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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!1.89e-17!95;UBERON:0000924!1.89e-17!95;UBERON:0006601!1.89e-17!95;UBERON:0010371!1.33e-16!73;UBERON:0000073!7.00e-16!54;UBERON:0002346!1.09e-14!64;UBERON:0003075!1.09e-14!64;UBERON:0007284!1.09e-14!64;UBERON:0001049!1.31e-14!52;UBERON:0005068!1.31e-14!52;UBERON:0006241!1.31e-14!52;UBERON:0007135!1.31e-14!52;UBERON:0001017!3.94e-14!73;UBERON:0001016!6.86e-14!75;UBERON:0000955!2.94e-12!47;UBERON:0006238!2.94e-12!47;UBERON:0010314!4.96e-12!92;UBERON:0002616!8.56e-12!46;UBERON:0003056!2.68e-10!49;UBERON:0002020!2.39e-09!34;UBERON:0003080!3.59e-09!40;UBERON:0002780!1.36e-08!39;UBERON:0001890!1.36e-08!39;UBERON:0006240!1.36e-08!39;UBERON:0003528!2.29e-07!29;UBERON:0002791!2.29e-07!29;UBERON:0001893!2.29e-07!29;UBERON:0002021!3.48e-07!10;UBERON:0000411!3.48e-07!10;UBERON:0001950!3.48e-07!10;UBERON:0003076!7.08e-07!12;UBERON:0003057!7.08e-07!12
|ontology_enrichment_uberon=UBERON:0004121!1.89e-17!95;UBERON:0000924!1.89e-17!95;UBERON:0006601!1.89e-17!95;UBERON:0010371!1.33e-16!73;UBERON:0000073!7.00e-16!54;UBERON:0002346!1.09e-14!64;UBERON:0003075!1.09e-14!64;UBERON:0007284!1.09e-14!64;UBERON:0001049!1.31e-14!52;UBERON:0005068!1.31e-14!52;UBERON:0006241!1.31e-14!52;UBERON:0007135!1.31e-14!52;UBERON:0001017!3.94e-14!73;UBERON:0001016!6.86e-14!75;UBERON:0000955!2.94e-12!47;UBERON:0006238!2.94e-12!47;UBERON:0010314!4.96e-12!92;UBERON:0002616!8.56e-12!46;UBERON:0003056!2.68e-10!49;UBERON:0002020!2.39e-09!34;UBERON:0003080!3.59e-09!40;UBERON:0002780!1.36e-08!39;UBERON:0001890!1.36e-08!39;UBERON:0006240!1.36e-08!39;UBERON:0003528!2.29e-07!29;UBERON:0002791!2.29e-07!29;UBERON:0001893!2.29e-07!29;UBERON:0002021!3.48e-07!10;UBERON:0000411!3.48e-07!10;UBERON:0001950!3.48e-07!10;UBERON:0003076!7.08e-07!12;UBERON:0003057!7.08e-07!12
|tfbs_overrepresentation_for_novel_motifs=0.393008,1.2286,0.96259,0.434198,0.260188,0.448401,0.538088,0.515265,0.181564,2.55967,0.494602,0.526159,0.515774,0.550255,0.275867,0,0.742571,0.252772,0.160384,0.0887261,0.332107,0.223663,0.549359,0.258745,0.374936,2.41525,0.153291,0.469052,0.303071,0.376624,0.455168,0.843667,0.699026,0.839887,0.276324,4.29115,0.242032,0.522578,0.631914,2.41256,0.256422,0.460258,0.0558565,0.27776,0.983404,1.08432,0.662995,0.484612,0.0447507,0.305876,0.725127,0.604356,0.732634,0.985264,1.00271,0.557354,0.844204,0.513517,0.145699,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.922232,0.527912,0.872563,1.03623,0.433216,0.409836,1.35784,0.651651,0.806481,1.60272,0.530481,0.759925,0.612313,0.167672,0.920903,1.15003,0.293679,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.218233,0.202284,0.1711,0.859272,0.663249,1.12826,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.887702,0.386136,0.96962,0.895335,0.499714,1.21576,0.708441,2.90512,1.11602,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,1.35892,0.950857,0.427043,1.10792,0.570914,1.23736,0.220515,0.401212,1.16726,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,1.16523,0.666107,1.9792,0.403515,0.261837,1.25168,0.780212,0.986833,2.49691,0.569994,1.06851,0.605358,0.287226,0.39061,1.03572,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,0.166768
}}
}}

