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MCL coexpression mm9:1008: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,1.05953548240861,0.893483712999633,1.1735753187285,1.44790761875659,1.6382241645176,2.26407389343832,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,2.03033642949993,1.95318633346312,1.21759613644155,1.68470015001082,1.88440110766673,2.59671645188164,1.9637069883827,1.69512237541529,0,0,0,0.883297227568143,1.78658776178145,1.10166643704303,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.17737608472529,0,0,0,0,0,0,0,0,0,0,1.68574616178512,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.819000914748279,0,0,2.56866031026462,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.798422772860549,2.20680589487388,0,0,0,0,0.0872055405749939,0.0756292965920817,1.87795306428094,0.174378754247607,0.353469218625562,0.203269403191864,0.548332057072595,1.888738995331,2.07558847369677,2.19238000651068,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0.0635717028550276,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.68059306430255,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0492938041367021,0,0,0,0.041718751492076,0.111388092060353,0.0398944891531444,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0269518943326477,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,1.05953548240861,0.893483712999633,1.1735753187285,1.44790761875659,1.6382241645176,2.26407389343832,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,2.03033642949993,1.95318633346312,1.21759613644155,1.68470015001082,1.88440110766673,2.59671645188164,1.9637069883827,1.69512237541529,0,0,0,0.883297227568143,1.78658776178145,1.10166643704303,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.17737608472529,0,0,0,0,0,0,0,0,0,0,1.68574616178512,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.819000914748279,0,0,2.56866031026462,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.798422772860549,2.20680589487388,0,0,0,0,0.0872055405749939,0.0756292965920817,1.87795306428094,0.174378754247607,0.353469218625562,0.203269403191864,0.548332057072595,1.888738995331,2.07558847369677,2.19238000651068,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0.0635717028550276,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.68059306430255,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0492938041367021,0,0,0,0.041718751492076,0.111388092060353,0.0398944891531444,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0269518943326477,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0051707;response to other organism;2.73818787750133e-05;16429,13216,219033!GO:0009607;response to biotic stimulus;2.73818787750133e-05;16429,13216,219033!GO:0051704;multi-organism process;2.73818787750133e-05;16429,13216,219033!GO:0042742;defense response to bacterium;0.000671651094224734;13216,219033!GO:0009617;response to bacterium;0.000891987974606243;13216,219033!GO:0009624;response to nematode;0.00219130052371374;16429!GO:0019731;antibacterial humoral response;0.0037561035557236;219033!GO:0019730;antimicrobial humoral response;0.00410801316746212;219033!GO:0006952;defense response;0.0173980435134285;13216,219033!GO:0030141;secretory granule;0.0249315847224307;219033!
|gostat_on_MCL_coexpression=GO:0051707;response to other organism;2.73818787750133e-05;16429,13216,219033!GO:0009607;response to biotic stimulus;2.73818787750133e-05;16429,13216,219033!GO:0051704;multi-organism process;2.73818787750133e-05;16429,13216,219033!GO:0042742;defense response to bacterium;0.000671651094224734;13216,219033!GO:0009617;response to bacterium;0.000891987974606243;13216,219033!GO:0009624;response to nematode;0.00219130052371374;16429!GO:0019731;antibacterial humoral response;0.0037561035557236;219033!GO:0019730;antimicrobial humoral response;0.00410801316746212;219033!GO:0006952;defense response;0.0173980435134285;13216,219033!GO:0030141;secretory granule;0.0249315847224307;219033!
|ontology_enrichment_celltype=CL:0002563!1.46e-18!9;CL:0002251!1.46e-18!9;CL:0000239!5.58e-13!6;CL:0000677!5.58e-13!6;CL:0000212!5.58e-13!6;CL:0000584!5.58e-13!6;CL:0000075!5.16e-11!7;CL:0002076!2.06e-10!15;CL:0000066!2.56e-10!25;CL:0000627!1.79e-07!3;CL:0000682!1.79e-07!3;CL:0000223!2.27e-07!20;CL:0002250!3.75e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!8.57e-47!31;UBERON:0000344!3.71e-31!15;UBERON:0005409!1.50e-28!47;UBERON:0001242!8.78e-27!13;UBERON:0000060!8.78e-27!13;UBERON:0001262!8.78e-27!13;UBERON:0004786!8.78e-27!13;UBERON:0003350!1.46e-18!9;UBERON:0004808!1.46e-18!9;UBERON:0001277!1.46e-18!9;UBERON:0004923!4.90e-18!24;UBERON:0001007!1.33e-16!116;UBERON:0001555!1.33e-16!116;UBERON:0007026!1.33e-16!116;UBERON:0004119!3.51e-16!118;UBERON:0000925!3.51e-16!118;UBERON:0006595!3.51e-16!118;UBERON:0000485!7.45e-15!11;UBERON:0004921!2.20e-14!114;UBERON:0002108!6.30e-10!4;UBERON:0000331!5.27e-08!3;UBERON:0002116!5.27e-08!3;UBERON:0001204!5.27e-08!3;UBERON:0001168!5.27e-08!3
}}
}}

Revision as of 16:10, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:116725548..116725582,-p@chr10:116725548..116725582
-
Mm9::chr10:116729919..116729926,-p1@Lyz1
Mm9::chr14:52393253..52393271,-p1@Ang4
Mm9::chr1:173461791..173461819,-p@chr1:173461791..173461819
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Mm9::chr1:173465415..173465431,-p1@Itln1
p1@Itlnb
Mm9::chr8:22389392..22389399,+p1@Gm15292
Mm9::chr8:22844962..22844968,+p1@Defa1
p1@Defa24
p1@Defa6


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:0051707response to other organism2.73818787750133e-05
GO:0009607response to biotic stimulus2.73818787750133e-05
GO:0051704multi-organism process2.73818787750133e-05
GO:0042742defense response to bacterium0.000671651094224734
GO:0009617response to bacterium0.000891987974606243
GO:0009624response to nematode0.00219130052371374
GO:0019731antibacterial humoral response0.0037561035557236
GO:0019730antimicrobial humoral response0.00410801316746212
GO:0006952defense response0.0173980435134285
GO:0030141secretory granule0.0249315847224307



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>


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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