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MCL coexpression mm9:424: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!2.24e-32!31;UBERON:0005409!4.77e-32!47;UBERON:0000344!1.25e-19!15;UBERON:0001242!5.60e-17!13;UBERON:0000060!5.60e-17!13;UBERON:0001262!5.60e-17!13;UBERON:0004786!5.60e-17!13;UBERON:0004923!1.59e-14!24;UBERON:0003350!8.32e-12!9;UBERON:0004808!8.32e-12!9;UBERON:0001277!8.32e-12!9;UBERON:0004119!3.24e-11!118;UBERON:0000925!3.24e-11!118;UBERON:0006595!3.24e-11!118;UBERON:0001007!3.07e-10!116;UBERON:0001555!3.07e-10!116;UBERON:0007026!3.07e-10!116;UBERON:0000485!3.31e-09!11;UBERON:0004921!6.37e-09!114
|ontology_enrichment_uberon=UBERON:0000160!2.24e-32!31;UBERON:0005409!4.77e-32!47;UBERON:0000344!1.25e-19!15;UBERON:0001242!5.60e-17!13;UBERON:0000060!5.60e-17!13;UBERON:0001262!5.60e-17!13;UBERON:0004786!5.60e-17!13;UBERON:0004923!1.59e-14!24;UBERON:0003350!8.32e-12!9;UBERON:0004808!8.32e-12!9;UBERON:0001277!8.32e-12!9;UBERON:0004119!3.24e-11!118;UBERON:0000925!3.24e-11!118;UBERON:0006595!3.24e-11!118;UBERON:0001007!3.07e-10!116;UBERON:0001555!3.07e-10!116;UBERON:0007026!3.07e-10!116;UBERON:0000485!3.31e-09!11;UBERON:0004921!6.37e-09!114
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.239198,0.144778,0.558894,0.572598,0.201606,0.270195,1.84669,0.361988,0.222734,0.236307,0.260789,0.340991,0.27987,1.03205,0,0.44163,0.552297,0.889823,0.478834,0.121654,1.05054,0.279154,0.26934,0.457081,0.301898,0.849653,0.216938,0.338701,0.203444,0.595646,0.531719,0.257084,0.756943,0.296456,0.0591471,0.0693463,0.257981,0.812295,0.177517,0.56228,0.604618,0.28733,0.298695,0.727797,0.183361,0.372907,0.228683,1.07561,0.343195,0.426383,0.323798,0.61775,0.661847,0.67813,0.28555,0.722962,0.25091,0.806525,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,1.14639,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.0896041,0.709559,0.256968,0.445056,1.10669,0.363297,0.498264,0.124234,0.155185,0.456892,0.330377,0.326128,0.602212,0.333038,0.788585,0.0797642,0.377064,1.30447,0.873554,0.606796,0.543309,0.587829,0.057338,0.186449,0.14406,0.545856,0.373124,0.0619917,0.244202,0.531465,1.55675,0.4269,0.425983,0.21005,0.478524,0.225669,0.127231,0.122746,0.476067,0.647285,0.787233,0.240232,0.880323,0.263255,0.461856,1.07444,0.442771,1.32618,1.70038,0.398522,0.303371,0.362534,0.932468,0.501574,0.276618,0.53717,0.805419,0.59554,0.629874,0.186072,0.777296,0.296474,0.9011,0.174785,0.501821,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.169369,0.0799646,1.35331,0.0216311,0.66331,0.754242,0.29573,0.739975,0.324625,0.313539,0.938758,0.167568,0.862985,0.601424,0.501973,0.919703,1.07177,0.788653,0.242542,1.32568,0.979717
}}
}}

Revision as of 18:20, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:118277114..118277138,-p3@Cant1
Mm9::chr11:58192538..58192554,+p1@2210415F13Rik
Mm9::chr11:58196298..58196316,+p@chr11:58196298..58196316
+
Mm9::chr14:8849148..8849194,+p@chr14:8849148..8849194
+
Mm9::chr17:23990719..23990747,+p1@Prss32
Mm9::chr18:20716778..20716781,+p4@Dsg2
Mm9::chr1:135101254..135101286,+p@chr1:135101254..135101286
+
Mm9::chr3:122215088..122215124,+p@chr3:122215088..122215124
+
Mm9::chr4:119310297..119310302,+p3@Guca2a
Mm9::chr4:119310309..119310326,+p1@Guca2a
Mm9::chr4:119310332..119310344,+p2@Guca2a
Mm9::chr4:119311395..119311417,-p@chr4:119311395..119311417
-
Mm9::chr5:114593479..114593491,+p@chr5:114593479..114593491
+
Mm9::chr5:117769350..117769361,+p4@Vsig10
Mm9::chr5:143573837..143573852,+p@chr5:143573837..143573852
+
Mm9::chr5:23934066..23934086,+p8@Slc4a2
Mm9::chr5:4023343..4023357,+p@chr5:4023343..4023357
+
Mm9::chr7:52976553..52976603,+p1@Fam83e


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:0004382guanosine-diphosphatase activity0.0126006683832795
GO:0045134uridine-diphosphatase activity0.0126006683832795
GO:0009191ribonucleoside diphosphate catabolic process0.0251654610230754
GO:0009185ribonucleoside diphosphate metabolic process0.0251654610230754
GO:0009134nucleoside diphosphate catabolic process0.0251654610230754
GO:0009261ribonucleotide catabolic process0.0251654610230754
GO:0005452inorganic anion exchanger activity0.0251654610230754
GO:0017110nucleoside-diphosphatase activity0.0251654610230754
GO:0015380anion exchanger activity0.0251654610230754
GO:0015106bicarbonate transmembrane transporter activity0.0251654610230754
GO:0015301anion:anion antiporter activity0.0251654610230754
GO:0015108chloride transmembrane transporter activity0.0251654610230754
GO:0009132nucleoside diphosphate metabolic process0.0251654610230754
GO:0030057desmosome0.0251654610230754
GO:0009166nucleotide catabolic process0.0368769999257902
GO:0004263chymotrypsin activity0.0413854539292577
GO:0015103inorganic anion transmembrane transporter activity0.0413854539292577
GO:0004295trypsin activity0.0432598518775996



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}}}