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MCL coexpression mm9:1563: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005776;autophagic vacuole;0.0308523611542294;213948!GO:0000045;autophagic vacuole formation;0.0308523611542294;213948!GO:0016236;macroautophagy;0.0308523611542294;213948!GO:0006914;autophagy;0.0332119623468991;213948!GO:0004890;GABA-A receptor activity;0.0332119623468991;216643!GO:0016917;GABA receptor activity;0.0332119623468991;216643!GO:0043168;anion binding;0.0416835042376049;216643!GO:0031404;chloride ion binding;0.0416835042376049;216643!GO:0005254;chloride channel activity;0.0416835042376049;216643!GO:0005253;anion channel activity;0.0416835042376049;216643!GO:0005230;extracellular ligand-gated ion channel activity;0.0416835042376049;216643!GO:0015276;ligand-gated ion channel activity;0.0416835042376049;216643!GO:0022834;ligand-gated channel activity;0.0416835042376049;216643!GO:0030594;neurotransmitter receptor activity;0.0416835042376049;216643!GO:0042165;neurotransmitter binding;0.0416835042376049;216643!GO:0045211;postsynaptic membrane;0.0467795027915685;216643!GO:0008509;anion transmembrane transporter activity;0.0467795027915685;216643!GO:0044456;synapse part;0.047719067788828;216643!
|gostat_on_MCL_coexpression=GO:0005776;autophagic vacuole;0.0308523611542294;213948!GO:0000045;autophagic vacuole formation;0.0308523611542294;213948!GO:0016236;macroautophagy;0.0308523611542294;213948!GO:0006914;autophagy;0.0332119623468991;213948!GO:0004890;GABA-A receptor activity;0.0332119623468991;216643!GO:0016917;GABA receptor activity;0.0332119623468991;216643!GO:0043168;anion binding;0.0416835042376049;216643!GO:0031404;chloride ion binding;0.0416835042376049;216643!GO:0005254;chloride channel activity;0.0416835042376049;216643!GO:0005253;anion channel activity;0.0416835042376049;216643!GO:0005230;extracellular ligand-gated ion channel activity;0.0416835042376049;216643!GO:0015276;ligand-gated ion channel activity;0.0416835042376049;216643!GO:0022834;ligand-gated channel activity;0.0416835042376049;216643!GO:0030594;neurotransmitter receptor activity;0.0416835042376049;216643!GO:0042165;neurotransmitter binding;0.0416835042376049;216643!GO:0045211;postsynaptic membrane;0.0467795027915685;216643!GO:0008509;anion transmembrane transporter activity;0.0467795027915685;216643!GO:0044456;synapse part;0.047719067788828;216643!
}}
}}

Revision as of 12:59, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:33478859..33478863,-p4@Gabrp
Mm9::chr11:33478888..33478896,-p3@Gabrp
Mm9::chr11:33478933..33478966,-p1@Gabrp
Mm9::chr11:33478969..33478983,-p2@Gabrp
Mm9::chr5:23897763..23897779,-p3@Atg9b


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:0005776autophagic vacuole0.0308523611542294
GO:0000045autophagic vacuole formation0.0308523611542294
GO:0016236macroautophagy0.0308523611542294
GO:0006914autophagy0.0332119623468991
GO:0004890GABA-A receptor activity0.0332119623468991
GO:0016917GABA receptor activity0.0332119623468991
GO:0043168anion binding0.0416835042376049
GO:0031404chloride ion binding0.0416835042376049
GO:0005254chloride channel activity0.0416835042376049
GO:0005253anion channel activity0.0416835042376049
GO:0005230extracellular ligand-gated ion channel activity0.0416835042376049
GO:0015276ligand-gated ion channel activity0.0416835042376049
GO:0022834ligand-gated channel activity0.0416835042376049
GO:0030594neurotransmitter receptor activity0.0416835042376049
GO:0042165neurotransmitter binding0.0416835042376049
GO:0045211postsynaptic membrane0.0467795027915685
GO:0008509anion transmembrane transporter activity0.0467795027915685
GO:0044456synapse part0.047719067788828



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)

{{{tfbs_overrepresentation_jaspar}}}

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