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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003133!4.48e-15!24;UBERON:0005156!5.38e-15!26;UBERON:0000990!5.38e-15!26;UBERON:0002323!4.33e-14!37;UBERON:0004458!4.33e-14!37;UBERON:0003886!1.98e-13!38;UBERON:0000991!3.75e-13!18;UBERON:0005564!3.75e-13!18;UBERON:0002553!8.30e-13!39;UBERON:0004176!3.64e-12!17;UBERON:0009196!3.64e-12!17;UBERON:0009117!3.64e-12!17;UBERON:0000473!1.89e-09!14;UBERON:0000464!2.13e-09!57;UBERON:0003135!1.65e-08!15;UBERON:0004872!5.71e-08!33;UBERON:0007100!6.06e-08!18;UBERON:0000948!6.06e-08!18;UBERON:0005498!6.06e-08!18;UBERON:0004140!6.06e-08!18;UBERON:0009881!6.06e-08!18;UBERON:0004141!6.06e-08!18;UBERON:0003084!6.06e-08!18;UBERON:0007005!6.06e-08!18;UBERON:0004139!6.06e-08!18;UBERON:0004291!6.06e-08!18;UBERON:0000474!6.21e-08!9;UBERON:0003101!1.08e-07!16;UBERON:0000079!1.08e-07!16;UBERON:0003103!2.20e-07!43;UBERON:0003134!4.71e-07!8
|ontology_enrichment_uberon=UBERON:0003133!4.48e-15!24;UBERON:0005156!5.38e-15!26;UBERON:0000990!5.38e-15!26;UBERON:0002323!4.33e-14!37;UBERON:0004458!4.33e-14!37;UBERON:0003886!1.98e-13!38;UBERON:0000991!3.75e-13!18;UBERON:0005564!3.75e-13!18;UBERON:0002553!8.30e-13!39;UBERON:0004176!3.64e-12!17;UBERON:0009196!3.64e-12!17;UBERON:0009117!3.64e-12!17;UBERON:0000473!1.89e-09!14;UBERON:0000464!2.13e-09!57;UBERON:0003135!1.65e-08!15;UBERON:0004872!5.71e-08!33;UBERON:0007100!6.06e-08!18;UBERON:0000948!6.06e-08!18;UBERON:0005498!6.06e-08!18;UBERON:0004140!6.06e-08!18;UBERON:0009881!6.06e-08!18;UBERON:0004141!6.06e-08!18;UBERON:0003084!6.06e-08!18;UBERON:0007005!6.06e-08!18;UBERON:0004139!6.06e-08!18;UBERON:0004291!6.06e-08!18;UBERON:0000474!6.21e-08!9;UBERON:0003101!1.08e-07!16;UBERON:0000079!1.08e-07!16;UBERON:0003103!2.20e-07!43;UBERON:0003134!4.71e-07!8
|tfbs_overrepresentation_for_novel_motifs=1.55081,0.352573,0.297937,0.360062,0.200163,0.373426,0.458558,0.124431,0.816027,4.27651,0.417132,0.447169,2.5119,1.18563,0.214197,0,0.656089,0.19356,0.736624,0.786777,0.26524,0.0365724,1.18379,0.198877,0.304728,0.496413,0.107695,0.392919,1.24776,0.0790295,0.379806,0.754912,1.06562,0.0942651,1.80612,7.64393,0.184038,0.443753,0.166348,2.01695,0.196807,0.38461,0.0320468,0.215898,0.249283,0.349801,0.578773,0.407653,0.0244624,0.241306,0.639101,0.522137,0.0747297,0.894161,0.911367,1.20022,0.249055,0.435119,0.101408,0.47505,0.735292,1.31585,0.140453,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,2.15451,0.128829,0.03967,0.944464,2.20686,13.4877,1.07748,1.39333,0.718494,0.268962,0.129727,0.673009,0.529804,0.119727,0.830765,0.0122854,0.893815,3.97313,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.490417,0.149272,0.777003,0.770215,0.57902,7.64073,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,2.09779,1.08155,1.12221,0.5687,4.55445,9.24473,0.657356,0.181004,0.949798,0.607824,0.498153,2.38052,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,1.22806,1.14365,0.0358067,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.0806411,0.129005,0.895708,0.153911,0.489108,0.976367,0.523103,0.637798,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,3.08151,0.445669,2.25318
}}
}}

