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MCL coexpression mm9:1792: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!9.39e-18!22;UBERON:0007499!9.39e-18!22;UBERON:0006925!9.39e-18!22;UBERON:0009497!9.39e-18!22;UBERON:0000015!9.39e-18!22;UBERON:0002423!9.39e-18!22;UBERON:0006235!9.39e-18!22;UBERON:0008835!9.39e-18!22;UBERON:0003894!9.39e-18!22;UBERON:0004161!9.39e-18!22;UBERON:0008836!9.39e-18!22;UBERON:0000160!8.61e-17!31;UBERON:0009854!9.64e-17!23;UBERON:0009856!9.64e-17!23;UBERON:0000344!5.71e-15!15;UBERON:0002365!5.74e-15!25;UBERON:0002330!5.74e-15!25;UBERON:0001007!5.28e-13!116;UBERON:0001555!5.28e-13!116;UBERON:0007026!5.28e-13!116;UBERON:0004119!1.41e-12!118;UBERON:0000925!1.41e-12!118;UBERON:0006595!1.41e-12!118;UBERON:0001242!4.60e-12!13;UBERON:0000060!4.60e-12!13;UBERON:0001262!4.60e-12!13;UBERON:0004786!4.60e-12!13;UBERON:0004921!2.28e-11!114;UBERON:0005409!7.98e-11!47;UBERON:0003929!3.99e-10!55;UBERON:0005256!1.23e-08!45;UBERON:0000949!5.20e-08!72;UBERON:0004923!5.61e-08!24;UBERON:0005172!1.76e-07!49;UBERON:0005173!1.76e-07!49;UBERON:0002417!1.76e-07!49;UBERON:0000916!1.76e-07!49;UBERON:0005177!2.44e-07!79;UBERON:0000490!2.59e-07!66;UBERON:0003914!3.49e-07!47;UBERON:0003350!4.60e-07!9;UBERON:0004808!4.60e-07!9;UBERON:0001277!4.60e-07!9;UBERON:0000466!6.83e-07!79
|ontology_enrichment_uberon=UBERON:0002107!9.39e-18!22;UBERON:0007499!9.39e-18!22;UBERON:0006925!9.39e-18!22;UBERON:0009497!9.39e-18!22;UBERON:0000015!9.39e-18!22;UBERON:0002423!9.39e-18!22;UBERON:0006235!9.39e-18!22;UBERON:0008835!9.39e-18!22;UBERON:0003894!9.39e-18!22;UBERON:0004161!9.39e-18!22;UBERON:0008836!9.39e-18!22;UBERON:0000160!8.61e-17!31;UBERON:0009854!9.64e-17!23;UBERON:0009856!9.64e-17!23;UBERON:0000344!5.71e-15!15;UBERON:0002365!5.74e-15!25;UBERON:0002330!5.74e-15!25;UBERON:0001007!5.28e-13!116;UBERON:0001555!5.28e-13!116;UBERON:0007026!5.28e-13!116;UBERON:0004119!1.41e-12!118;UBERON:0000925!1.41e-12!118;UBERON:0006595!1.41e-12!118;UBERON:0001242!4.60e-12!13;UBERON:0000060!4.60e-12!13;UBERON:0001262!4.60e-12!13;UBERON:0004786!4.60e-12!13;UBERON:0004921!2.28e-11!114;UBERON:0005409!7.98e-11!47;UBERON:0003929!3.99e-10!55;UBERON:0005256!1.23e-08!45;UBERON:0000949!5.20e-08!72;UBERON:0004923!5.61e-08!24;UBERON:0005172!1.76e-07!49;UBERON:0005173!1.76e-07!49;UBERON:0002417!1.76e-07!49;UBERON:0000916!1.76e-07!49;UBERON:0005177!2.44e-07!79;UBERON:0000490!2.59e-07!66;UBERON:0003914!3.49e-07!47;UBERON:0003350!4.60e-07!9;UBERON:0004808!4.60e-07!9;UBERON:0001277!4.60e-07!9;UBERON:0000466!6.83e-07!79
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.612204,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.310789,0.370407,0.668936,0.702872,0.300533,1.72941,0.424775,0,0.930881,0.397593,0.283802,0.545768,0.489529,0.874994,0.727684,1.04384,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.704734,0.425309,0.20704,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.0637209,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.731291,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,0.152094,1.23259,0.257421,0.686172,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.796301,1.1148,0.0793594,0.297068,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.991416,1.23809,0.879184,0.759676,0.834976,3.23515,1.00091,1.72039,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.867604,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.191104
}}
}}

Revision as of 20:26, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr3:57229356..57229374,+p1@Tm4sf4
Mm9::chr3:57229567..57229582,+p@chr3:57229567..57229582
+
Mm9::chr3:57237693..57237725,+p@chr3:57237693..57237725
+
Mm9::chr3:57245207..57245210,+p@chr3:57245207..57245210
+
Mm9::chr3:57245290..57245293,+p@chr3:57245290..57245293
+


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

no results for this coexpression

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
epithelial cell5.33e-1025
endodermal cell6.17e-0820
metabolising cell2.10e-075
endopolyploid cell2.10e-075
parenchymal cell2.10e-075
polyploid cell2.10e-075
hepatocyte2.10e-075
intestinal epithelial cell4.60e-079
epithelial cell of alimentary canal4.60e-079

Uber Anatomy
Ontology termp-valuen
liver9.39e-1822
epithelial sac9.39e-1822
digestive gland9.39e-1822
epithelium of foregut-midgut junction9.39e-1822
anatomical boundary9.39e-1822
hepatobiliary system9.39e-1822
foregut-midgut junction9.39e-1822
hepatic diverticulum9.39e-1822
liver primordium9.39e-1822
septum transversum9.39e-1822
liver bud9.39e-1822
intestine8.61e-1731
digestive tract diverticulum9.64e-1723
sac9.64e-1723
mucosa5.71e-1515
exocrine gland5.74e-1525
exocrine system5.74e-1525
digestive system5.28e-13116
digestive tract5.28e-13116
primitive gut5.28e-13116
endoderm-derived structure1.41e-12118
endoderm1.41e-12118
presumptive endoderm1.41e-12118
intestinal mucosa4.60e-1213
anatomical wall4.60e-1213
wall of intestine4.60e-1213
gastrointestinal system mucosa4.60e-1213
subdivision of digestive tract2.28e-11114
gastrointestinal system7.98e-1147
gut epithelium3.99e-1055
trunk mesenchyme1.23e-0845
endocrine system5.20e-0872
organ component layer5.61e-0824
abdomen element1.76e-0749
abdominal segment element1.76e-0749
abdominal segment of trunk1.76e-0749
abdomen1.76e-0749
trunk region element2.44e-0779
unilaminar epithelium2.59e-0766
epithelial tube3.49e-0747
epithelium of mucosa4.60e-079
gastrointestinal system epithelium4.60e-079
intestinal epithelium4.60e-079
immaterial anatomical entity6.83e-0779


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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