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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!2.48e-41!54;UBERON:0002346!5.46e-38!64;UBERON:0003075!5.46e-38!64;UBERON:0007284!5.46e-38!64;UBERON:0001049!1.71e-37!52;UBERON:0005068!1.71e-37!52;UBERON:0006241!1.71e-37!52;UBERON:0007135!1.71e-37!52;UBERON:0001017!1.38e-35!73;UBERON:0001016!2.35e-34!75;UBERON:0000955!1.18e-32!47;UBERON:0006238!1.18e-32!47;UBERON:0004121!2.53e-32!95;UBERON:0000924!2.53e-32!95;UBERON:0006601!2.53e-32!95;UBERON:0010371!4.89e-32!73;UBERON:0002616!3.79e-31!46;UBERON:0003056!3.74e-27!49;UBERON:0003080!1.90e-24!40;UBERON:0010314!2.68e-23!92;UBERON:0002020!4.44e-23!34;UBERON:0002780!6.50e-23!39;UBERON:0001890!6.50e-23!39;UBERON:0006240!6.50e-23!39;UBERON:0003528!1.30e-18!29;UBERON:0002791!1.30e-18!29;UBERON:0001893!1.30e-18!29;UBERON:0002021!1.14e-17!10;UBERON:0000411!1.14e-17!10;UBERON:0001950!1.14e-17!10;UBERON:0003076!1.79e-13!12;UBERON:0003057!1.79e-13!12;UBERON:0002619!2.81e-13!17;UBERON:0000025!4.70e-13!114;UBERON:0000956!3.74e-12!21;UBERON:0001869!3.74e-12!21;UBERON:0000203!3.74e-12!21;UBERON:0004111!1.39e-11!122;UBERON:0002950!5.23e-09!4;UBERON:0001891!5.23e-09!4;UBERON:0009616!5.23e-09!4;UBERON:0010286!5.23e-09!4;UBERON:0000483!2.56e-08!174;UBERON:0000119!4.14e-08!176;UBERON:0004733!6.78e-08!6;UBERON:0004732!6.78e-08!6;UBERON:0002028!6.78e-08!6;UBERON:0007277!6.78e-08!6;UBERON:0002420!7.79e-08!8;UBERON:0007245!7.79e-08!8;UBERON:0010009!7.79e-08!8;UBERON:0010011!7.79e-08!8;UBERON:0000454!7.79e-08!8;UBERON:0002038!2.85e-07!3;UBERON:0009663!2.85e-07!3;UBERON:0009661!2.85e-07!3;UBERON:0000125!2.85e-07!3;UBERON:0002308!2.85e-07!3;UBERON:0002240!4.16e-07!6;UBERON:0005174!4.16e-07!6;UBERON:0001137!4.16e-07!6;UBERON:0004684!5.31e-07!3;UBERON:0002275!5.31e-07!3;UBERON:0011216!6.83e-07!194
|ontology_enrichment_uberon=UBERON:0000073!2.48e-41!54;UBERON:0002346!5.46e-38!64;UBERON:0003075!5.46e-38!64;UBERON:0007284!5.46e-38!64;UBERON:0001049!1.71e-37!52;UBERON:0005068!1.71e-37!52;UBERON:0006241!1.71e-37!52;UBERON:0007135!1.71e-37!52;UBERON:0001017!1.38e-35!73;UBERON:0001016!2.35e-34!75;UBERON:0000955!1.18e-32!47;UBERON:0006238!1.18e-32!47;UBERON:0004121!2.53e-32!95;UBERON:0000924!2.53e-32!95;UBERON:0006601!2.53e-32!95;UBERON:0010371!4.89e-32!73;UBERON:0002616!3.79e-31!46;UBERON:0003056!3.74e-27!49;UBERON:0003080!1.90e-24!40;UBERON:0010314!2.68e-23!92;UBERON:0002020!4.44e-23!34;UBERON:0002780!6.50e-23!39;UBERON:0001890!6.50e-23!39;UBERON:0006240!6.50e-23!39;UBERON:0003528!1.30e-18!29;UBERON:0002791!1.30e-18!29;UBERON:0001893!1.30e-18!29;UBERON:0002021!1.14e-17!10;UBERON:0000411!1.14e-17!10;UBERON:0001950!1.14e-17!10;UBERON:0003076!1.79e-13!12;UBERON:0003057!1.79e-13!12;UBERON:0002619!2.81e-13!17;UBERON:0000025!4.70e-13!114;UBERON:0000956!3.74e-12!21;UBERON:0001869!3.74e-12!21;UBERON:0000203!3.74e-12!21;UBERON:0004111!1.39e-11!122;UBERON:0002950!5.23e-09!4;UBERON:0001891!5.23e-09!4;UBERON:0009616!5.23e-09!4;UBERON:0010286!5.23e-09!4;UBERON:0000483!2.56e-08!174;UBERON:0000119!4.14e-08!176;UBERON:0004733!6.78e-08!6;UBERON:0004732!6.78e-08!6;UBERON:0002028!6.78e-08!6;UBERON:0007277!6.78e-08!6;UBERON:0002420!7.79e-08!8;UBERON:0007245!7.79e-08!8;UBERON:0010009!7.79e-08!8;UBERON:0010011!7.79e-08!8;UBERON:0000454!7.79e-08!8;UBERON:0002038!2.85e-07!3;UBERON:0009663!2.85e-07!3;UBERON:0009661!2.85e-07!3;UBERON:0000125!2.85e-07!3;UBERON:0002308!2.85e-07!3;UBERON:0002240!4.16e-07!6;UBERON:0005174!4.16e-07!6;UBERON:0001137!4.16e-07!6;UBERON:0004684!5.31e-07!3;UBERON:0002275!5.31e-07!3;UBERON:0011216!6.83e-07!194
