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MCL coexpression mm9:1457: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009569!2.93e-14!66;UBERON:0005172!4.22e-11!49;UBERON:0005173!4.22e-11!49;UBERON:0002417!4.22e-11!49;UBERON:0000916!4.22e-11!49;UBERON:0005256!7.56e-11!45;UBERON:0005177!1.98e-10!79;UBERON:0002107!6.57e-10!22;UBERON:0007499!6.57e-10!22;UBERON:0006925!6.57e-10!22;UBERON:0009497!6.57e-10!22;UBERON:0000015!6.57e-10!22;UBERON:0002423!6.57e-10!22;UBERON:0006235!6.57e-10!22;UBERON:0008835!6.57e-10!22;UBERON:0003894!6.57e-10!22;UBERON:0004161!6.57e-10!22;UBERON:0008836!6.57e-10!22;UBERON:0001007!8.64e-10!116;UBERON:0001555!8.64e-10!116;UBERON:0007026!8.64e-10!116;UBERON:0005911!1.09e-09!69;UBERON:0004119!2.44e-09!118;UBERON:0000925!2.44e-09!118;UBERON:0006595!2.44e-09!118;UBERON:0009854!3.25e-09!23;UBERON:0009856!3.25e-09!23;UBERON:0003104!7.21e-09!61;UBERON:0009142!7.21e-09!61;UBERON:0004921!1.11e-08!114;UBERON:0002100!4.83e-08!90;UBERON:0002365!5.24e-08!25;UBERON:0002330!5.24e-08!25;UBERON:0000344!5.80e-08!15;UBERON:0002369!1.10e-07!7;UBERON:0006858!1.10e-07!7;UBERON:0000160!1.72e-07!31;UBERON:0003064!2.39e-07!14;UBERON:0003350!5.26e-07!9;UBERON:0004808!5.26e-07!9;UBERON:0001277!5.26e-07!9
|ontology_enrichment_uberon=UBERON:0009569!2.93e-14!66;UBERON:0005172!4.22e-11!49;UBERON:0005173!4.22e-11!49;UBERON:0002417!4.22e-11!49;UBERON:0000916!4.22e-11!49;UBERON:0005256!7.56e-11!45;UBERON:0005177!1.98e-10!79;UBERON:0002107!6.57e-10!22;UBERON:0007499!6.57e-10!22;UBERON:0006925!6.57e-10!22;UBERON:0009497!6.57e-10!22;UBERON:0000015!6.57e-10!22;UBERON:0002423!6.57e-10!22;UBERON:0006235!6.57e-10!22;UBERON:0008835!6.57e-10!22;UBERON:0003894!6.57e-10!22;UBERON:0004161!6.57e-10!22;UBERON:0008836!6.57e-10!22;UBERON:0001007!8.64e-10!116;UBERON:0001555!8.64e-10!116;UBERON:0007026!8.64e-10!116;UBERON:0005911!1.09e-09!69;UBERON:0004119!2.44e-09!118;UBERON:0000925!2.44e-09!118;UBERON:0006595!2.44e-09!118;UBERON:0009854!3.25e-09!23;UBERON:0009856!3.25e-09!23;UBERON:0003104!7.21e-09!61;UBERON:0009142!7.21e-09!61;UBERON:0004921!1.11e-08!114;UBERON:0002100!4.83e-08!90;UBERON:0002365!5.24e-08!25;UBERON:0002330!5.24e-08!25;UBERON:0000344!5.80e-08!15;UBERON:0002369!1.10e-07!7;UBERON:0006858!1.10e-07!7;UBERON:0000160!1.72e-07!31;UBERON:0003064!2.39e-07!14;UBERON:0003350!5.26e-07!9;UBERON:0004808!5.26e-07!9;UBERON:0001277!5.26e-07!9
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.217198,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.0835344,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.442204,1.09054,0.108444,0.657163,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.181062,0.558142,0.960397,0.336199,0.204204,0.364821,0.335531,0.326478,0.629145,0.303703,0.27383,0.342638,0.56353,0.671603,0.366415,0.161543,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.208101,0.57254,0.204132,0.763395,2.12785,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.0539203,0.0610418,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,1.40549,0.685716,0.976308,0.775372,0.160254,0.871473,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.0704207,0.53982,0.858327,0.862623,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,1.30967,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.183562,0.0987301,1.10596,0.287383,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.0323861
}}
}}

Revision as of 19:56, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr3:137940606..137940623,+p1@Adh1
Mm9::chr3:137945590..137945610,+p@chr3:137945590..137945610
+
Mm9::chr3:137945687..137945707,-p@chr3:137945687..137945707
-
Mm9::chr3:137949868..137949890,+p@chr3:137949868..137949890
+
Mm9::chr3:137952830..137952847,-p@chr3:137952830..137952847
-
Mm9::chrX:147506897..147506906,+p@chrX:147506897..147506906
+


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
intestinal epithelial cell5.26e-079
epithelial cell of alimentary canal5.26e-079

Uber Anatomy
Ontology termp-valuen
subdivision of trunk2.93e-1466
abdomen element4.22e-1149
abdominal segment element4.22e-1149
abdominal segment of trunk4.22e-1149
abdomen4.22e-1149
trunk mesenchyme7.56e-1145
trunk region element1.98e-1079
liver6.57e-1022
epithelial sac6.57e-1022
digestive gland6.57e-1022
epithelium of foregut-midgut junction6.57e-1022
anatomical boundary6.57e-1022
hepatobiliary system6.57e-1022
foregut-midgut junction6.57e-1022
hepatic diverticulum6.57e-1022
liver primordium6.57e-1022
septum transversum6.57e-1022
liver bud6.57e-1022
digestive system8.64e-10116
digestive tract8.64e-10116
primitive gut8.64e-10116
endo-epithelium1.09e-0969
endoderm-derived structure2.44e-09118
endoderm2.44e-09118
presumptive endoderm2.44e-09118
digestive tract diverticulum3.25e-0923
sac3.25e-0923
mesenchyme7.21e-0961
entire embryonic mesenchyme7.21e-0961
subdivision of digestive tract1.11e-08114
trunk4.83e-0890
exocrine gland5.24e-0825
exocrine system5.24e-0825
mucosa5.80e-0815
adrenal gland1.10e-077
adrenal/interrenal gland1.10e-077
intestine1.72e-0731
intermediate mesoderm2.39e-0714
epithelium of mucosa5.26e-079
gastrointestinal system epithelium5.26e-079
intestinal epithelium5.26e-079


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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