Revision as of 19:13, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr1:74589455..74589492,+p1@Plcd4
Mm9::chr3:107261813..107261838,-p2@Kcnc4
Mm9::chr3:107261840..107261893,-p1@Kcnc4
Mm9::chr3:107262609..107262634,-p@chr3:107262609..107262634
-
Mm9::chr4:108829312..108829367,-p2@Osbpl9
Mm9::chr6:113481495..113481506,-p2@Tmem111
Mm9::chr7:31911778..31911791,-p3@Scn1b
Mm9::chr7:31912183..31912196,-p5@Scn1b


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:0022832voltage-gated channel activity0.0212610862975629
GO:0005244voltage-gated ion channel activity0.0212610862975629
GO:0031420alkali metal ion binding0.0212610862975629
GO:0006810transport0.0212610862975629
GO:0051234establishment of localization0.0212610862975629
GO:0005261cation channel activity0.0212610862975629
GO:0051179localization0.0212610862975629
GO:0022836gated channel activity0.0212610862975629
GO:0046873metal ion transmembrane transporter activity0.0212610862975629
GO:0015672monovalent inorganic cation transport0.0212610862975629
GO:0007340acrosome reaction0.0212610862975629
GO:0004435phosphoinositide phospholipase C activity0.0212610862975629
GO:0004434inositol or phosphatidylinositol phosphodiesterase activity0.0212610862975629
GO:0005216ion channel activity0.0230202269040457
GO:0022838substrate specific channel activity0.0230202269040457
GO:0022803passive transmembrane transporter activity0.0230202269040457
GO:0015267channel activity0.0230202269040457
GO:0004629phospholipase C activity0.0230202269040457
GO:0030001metal ion transport0.0230774535726656
GO:0017156calcium ion-dependent exocytosis0.0275451680756006
GO:0008324cation transmembrane transporter activity0.0275451680756006
GO:0006812cation transport0.0275451680756006
GO:0005272sodium channel activity0.0311898189645894
GO:0015075ion transmembrane transporter activity0.0451749126702556
GO:0007338single fertilization0.0451749126702556
GO:0030384phosphoinositide metabolic process0.0458893449675082
GO:0004620phospholipase activity0.0458893449675082
GO:0006811ion transport0.0465019137658845
GO:0009566fertilization0.0465019137658845
GO:0022891substrate-specific transmembrane transporter activity0.0475471638115029
GO:0008076voltage-gated potassium channel complex0.0479144883263067
GO:0006650glycerophospholipid metabolic process0.0498336203933884



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
ectoderm-derived structure1.89e-1795
ectoderm1.89e-1795
presumptive ectoderm1.89e-1795
ecto-epithelium1.33e-1673
regional part of nervous system7.00e-1654
neurectoderm1.09e-1464
neural plate1.09e-1464
presumptive neural plate1.09e-1464
neural tube1.31e-1452
neural rod1.31e-1452
future spinal cord1.31e-1452
neural keel1.31e-1452
central nervous system3.94e-1473
nervous system6.86e-1475
brain2.94e-1247
future brain2.94e-1247
structure with developmental contribution from neural crest4.96e-1292
regional part of brain8.56e-1246
pre-chordal neural plate2.68e-1049
gray matter2.39e-0934
anterior neural tube3.59e-0940
regional part of forebrain1.36e-0839
forebrain1.36e-0839
future forebrain1.36e-0839
brain grey matter2.29e-0729
regional part of telencephalon2.29e-0729
telencephalon2.29e-0729
occipital lobe3.48e-0710
visual cortex3.48e-0710
neocortex3.48e-0710
posterior neural tube7.08e-0712
chordal neural plate7.08e-0712


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}}}