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MCL coexpression mm9:1201: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0048666;neuron development;0.0288738566240418;13799,104382!GO:0030182;neuron differentiation;0.0288738566240418;13799,104382!GO:0048699;generation of neurons;0.0288738566240418;13799,104382!GO:0022008;neurogenesis;0.0288738566240418;13799,104382!GO:0043565;sequence-specific DNA binding;0.0343317006776549;13799,104382!GO:0030901;midbrain development;0.0343317006776549;13799!GO:0030516;regulation of axon extension;0.0374466075322434;104382!GO:0007399;nervous system development;0.0449113075147967;13799,104382!GO:0048675;axon extension;0.0449113075147967;104382!GO:0001709;cell fate determination;0.0449113075147967;104382!}}
{{MCL_coexpression_mm9
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}}

Revision as of 11:20, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr5:106886962..106886973,-p3@Barhl2
Mm9::chr5:106887428..106887437,-p4@Barhl2
Mm9::chr5:106887474..106887489,-p1@Barhl2
Mm9::chr5:106887496..106887515,-p2@Barhl2
Mm9::chr5:28492230..28492257,+p1@En2
Mm9::chr5:28536710..28536719,-p11@Cnpy1
Mm9::chr7:133415927..133415938,+p9@Sbk1


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:0048666neuron development0.0288738566240418
GO:0030182neuron differentiation0.0288738566240418
GO:0048699generation of neurons0.0288738566240418
GO:0022008neurogenesis0.0288738566240418
GO:0043565sequence-specific DNA binding0.0343317006776549
GO:0030901midbrain development0.0343317006776549
GO:0030516regulation of axon extension0.0374466075322434
GO:0007399nervous system development0.0449113075147967
GO:0048675axon extension0.0449113075147967
GO:0001709cell fate determination0.0449113075147967



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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