232
GO:0008354germ cell migration0.00901934359550232
GO:0022008neurogenesis0.00901934359550232
GO:0050920regulation of chemotaxis0.00901934359550232
GO:0050926regulation of positive chemotaxis0.00901934359550232
GO:0050921positive regulation of chemotaxis0.00901934359550232
GO:0050927positive regulation of positive chemotaxis0.00901934359550232
GO:0050930induction of positive chemotaxis0.00901934359550232
GO:0050918positive chemotaxis0.009791893617895
GO:0008045motor axon guidance0.0104907397135622
GO:0009790embryonic development0.0116063327177684
GO:0000902cell morphogenesis0.0116063327177684
GO:0032989cellular structure morphogenesis0.0116063327177684
GO:0030335positive regulation of cell migration0.0125410705591239
GO:0009887organ morphogenesis0.0125410705591239
GO:0051272positive regulation of cell motility0.0139822882165411
GO:0040017positive regulation of locomotion0.0139822882165411
GO:0007399nervous system development0.0172446645191495
GO:0001569patterning of blood vessels0.017938036737885
GO:0007281germ cell development0.0212988683119636
GO:0008009chemokine activity0.0281424706336528
GO:0042379chemokine receptor binding0.0281424706336528
GO:0009880embryonic pattern specification0.0287492167075571
GO:0030334regulation of cell migration0.033659692211444
GO:0042472inner ear morphogenesis0.033659692211444
GO:0042098T cell proliferation0.033659692211444
GO:0001664G-protein-coupled receptor binding0.033659692211444
GO:0048754branching morphogenesis of a tube0.033659692211444
GO:0051270regulation of cell motility0.033659692211444
GO:0042471ear morphogenesis0.033659692211444
GO:0001763morphogenesis of a branching structure0.033659692211444
GO:0030326embryonic limb morphogenesis0.033659692211444
GO:0035113embryonic appendage morphogenesis0.033659692211444
GO:0040012regulation of locomotion0.033659692211444
GO:0048468cell development0.033659692211444
GO:0009653anatomical structure morphogenesis0.033659692211444
GO:0048839inner ear development0.0343997287833733
GO:0032943mononuclear cell proliferation0.0343997287833733
GO:0046651lymphocyte proliferation0.0343997287833733
GO:0035107appendage morphogenesis0.0343997287833733
GO:0035108limb morphogenesis0.0343997287833733
GO:0043583ear development0.0343997287833733
GO:0060173limb development0.0343997287833733
GO:0048736appendage development0.0343997287833733
GO:0007411axon guidance0.0343997287833733
GO:0048513organ development0.0391832757360438
GO:0042330taxis0.0425137244937417
GO:0006935chemotaxis0.0425137244937417
GO:0042110T cell activation0.0478538696364574



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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