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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005177!2.77e-16!79;UBERON:0002113!7.48e-15!14;UBERON:0003918!7.48e-15!14;UBERON:0011143!7.48e-15!14;UBERON:0005095!7.48e-15!14;UBERON:0007687!7.48e-15!14;UBERON:0001264!3.31e-14!12;UBERON:0002100!1.11e-12!90;UBERON:0006554!4.21e-12!18;UBERON:0001008!3.24e-11!19;UBERON:0000489!1.04e-09!21;UBERON:0000466!7.16e-09!79;UBERON:0002075!8.02e-09!19;UBERON:0005172!2.23e-08!49;UBERON:0005173!2.23e-08!49;UBERON:0002417!2.23e-08!49;UBERON:0000916!2.23e-08!49;UBERON:0003886!1.12e-07!38;UBERON:0002553!2.48e-07!39;UBERON:0009569!2.83e-07!66;UBERON:0002323!5.45e-07!37;UBERON:0004458!5.45e-07!37
|ontology_enrichment_uberon=UBERON:0005177!2.77e-16!79;UBERON:0002113!7.48e-15!14;UBERON:0003918!7.48e-15!14;UBERON:0011143!7.48e-15!14;UBERON:0005095!7.48e-15!14;UBERON:0007687!7.48e-15!14;UBERON:0001264!3.31e-14!12;UBERON:0002100!1.11e-12!90;UBERON:0006554!4.21e-12!18;UBERON:0001008!3.24e-11!19;UBERON:0000489!1.04e-09!21;UBERON:0000466!7.16e-09!79;UBERON:0002075!8.02e-09!19;UBERON:0005172!2.23e-08!49;UBERON:0005173!2.23e-08!49;UBERON:0002417!2.23e-08!49;UBERON:0000916!2.23e-08!49;UBERON:0003886!1.12e-07!38;UBERON:0002553!2.48e-07!39;UBERON:0009569!2.83e-07!66;UBERON:0002323!5.45e-07!37;UBERON:0004458!5.45e-07!37
|tfbs_overrepresentation_for_novel_motifs=0.206403,0.124391,0.186933,0.671595,0.356286,0.698129,0.324772,0.210111,0.485477,0.00559806,0.288187,0.314655,0.0577792,0.335151,0.120865,0,0.505674,0.105493,0.74158,0.409021,0.483972,0.74311,0.334384,0.109412,0.192505,0.35869,0.709203,0.736859,0.139679,0.297581,0.255771,0.598971,0.104128,0.15332,0.121176,0.0584849,0.667121,0.311629,0.606559,0.0703677,0.349739,0.259911,0.252106,0.387037,0.147772,0.230148,0.433813,0.279902,0.0916876,0.141659,0.48979,0.381972,0.521833,0.732469,0.749094,0.341233,0.452104,0.303999,0.166653,0.339495,0.580338,0.390204,0.240695,0.479581,0.350748,0.516415,0.880067,1.22155,0.576002,1.07689,0.173229,0.218482,0.0113485,0.781142,0.040685,0.036326,0.352807,0.423705,0.564426,0.951512,0.82829,0.521544,0.388944,0.201178,0.671442,0.00202775,0.016756,0.125355,1.11664,1.38183,0.947651,0.676142,0.610915,0.365956,15.3686,0.0741053,1.20412,0.613539,0.43404,0.101478,0.0985954,0.59871,0.715894,0.490329,0.489372,0.259558,0.543989,0.276621,0.965679,0.161774,0.582521,0.717588,0.493275,0.292444,0.954503,0.346836,0.156262,1.25934,0.506861,0.31898,1.84857,1.16518,0.360259,0.422901,1.00724,0.567849,0.882878,0.60459,0.8786,0.115924,0.699779,0.233152,0.850049,0.9301,0.975524,2.71052,0.212784,0.722951,0.927716,1.74768,1.35029,2.05052,0.370659,0.608735,0.483498,0.260275,0.436593,1.7082,0.214583,0.111457,0.303478,0.00817433,0.733963,0.077277,0.928341,0.81211,0.382849,0.803531,3.27327,0.212571,0.93695,0.670634,0.568261,0.199399,1.20775,0.914274,0.323091,2.31591,0.00458245
}}
}}

