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MCL coexpression mm9:3072: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001007!1.75e-19!116;UBERON:0001555!1.75e-19!116;UBERON:0007026!1.75e-19!116;UBERON:0000160!4.62e-19!31;UBERON:0005409!6.62e-19!47;UBERON:0004119!1.15e-18!118;UBERON:0000925!1.15e-18!118;UBERON:0006595!1.15e-18!118;UBERON:0004921!2.12e-18!114;UBERON:0005177!9.03e-17!79;UBERON:0002100!9.12e-13!90;UBERON:0000344!5.46e-12!15;UBERON:0001242!5.41e-11!13;UBERON:0000060!5.41e-11!13;UBERON:0001262!5.41e-11!13;UBERON:0004786!5.41e-11!13;UBERON:0000466!8.55e-11!79;UBERON:0009569!6.71e-10!66;UBERON:0001264!8.68e-09!12;UBERON:0002365!2.36e-08!25;UBERON:0002330!2.36e-08!25;UBERON:0003350!2.93e-08!9;UBERON:0004808!2.93e-08!9;UBERON:0001277!2.93e-08!9;UBERON:0009854!3.79e-08!23;UBERON:0009856!3.79e-08!23;UBERON:0002107!1.98e-07!22;UBERON:0007499!1.98e-07!22;UBERON:0006925!1.98e-07!22;UBERON:0009497!1.98e-07!22;UBERON:0000015!1.98e-07!22;UBERON:0002423!1.98e-07!22;UBERON:0006235!1.98e-07!22;UBERON:0008835!1.98e-07!22;UBERON:0003894!1.98e-07!22;UBERON:0004161!1.98e-07!22;UBERON:0008836!1.98e-07!22
|ontology_enrichment_uberon=UBERON:0001007!1.75e-19!116;UBERON:0001555!1.75e-19!116;UBERON:0007026!1.75e-19!116;UBERON:0000160!4.62e-19!31;UBERON:0005409!6.62e-19!47;UBERON:0004119!1.15e-18!118;UBERON:0000925!1.15e-18!118;UBERON:0006595!1.15e-18!118;UBERON:0004921!2.12e-18!114;UBERON:0005177!9.03e-17!79;UBERON:0002100!9.12e-13!90;UBERON:0000344!5.46e-12!15;UBERON:0001242!5.41e-11!13;UBERON:0000060!5.41e-11!13;UBERON:0001262!5.41e-11!13;UBERON:0004786!5.41e-11!13;UBERON:0000466!8.55e-11!79;UBERON:0009569!6.71e-10!66;UBERON:0001264!8.68e-09!12;UBERON:0002365!2.36e-08!25;UBERON:0002330!2.36e-08!25;UBERON:0003350!2.93e-08!9;UBERON:0004808!2.93e-08!9;UBERON:0001277!2.93e-08!9;UBERON:0009854!3.79e-08!23;UBERON:0009856!3.79e-08!23;UBERON:0002107!1.98e-07!22;UBERON:0007499!1.98e-07!22;UBERON:0006925!1.98e-07!22;UBERON:0009497!1.98e-07!22;UBERON:0000015!1.98e-07!22;UBERON:0002423!1.98e-07!22;UBERON:0006235!1.98e-07!22;UBERON:0008835!1.98e-07!22;UBERON:0003894!1.98e-07!22;UBERON:0004161!1.98e-07!22;UBERON:0008836!1.98e-07!22
|tfbs_overrepresentation_for_novel_motifs=0.752782,0.193418,0.722405,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,0.235304,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.876292,0.679146,0.756749,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,0.575271,1.05917,0.608816,0.144706,0.563758,0.902078,0.536514,0.50014,0.582863,0.831295,0.724277,0.610669,0.922882,0.788421,1.05665,0.859154,0.663409,0.646474,1.12346,0.99279,0.971403,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,0.284975,1.44925,0.416814,0.402065,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.181575,0.195254,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,1.31639,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,1.63106,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,1.1471,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.751419,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,0.589976,0.38417,0.721422,1.39822,0.516739,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,1.38188,0.904334,1.34909
}}
}}

Revision as of 22:22, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:96583335..96583347,+p3@Igsf5
Mm9::chr5:64203686..64203777,+p1@0610040J01Rik
Mm9::chr7:117792331..117792347,-p@chr7:117792331..117792347
-


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:0030165PDZ domain binding0.0132580945597984
GO:0019904protein domain specific binding0.0216950638251246
GO:0005923tight junction0.0216950638251246
GO:0043296apical junction complex0.0216950638251246
GO:0016327apicolateral plasma membrane0.0216950638251246
GO:0005911intercellular junction0.0301320330904509
GO:0009986cell surface0.0313373144140689
GO:0016337cell-cell adhesion0.0313373144140689



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 cell7.15e-1025
endodermal cell2.11e-0920
intestinal epithelial cell2.93e-089
epithelial cell of alimentary canal2.93e-089

Uber Anatomy
Ontology termp-valuen
digestive system1.75e-19116
digestive tract1.75e-19116
primitive gut1.75e-19116
intestine4.62e-1931
gastrointestinal system6.62e-1947
endoderm-derived structure1.15e-18118
endoderm1.15e-18118
presumptive endoderm1.15e-18118
subdivision of digestive tract2.12e-18114
trunk region element9.03e-1779
trunk9.12e-1390
mucosa5.46e-1215
intestinal mucosa5.41e-1113
anatomical wall5.41e-1113
wall of intestine5.41e-1113
gastrointestinal system mucosa5.41e-1113
immaterial anatomical entity8.55e-1179
subdivision of trunk6.71e-1066
pancreas8.68e-0912
exocrine gland2.36e-0825
exocrine system2.36e-0825
epithelium of mucosa2.93e-089
gastrointestinal system epithelium2.93e-089
intestinal epithelium2.93e-089
digestive tract diverticulum3.79e-0823
sac3.79e-0823
liver1.98e-0722
epithelial sac1.98e-0722
digestive gland1.98e-0722
epithelium of foregut-midgut junction1.98e-0722
anatomical boundary1.98e-0722
hepatobiliary system1.98e-0722
foregut-midgut junction1.98e-0722
hepatic diverticulum1.98e-0722
liver primordium1.98e-0722
septum transversum1.98e-0722
liver bud1.98e-0722


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}}}