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MCL coexpression mm9:658: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000065!1.99e-08!41;UBERON:0001004!4.80e-08!42;UBERON:0005178!1.80e-07!17;UBERON:0005181!1.80e-07!17;UBERON:0002224!1.80e-07!17;UBERON:0000915!1.80e-07!17;UBERON:0008947!1.80e-07!17;UBERON:0003258!1.80e-07!17
|ontology_enrichment_uberon=UBERON:0000065!1.99e-08!41;UBERON:0001004!4.80e-08!42;UBERON:0005178!1.80e-07!17;UBERON:0005181!1.80e-07!17;UBERON:0002224!1.80e-07!17;UBERON:0000915!1.80e-07!17;UBERON:0008947!1.80e-07!17;UBERON:0003258!1.80e-07!17
|tfbs_overrepresentation_for_novel_motifs=0.29262,0.286791,0.7433,0.329881,0.52369,0.342839,0.425757,0.106126,0.732132,0.401738,0.385334,0.414631,0.106288,0.437133,0.189961,0,0.619876,0.170475,0.096222,0.387499,0.238546,0.831639,0.436294,1.00057,0.276437,0.4628,0.630402,0.361771,1.79888,0.0650265,0.349031,0.717576,0.168723,0.270473,0.19035,0.308746,0.161521,0.411296,0.445168,1.27598,0.51597,0.353696,0.770976,1.06512,1.11259,0.319944,0.543674,0.376103,0.97944,0.215702,0.603113,0.488021,0.220536,0.855661,0.87275,0.443782,0.634658,0.40287,0.60268,0.441884,0.698157,0.496904,0.120887,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.706068,0.355763,0.299271,0.905636,0.0810502,1.39651,0.570456,0.532872,0.681539,0.679143,0.724739,0.636582,1.23994,0.101814,0.792744,0.00855221,0.0106044,0.231893,0.548334,1.51408,1.07554,0.797601,0.730003,0.181374,0.437593,0.404817,0.694736,0.732731,0.543917,1.16887,0.943642,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,0.243062,0.390066,1.0825,0.172131,0.337757,0.333247,0.621127,0.479408,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,2.88779,0.723425,1.00525,0.540802,0.821997,0.323373,0.976125,0.456508,1.10385,0.2772,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.354106,0.546641,1.84176,0.816464,0.527071,0.235808,0.0240729,0.857198,0.824171,0.455644,0.93735,0.488969,0.57908,0.290467,0.299755,1.06466,0.791909,0.685546,0.776587,0.593295,0.448733,2.14982,0.413167,0.148813
}}
}}

Revision as of 18:42, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:67345950..67345978,+p@chr11:67345950..67345978
+
Mm9::chr18:83996995..83997000,-p@chr18:83996995..83997000
-
Mm9::chr1:95056844..95056862,-p@chr1:95056844..95056862
-
Mm9::chr3:58999017..58999032,-p1@Gpr87
Mm9::chr3:90330747..90330754,+p2@S100a14
Mm9::chr3:90330778..90330781,+p3@S100a14
Mm9::chr3:90330783..90330803,+p1@S100a14
Mm9::chr3:90331064..90331098,+p@chr3:90331064..90331098
+
Mm9::chr3:90341164..90341192,+p5@S100a16
Mm9::chr5:93391094..93391119,+p12@Shroom3
Mm9::chrX:73088285..73088302,-p3@Pls3


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:0002065columnar/cuboidal epithelial cell differentiation0.0240456913519203
GO:0002066columnar/cuboidal epithelial cell development0.0240456913519203
GO:0005509calcium ion binding0.0240456913519203
GO:0003779actin binding0.0379414070840661
GO:0002064epithelial cell development0.0379414070840661



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
respiratory tract1.99e-0841
respiratory system4.80e-0842
thoracic cavity element1.80e-0717
thoracic segment organ1.80e-0717
thoracic cavity1.80e-0717
thoracic segment of trunk1.80e-0717
respiratory primordium1.80e-0717
endoderm of foregut1.80e-0717


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}}}