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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002204!1.95e-10!32;UBERON:0001474!4.74e-07!22;UBERON:0004765!4.74e-07!22;UBERON:0001434!4.74e-07!22;UBERON:0002371!6.03e-07!16
|ontology_enrichment_uberon=UBERON:0002204!1.95e-10!32;UBERON:0001474!4.74e-07!22;UBERON:0004765!4.74e-07!22;UBERON:0001434!4.74e-07!22;UBERON:0002371!6.03e-07!16
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.660133,0.411716,0.480627,0.299217,0.495263,0.587291,0.206208,0.215218,0.0609112,0.542749,0.575086,0.59526,0.599731,0.315771,0,0.795315,0.291368,0.561256,0.112498,0.374752,0.08187,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.344372,0.145661,0.50223,0.897561,0.78719,0.166577,0.316253,0.0235321,1.40094,0.57142,0.258564,0.230656,0.295233,0.507468,0.0742755,0.851774,0.115244,0.469348,0.714592,0.532496,0.0609361,0.917701,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,0.522357,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.608073,0.293368,1.09164,0.17012,0.936963,0.963958,0.703064,0.859987,0.378988,0.212973,0.812889,0.663039,0.200155,0.975495,0.0369809,0.042613,0.877485,0.719558,1.70793,1.26498,0.980512,0.910485,0.823238,0.708155,0.237542,0.203879,0.913319,0.71485,0.127063,0.280055,0.897279,1.02279,0.778243,1.82972,0.507021,0.837607,0.528416,0.998363,0.376549,0.430942,1.02459,0.990132,0.547992,1.27206,0.796976,0.187586,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,2.67845,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,1.13988,0.300961,0.147909,0.256263,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.763807,0.573477,0.0907999
}}
}}

Revision as of 19:24, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:77634618..77634633,+p2@Plekhg3
Mm9::chr2:102651988..102652001,-p@chr2:102651988..102652001
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Mm9::chr2:102653728..102653742,-p@chr2:102653728..102653742
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Mm9::chr2:102654028..102654039,-p@chr2:102654028..102654039
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Mm9::chr2:102654078..102654085,-p@chr2:102654078..102654085
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Mm9::chr2:102701761..102701783,-p@chr2:102701761..102701783
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Mm9::chr2:102741606..102741622,-p1@Cd44


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:0002246healing during inflammatory response0.00690297485344875
GO:0005540hyaluronic acid binding0.0344354514796465
GO:0001658ureteric bud branching0.0344354514796465
GO:0001657ureteric bud development0.0344354514796465
GO:0001656metanephros development0.0344354514796465
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0344354514796465
GO:0035023regulation of Rho protein signal transduction0.0344354514796465
GO:0048754branching morphogenesis of a tube0.0344354514796465
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0344354514796465
GO:0001763morphogenesis of a branching structure0.0344354514796465
GO:0001822kidney development0.0344354514796465
GO:0005539glycosaminoglycan binding0.0344354514796465
GO:0001655urogenital system development0.0344354514796465
GO:0042060wound healing0.0344354514796465
GO:0007266Rho protein signal transduction0.0344354514796465
GO:0030247polysaccharide binding0.0344354514796465
GO:0001871pattern binding0.0344354514796465
GO:0046578regulation of Ras protein signal transduction0.0382458542655602
GO:0005085guanyl-nucleotide exchange factor activity0.0429970388807503
GO:0051056regulation of small GTPase mediated signal transduction0.0429970388807503
GO:0009897external side of plasma membrane0.043252751891532
GO:0035239tube morphogenesis0.043252751891532
GO:0007265Ras protein signal transduction0.043252751891532
GO:0005083small GTPase regulator activity0.043252751891532



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
musculoskeletal system1.95e-1032
bone element4.74e-0722
skeletal element4.74e-0722
skeletal system4.74e-0722
bone marrow6.03e-0716


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}}}