|tfbs_overrepresentation_for_novel_motifs=0.169598,0.0352613,0.144471,0.213815,0.81247,0.229991,0.104889,0.133454,0.276028,0.0230116,0.0841268,0.326048,0.252344,0.358132,0.180802,0,0.227242,0.299264,0.111759,0.453931,0.112337,0.0516782,0.110607,0.0581092,0.151545,0.125518,0.0121311,0.0729318,0.0888237,0.331023,0.067173,0.299728,0.294297,0.271358,0.0695159,0.457669,0.00956339,0.321367,0.229127,0.319479,0.522677,0.0692574,0.602642,0.360578,0.243276,0.444935,0.520226,0.0796586,1.41596,0.706532,0.215434,0.433626,0.458518,0.410902,0.425236,1.21646,1.4848,0.092899,1.52648,0.113689,0.284859,0.145755,0.307647,0.207938,0.120577,0.235321,0.541105,0.859836,0.281425,0.722621,0.0312127,1.21118,0.0282211,0.453125,0.0090779,0.141357,1.11796,0.168288,2.93767,0.278742,0.918789,0.239205,0.144928,0.833917,0.359152,0.00010664,0.350937,1.19217,0.178324,1.01435,0.602595,0.363085,0.309353,0.06252,0.0358537,0.540897,0.406006,0.311476,0.520611,0.00303041,0.00957323,0.299519,0.396708,0.617549,0.215126,0.0690786,0.256395,0.077914,0.119914,0.0271571,1.02853,0.398154,0.829436,0.0864573,0.608883,1.89352,0.0130302,0.21798,0.646506,0.0463294,0.457657,0.194256,0.126502,0.167736,2.67279,0.274996,0.108979,0.304247,1.33408,0.337513,0.383004,0.205841,0.514133,0.121912,0.628232,0.00244215,0.400493,0.0698314,0.584355,1.37293,0.983786,0.545219,0.133089,0.30759,0.210806,0.244366,1.59754,1.33397,0.047831,0.0600404,0.117011,3.0705e-05,0.412186,0.0309817,0.385145,0.480377,0.140946,0.197993,1.98146,0.177787,0.592794,0.942432,0.27532,0.160428,0.208613,0.374998,1.3743,0.665569,0.0383601
}}
}}

Revision as of 18:01, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:72120072..72120087,+p@chr10:72120072..72120087
+
Mm9::chr11:36917853..36917855,-p@chr11:36917853..36917855
-
Mm9::chr11:87793257..87793275,-p@chr11:87793257..87793275
-
Mm9::chr14:54813640..54813649,+p@chr14:54813640..54813649
+
Mm9::chr17:93598847..93598858,+p7@Adcyap1
Mm9::chr19:8800350..8800364,+p1@Snord22
Mm9::chr1:196844789..196844794,+p13@A330023F24Rik
Mm9::chr1:89673511..89673516,+p1@ENSMUST00000157343
Mm9::chr2:144300165..144300175,-p@chr2:144300165..144300175
-
Mm9::chr2:157163160..157163163,-p2@Ghrh
Mm9::chr2:25322325..25322340,-p@chr2:25322325..25322340
-
Mm9::chr2:25322829..25322837,+p@chr2:25322829..25322837
+
Mm9::chr2:25323346..25323355,+p@chr2:25323346..25323355
+
Mm9::chr2:25323358..25323365,-p@chr2:25323358..25323365
-
Mm9::chr2:25323395..25323417,+p@chr2:25323395..25323417
+
Mm9::chr2:25323428..25323447,-p@chr2:25323428..25323447
-
Mm9::chr2:25323618..25323633,+p@chr2:25323618..25323633
+
Mm9::chr2:25323641..25323660,+p@chr2:25323641..25323660
+
Mm9::chr2:25323652..25323665,-p@chr2:25323652..25323665
-
Mm9::chr2:25323666..25323682,-p@chr2:25323666..25323682
-
Mm9::chr2:25324350..25324398,+p@chr2:25324350..25324398
+
