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MCL coexpression mm9:1573: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!1.49e-17!47;UBERON:0000344!1.00e-16!15;UBERON:0001242!8.03e-13!13;UBERON:0000060!8.03e-13!13;UBERON:0001262!8.03e-13!13;UBERON:0004786!8.03e-13!13;UBERON:0000160!1.23e-12!31;UBERON:0004923!3.04e-11!24;UBERON:0002108!8.77e-10!4;UBERON:0004119!1.24e-09!118;UBERON:0000925!1.24e-09!118;UBERON:0006595!1.24e-09!118;UBERON:0001007!4.87e-09!116;UBERON:0001555!4.87e-09!116;UBERON:0007026!4.87e-09!116;UBERON:0000331!5.76e-08!3;UBERON:0002116!5.76e-08!3;UBERON:0001204!5.76e-08!3;UBERON:0001168!5.76e-08!3;UBERON:0004921!1.93e-07!114
|ontology_enrichment_uberon=UBERON:0005409!1.49e-17!47;UBERON:0000344!1.00e-16!15;UBERON:0001242!8.03e-13!13;UBERON:0000060!8.03e-13!13;UBERON:0001262!8.03e-13!13;UBERON:0004786!8.03e-13!13;UBERON:0000160!1.23e-12!31;UBERON:0004923!3.04e-11!24;UBERON:0002108!8.77e-10!4;UBERON:0004119!1.24e-09!118;UBERON:0000925!1.24e-09!118;UBERON:0006595!1.24e-09!118;UBERON:0001007!4.87e-09!116;UBERON:0001555!4.87e-09!116;UBERON:0007026!4.87e-09!116;UBERON:0000331!5.76e-08!3;UBERON:0002116!5.76e-08!3;UBERON:0001204!5.76e-08!3;UBERON:0001168!5.76e-08!3;UBERON:0004921!1.93e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.087078,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,1.51246,0.370407,0.668936,0.702872,0.300533,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.185796,0.489529,0.145201,0.727684,1.04384,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,0.454919,0.384813,0.699032,0.947152,0.328675,0.401916,0.631725,0.419293,1.09239,1.28479,0.591277,0.847828,0.658142,0.370501,1.16276,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.731291,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,0.46305,1.23259,0.257421,0.245132,0.70455,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,0.0793594,0.618102,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,1.23125,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.867604,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.651755,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.191104
}}
}}

Revision as of 20:07, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:5798620..5798635,-p@chr11:5798620..5798635
-
Mm9::chr2:112082750..112082785,+p6@Lpcat4
Mm9::chr2:122124634..122124639,+p1@Duoxa2
Mm9::chr7:151964837..151964841,-p@chr7:151964837..151964841
-
Mm9::chr8:73058170..73058188,+p@chr8:73058170..73058188
+


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:0043197dendritic spine0.0492948066897975



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>


Cell Type
Ontology termp-valuen
brush border epithelial cell2.63e-096
gut absorptive cell2.63e-096
absorptive cell2.63e-096
enterocyte2.63e-096
transporting cell6.07e-083
M cell of gut6.07e-083
columnar/cuboidal epithelial cell6.56e-087

Uber Anatomy
Ontology termp-valuen
gastrointestinal system1.49e-1747
mucosa1.00e-1615
intestinal mucosa8.03e-1313
anatomical wall8.03e-1313
wall of intestine8.03e-1313
gastrointestinal system mucosa8.03e-1313
intestine1.23e-1231
organ component layer3.04e-1124
small intestine8.77e-104
endoderm-derived structure1.24e-09118
endoderm1.24e-09118
presumptive endoderm1.24e-09118
digestive system4.87e-09116
digestive tract4.87e-09116
primitive gut4.87e-09116
ileal mucosa5.76e-083
ileum5.76e-083
mucosa of small intestine5.76e-083
wall of small intestine5.76e-083
subdivision of digestive tract1.93e-07114


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}}}