Revision as of 18:50, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr2:104966636..104966641,+p12@Wt1
Mm9::chr2:104966659..104966672,-p1@AI314831
Mm9::chr2:104966683..104966700,-p3@AI314831
Mm9::chr2:104966713..104966727,-p2@AI314831
Mm9::chr2:104966874..104966907,+p2@Wt1
Mm9::chr2:104966909..104966920,+p8@Wt1
Mm9::chr2:104966933..104966966,+p3@Wt1
Mm9::chr2:104966983..104966990,+p11@Wt1
Mm9::chr7:103661125..103661139,+p@chr7:103661125..103661139
+
Mm9::chr8:40383519..40383531,+p2@Gm6213


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:0001823mesonephros development0.0102996767654632
GO:0008584male gonad development0.0213350447284595
GO:0046546development of primary male sexual characteristics0.0213350447284595
GO:0007530sex determination0.0213350447284595
GO:0007281germ cell development0.0213350447284595
GO:0046661male sex differentiation0.0213350447284595
GO:0001570vasculogenesis0.0213350447284595
GO:0030855epithelial cell differentiation0.0231742727222922
GO:0001656metanephros development0.0248128576622523
GO:0008406gonad development0.0248128576622523
GO:0048608reproductive structure development0.0248128576622523
GO:0045137development of primary sexual characteristics0.0248908855165361
GO:0007548sex differentiation0.0254273270147373
GO:0001822kidney development0.0254273270147373
GO:0043010camera-type eye development0.0254273270147373
GO:0001655urogenital system development0.0254273270147373
GO:0003006reproductive developmental process0.0260521235832305
GO:0001654eye development0.0297546217668937
GO:0045786negative regulation of progression through cell cycle0.0314411185472035
GO:0002009morphogenesis of an epithelium0.0316715060537994
GO:0048514blood vessel morphogenesis0.039291359512693
GO:0000074regulation of progression through cell cycle0.039291359512693
GO:0007423sensory organ development0.039291359512693
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.039291359512693
GO:0001568blood vessel development0.039291359512693
GO:0022414reproductive process0.039291359512693
GO:0001944vasculature development0.039291359512693
GO:0045893positive regulation of transcription, DNA-dependent0.0434057806544521
GO:0007276gamete generation0.0443951584718242
GO:0009888tissue development0.0455682669017463
GO:0045941positive regulation of transcription0.0455682669017463
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0455682669017463
GO:0019953sexual reproduction0.0455682669017463



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
reproductive organ4.48e-1524
reproductive structure5.38e-1526
reproductive system5.38e-1526
body cavity4.33e-1437
body cavity or lining4.33e-1437
body cavity precursor1.98e-1338
gonad3.75e-1318
gonad primordium3.75e-1318
anatomical cavity8.30e-1339
external genitalia3.64e-1217
indifferent external genitalia3.64e-1217
indifferent gonad3.64e-1217
testis1.89e-0914
anatomical space2.13e-0957
male reproductive organ1.65e-0815
splanchnic layer of lateral plate mesoderm5.71e-0833
primary circulatory organ6.06e-0818
heart6.06e-0818
primitive heart tube6.06e-0818
primary heart field6.06e-0818
anterior lateral plate mesoderm6.06e-0818
heart tube6.06e-0818
heart primordium6.06e-0818
cardiac mesoderm6.06e-0818
cardiogenic plate6.06e-0818
heart rudiment6.06e-0818
female reproductive system6.21e-089
male organism1.08e-0716
male reproductive system1.08e-0716
compound organ2.20e-0743
female reproductive organ4.71e-078


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}}}