Revision as of 18:25, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:24562097..24562114,+p@chr10:24562097..24562114
+
Mm9::chr11:83664365..83664383,+p1@Hnf1b
Mm9::chr11:83666422..83666446,+p4@Hnf1b
Mm9::chr12:25367561..25367565,+p@chr12:25367561..25367565
+
Mm9::chr13:73484734..73484745,-p3@D630045M09Rik
Mm9::chr13:98786218..98786238,-p7@Rgnef
Mm9::chr1:20157166..20157171,-p@chr1:20157166..20157171
-
Mm9::chr1:20501784..20501787,-p@chr1:20501784..20501787
-
Mm9::chr1:20576990..20576994,-p@chr1:20576990..20576994
-
Mm9::chr1:20608054..20608071,-p2@Pkhd1
Mm9::chr1:20608073..20608170,-p1@Pkhd1
Mm9::chr1:20608173..20608178,-p3@Pkhd1
Mm9::chr4:155458412..155458438,-p@chr4:155458412..155458438
-
Mm9::chr5:103197888..103197908,+p2@Arhgap24
Mm9::chr6:38933302..38933316,+p3@Tbxas1


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:0004796thromboxane-A synthase activity0.0259232866376788
GO:0048731system development0.0259232866376788
GO:0048856anatomical structure development0.0259232866376788
GO:0001826inner cell mass cell differentiation0.0259232866376788
GO:0007275multicellular organismal development0.0259232866376788
GO:0048646anatomical structure formation0.0259232866376788
GO:0009746response to hexose stimulus0.0259232866376788
GO:0009743response to carbohydrate stimulus0.0259232866376788
GO:0009749response to glucose stimulus0.0259232866376788
GO:0001825blastocyst formation0.0291605017960454
GO:0007417central nervous system development0.0294311949806488
GO:0009653anatomical structure morphogenesis0.0294311949806488
GO:0046457prostanoid biosynthetic process0.0294311949806488
GO:0001516prostaglandin biosynthetic process0.0294311949806488
GO:0032502developmental process0.0294311949806488
GO:0021955central nervous system neuron axonogenesis0.0294311949806488
GO:0060052neurofilament cytoskeleton organization and biogenesis0.0294311949806488
GO:0030695GTPase regulator activity0.0294311949806488
GO:0048513organ development0.0360718416571888
GO:0006693prostaglandin metabolic process0.0360718416571888
GO:0006692prostanoid metabolic process0.0360718416571888
GO:0045104intermediate filament cytoskeleton organization and biogenesis0.04305018068093
GO:0007492endoderm development0.04305018068093
GO:0051271negative regulation of cell motility0.043678484892207
GO:0040013negative regulation of locomotion0.0442560147190313
GO:0045103intermediate filament-based process0.0447062043621739
GO:0021954central nervous system neuron development0.0447062043621739
GO:0030073insulin secretion0.0447062043621739
GO:0046456icosanoid biosynthetic process0.0447062043621739
GO:0021953central nervous system neuron differentiation0.0447062043621739
GO:0048869cellular developmental process0.0447062043621739
GO:0030154cell differentiation0.0447062043621739
GO:0030072peptide hormone secretion0.0474422975110747
GO:0002790peptide secretion0.0474422975110747
GO:0010033response to organic substance0.0474422975110747
GO:0006690icosanoid metabolic process0.0474422975110747
GO:0050673epithelial cell proliferation0.0474422975110747
GO:0001824blastocyst development0.0474422975110747
GO:0032501multicellular organismal process0.0497068242388782



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
trunk region element2.77e-1679
kidney7.48e-1514
kidney mesenchyme7.48e-1514
upper urinary tract7.48e-1514
kidney rudiment7.48e-1514
kidney field7.48e-1514
pancreas3.31e-1412
trunk1.11e-1290
urinary system structure4.21e-1218
renal system3.24e-1119
cavitated compound organ1.04e-0921
immaterial anatomical entity7.16e-0979
viscus8.02e-0919
abdomen element2.23e-0849
abdominal segment element2.23e-0849
abdominal segment of trunk2.23e-0849
abdomen2.23e-0849
body cavity precursor1.12e-0738
anatomical cavity2.48e-0739
subdivision of trunk2.83e-0766
body cavity5.45e-0737
body cavity or lining5.45e-0737


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}}}