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MCL coexpression mm9:364: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005634;nucleus;0.00512483060266638;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0007049;cell cycle;0.0171152652579545;19360,105837,72568,100710,67500!GO:0030870;Mre11 complex;0.0357447406800923;19360!GO:0022402;cell cycle process;0.0357447406800923;19360,105837,72568,100710!GO:0044446;intracellular organelle part;0.0357447406800923;26920,13211,83815,19360,58186,103573,67500!GO:0044422;organelle part;0.0357447406800923;26920,13211,83815,19360,58186,103573,67500!GO:0022403;cell cycle phase;0.0357447406800923;19360,105837,100710!GO:0044427;chromosomal part;0.0402364740055755;83815,19360,58186!GO:0043229;intracellular organelle;0.0402364740055755;67459,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0043226;organelle;0.0402364740055755;67459,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0008518;reduced folate carrier activity;0.0402364740055755;20509!GO:0007089;traversing start control point of mitotic cell cycle;0.0402364740055755;105837!GO:0005694;chromosome;0.0420588855377702;83815,19360,58186!GO:0043231;intracellular membrane-bound organelle;0.042427193292381;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0043227;membrane-bound organelle;0.042427193292381;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0005635;nuclear envelope;0.042427193292381;103573,67500!GO:0044424;intracellular part;0.0439915766739227;67459,68145,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0000080;G1 phase of mitotic cell cycle;0.0465642675211963;105837!GO:0051318;G1 phase;0.0465642675211963;105837!GO:0043232;intracellular non-membrane-bound organelle;0.0465642675211963;26920,13211,83815,19360,58186!GO:0043228;non-membrane-bound organelle;0.0465642675211963;26920,13211,83815,19360,58186!
|gostat_on_MCL_coexpression=GO:0005634;nucleus;0.00512483060266638;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0007049;cell cycle;0.0171152652579545;19360,105837,72568,100710,67500!GO:0030870;Mre11 complex;0.0357447406800923;19360!GO:0022402;cell cycle process;0.0357447406800923;19360,105837,72568,100710!GO:0044446;intracellular organelle part;0.0357447406800923;26920,13211,83815,19360,58186,103573,67500!GO:0044422;organelle part;0.0357447406800923;26920,13211,83815,19360,58186,103573,67500!GO:0022403;cell cycle phase;0.0357447406800923;19360,105837,100710!GO:0044427;chromosomal part;0.0402364740055755;83815,19360,58186!GO:0043229;intracellular organelle;0.0402364740055755;67459,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0043226;organelle;0.0402364740055755;67459,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0008518;reduced folate carrier activity;0.0402364740055755;20509!GO:0007089;traversing start control point of mitotic cell cycle;0.0402364740055755;105837!GO:0005694;chromosome;0.0420588855377702;83815,19360,58186!GO:0043231;intracellular membrane-bound organelle;0.042427193292381;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0043227;membrane-bound organelle;0.042427193292381;67459,19360,432508,100710,67500,83815,13211,58186,22680,72568,103573!GO:0005635;nuclear envelope;0.042427193292381;103573,67500!GO:0044424;intracellular part;0.0439915766739227;67459,68145,19360,432508,100710,67500,26920,83815,13211,58186,22680,72568,103573!GO:0000080;G1 phase of mitotic cell cycle;0.0465642675211963;105837!GO:0051318;G1 phase;0.0465642675211963;105837!GO:0043232;intracellular non-membrane-bound organelle;0.0465642675211963;26920,13211,83815,19360,58186!GO:0043228;non-membrane-bound organelle;0.0465642675211963;26920,13211,83815,19360,58186!
}}
}}

Revision as of 12:40, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:116813978..116814010,-p2@Cpsf6
Mm9::chr10:41529426..41529460,-p1@Cep57l1
Mm9::chr10:62254991..62255038,-p1@Ccar1
Mm9::chr11:17853864..17853900,-p1@Etaa1
Mm9::chr11:23155920..23155976,+p2@Xpo1
Mm9::chr11:53520771..53520834,-p1@Rad50
Mm9::chr11:80196811..80196838,+p1@Zfp207
Mm9::chr15:55389130..55389159,+p1@Mtbp
Mm9::chr17:41071446..41071558,-p1@Cenpq
Mm9::chr18:67959755..67959801,+p1@Cep192
Mm9::chr18:89141394..89141432,+p1@Rttn
Mm9::chr1:155334769..155334792,-p1@Dhx9
Mm9::chr1:182571461..182571505,+p1@Lin9
Mm9::chr1:183074264..183074314,-p1@Nvl
Mm9::chr2:34987686..34987709,+p3@Cep110
Mm9::chr4:86257913..86257966,-p1@Haus6
Mm9::chr5:151476421..151476452,+p2@Pds5b
Mm9::chr5:34512058..34512115,-p1@Haus3
p1@Poln
Mm9::chr5:65726836..65726918,-p1@Rfc1
Mm9::chr5:66155312..66155397,+p1@N4bp2
Mm9::chr6:112646628..112646669,-p1@Rad18


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:0005634nucleus0.00512483060266638
GO:0007049cell cycle0.0171152652579545
GO:0030870Mre11 complex0.0357447406800923
GO:0022402cell cycle process0.0357447406800923
GO:0044446intracellular organelle part0.0357447406800923
GO:0044422organelle part0.0357447406800923
GO:0022403cell cycle phase0.0357447406800923
GO:0044427chromosomal part0.0402364740055755
GO:0043229intracellular organelle0.0402364740055755
GO:0043226organelle0.0402364740055755
GO:0008518reduced folate carrier activity0.0402364740055755
GO:0007089traversing start control point of mitotic cell cycle0.0402364740055755
GO:0005694chromosome0.0420588855377702
GO:0043231intracellular membrane-bound organelle0.042427193292381
GO:0043227membrane-bound organelle0.042427193292381
GO:0005635nuclear envelope0.042427193292381
GO:0044424intracellular part0.0439915766739227
GO:0000080G1 phase of mitotic cell cycle0.0465642675211963
GO:0051318G1 phase0.0465642675211963
GO:0043232intracellular non-membrane-bound organelle0.0465642675211963
GO:0043228non-membrane-bound organelle0.0465642675211963



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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