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MCL coexpression mm9:644: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005172!2.03e-09!49;UBERON:0005173!2.03e-09!49;UBERON:0002417!2.03e-09!49;UBERON:0000916!2.03e-09!49;UBERON:0002106!1.48e-08!6;UBERON:0004457!1.48e-08!6;UBERON:0000042!1.48e-08!6;UBERON:0004854!1.48e-08!6;UBERON:0009034!1.48e-08!6;UBERON:0002095!1.48e-08!6;UBERON:0004782!1.48e-08!6;UBERON:0003281!1.48e-08!6;UBERON:0009664!1.48e-08!6;UBERON:0002296!1.48e-08!6;UBERON:0005602!1.48e-08!6;UBERON:0001179!1.48e-08!6;UBERON:0006293!1.48e-08!6
|ontology_enrichment_uberon=UBERON:0005172!2.03e-09!49;UBERON:0005173!2.03e-09!49;UBERON:0002417!2.03e-09!49;UBERON:0000916!2.03e-09!49;UBERON:0002106!1.48e-08!6;UBERON:0004457!1.48e-08!6;UBERON:0000042!1.48e-08!6;UBERON:0004854!1.48e-08!6;UBERON:0009034!1.48e-08!6;UBERON:0002095!1.48e-08!6;UBERON:0004782!1.48e-08!6;UBERON:0003281!1.48e-08!6;UBERON:0009664!1.48e-08!6;UBERON:0002296!1.48e-08!6;UBERON:0005602!1.48e-08!6;UBERON:0001179!1.48e-08!6;UBERON:0006293!1.48e-08!6
|tfbs_overrepresentation_for_novel_motifs=0.795069,0.490989,0.269904,0.329881,0.52369,0.907763,1.08973,0.345089,0.362206,0.401738,0.385334,0.414631,0.345518,0.437133,0.555819,0,0.619876,0.508485,0.318616,0.387499,0.238546,0.831639,0.436294,0.520732,0.758244,0.4628,0.630402,0.361771,0.213277,0.500344,0.921513,0.717576,0.168723,0.270473,1.6721,0.308746,0.94339,0.411296,0.144953,0.391645,0.51597,0.931853,0.104243,0.559697,0.351346,0.319944,0.543674,0.376103,0.401883,0.61724,0.603113,0.488021,0.479906,0.855661,0.87275,0.443782,0.223087,1.03993,0.60268,0.441884,0.698157,0.496904,0.383763,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.706068,0.110167,1.25712,0.905636,0.0810502,0.932285,0.270351,0.532872,0.681539,0.679143,0.724739,0.636582,0.495545,0.101814,0.792744,0.256335,0.4982,0.231893,0.548334,1.51408,1.07554,0.797601,0.730003,0.535058,0.141946,0.129056,0.104462,0.732731,0.543917,0.197581,0.161581,1.70591,0.838603,0.603683,0.602672,0.930972,0.660145,0.973236,0.246223,0.67437,0.286453,0.840348,0.243062,1.01194,1.0825,0.512539,0.170188,0.333247,0.621127,0.479408,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,1.10612,0.723425,1.00525,0.540802,0.821997,0.323373,0.976125,0.456508,1.10385,0.0275241,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,1.45372,0.354106,0.546641,1.84176,0.302077,0.178088,0.235808,1.11868,0.857198,0.133365,0.455644,0.93735,0.488969,0.199652,0.290467,0.299755,1.06466,0.791909,0.685546,0.776587,0.593295,0.448733,0.484323,1.06237,0.148813
}}
}}

Revision as of 18:41, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80318068..80318083,+p2@3110056O03Rik
Mm9::chr11:102217808..102217820,-p@chr11:102217808..102217820
-
Mm9::chr15:83254210..83254223,-p@chr15:83254210..83254223
-
Mm9::chr1:75233328..75233336,+p10@Dnajb2
Mm9::chr4:122959994..122960005,+p3@LOC100503296
p3@Pabpc4
Mm9::chr6:28374572..28374589,+p@chr6:28374572..28374589
+
Mm9::chr6:38826531..38826540,-p9@Hipk2
Mm9::chr6:86055182..86055186,+p@chr6:86055182..86055186
+
Mm9::chr7:25162358..25162371,+p@chr7:25162358..25162371
+
Mm9::chr9:121361587..121361593,-p@chr9:121361587..121361593
-
Mm9::chr9:98197322..98197331,+p6@Nmnat3


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:0008717D-alanyl-D-alanine endopeptidase activity0.035451443793266
GO:0016772transferase activity, transferring phosphorus-containing groups0.035451443793266
GO:0000309nicotinamide-nucleotide adenylyltransferase activity0.035451443793266
GO:0045806negative regulation of endocytosis0.035451443793266
GO:0043388positive regulation of DNA binding0.035451443793266
GO:0051099positive regulation of binding0.035451443793266
GO:0009435NAD biosynthetic process0.035451443793266
GO:0019674NAD metabolic process0.035451443793266
GO:0042771DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis0.035451443793266
GO:0051101regulation of DNA binding0.035451443793266
GO:0019363pyridine nucleotide biosynthetic process0.035451443793266
GO:0016605PML body0.035451443793266
GO:0030330DNA damage response, signal transduction by p53 class mediator0.035451443793266
GO:0016740transferase activity0.035451443793266
GO:0008630DNA damage response, signal transduction resulting in induction of apoptosis0.035451443793266
GO:0042364water-soluble vitamin biosynthetic process0.035451443793266
GO:0051051negative regulation of transport0.035451443793266
GO:0009110vitamin biosynthetic process0.035451443793266
GO:0004190aspartic-type endopeptidase activity0.035451443793266
GO:0051098regulation of binding0.0374148170020494
GO:0006769nicotinamide metabolic process0.0391900315242104
GO:0019362pyridine nucleotide metabolic process0.0408027456076468
GO:0007224smoothened signaling pathway0.0455185289494597
GO:0008629induction of apoptosis by intracellular signals0.0467300915721629
GO:0006733oxidoreduction coenzyme metabolic process0.0478437468235302
GO:0030100regulation of endocytosis0.048440920128482
GO:0042770DNA damage response, signal transduction0.048440920128482



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>



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}}}