Mm9::chr2:25324376..25324388,-p@chr2:25324376..25324388
-
Mm9::chr2:25324401..25324416,-p@chr2:25324401..25324416
-
Mm9::chr2:25324505..25324513,+p@chr2:25324505..25324513
+
Mm9::chr2:25324524..25324534,+p@chr2:25324524..25324534
+
Mm9::chr2:25324613..25324626,-p7@Ptgds
Mm9::chr2:25324631..25324642,-p8@Ptgds
Mm9::chr2:25325262..25325278,-p1@Ptgds
Mm9::chr4:147732971..147732980,-p@chr4:147732971..147732980
-
Mm9::chr5:145532196..145532209,+p@chr5:145532196..145532209
+
Mm9::chr5:27487166..27487179,+p@chr5:27487166..27487179
+
Mm9::chr6:58856244..58856255,-p@chr6:58856244..58856255
-
Mm9::chr6:58856538..58856573,+p@chr6:58856538..58856573
+
Mm9::chr7:118219731..118219745,-p1@ENSMUST00000158323
Mm9::chr8:108091532..108091548,-p@chr8:108091532..108091548
-
Mm9::chrX:54756910..54756918,-p1@Gpr101


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:0005179hormone activity0.000777753843365325
GO:0005184neuropeptide hormone activity0.00112128625682927
GO:0007189G-protein signaling, adenylate cyclase activating pathway0.00259495703963575
GO:0007188G-protein signaling, coupled to cAMP nucleotide second messenger0.00363546449479802
GO:0007187G-protein signaling, coupled to cyclic nucleotide second messenger0.00363546449479802
GO:0019933cAMP-mediated signaling0.00363546449479802
GO:0019935cyclic-nucleotide-mediated signaling0.00363546449479802
GO:0007218neuropeptide signaling pathway0.00533245676509797
GO:0031770growth hormone-releasing hormone receptor binding0.00533245676509797
GO:0005102receptor binding0.00646076510102083
GO:0022410circadian sleep/wake cycle process0.00646076510102083
GO:0045187regulation of circadian sleep/wake cycle, sleep0.00646076510102083
GO:0042749regulation of circadian sleep/wake cycle0.00646076510102083
GO:0050802circadian sleep/wake cycle, sleep0.00646076510102083
GO:0019932second-messenger-mediated signaling0.00646076510102083
GO:0042752regulation of circadian rhythm0.00799649412726543
GO:0060124positive regulation of growth hormone secretion0.00799649412726543
GO:0042745circadian sleep/wake cycle0.00799649412726543
GO:0007186G-protein coupled receptor protein signaling pathway0.00946449151263321
GO:0060123regulation of growth hormone secretion0.00959447862860534
GO:0048512circadian behavior0.0104273527136281
GO:0046887positive regulation of hormone secretion0.0104273527136281
GO:0030431sleep0.0104273527136281
GO:0043195terminal button0.0110675198728754
GO:0030252growth hormone secretion0.0110675198728754
GO:0021984adenohypophysis development0.0110675198728754
GO:0007622rhythmic behavior0.0124321773442802
GO:0046457prostanoid biosynthetic process0.0127856310031625
GO:0009755hormone-mediated signaling0.0127856310031625
GO:0001516prostaglandin biosynthetic process0.0127856310031625
GO:0007242intracellular signaling cascade0.0130483789778046
GO:0033267axon part0.0134829982803515
GO:0051047positive regulation of secretion0.0145251465394777
GO:0007166cell surface receptor linked signal transduction0.0155718198200468
GO:0007190adenylate cyclase activation0.0155718198200468
GO:0045762positive regulation of adenylate cyclase activity0.0155718198200468
GO:0031281positive regulation of cyclase activity0.0155718198200468
GO:0006693prostaglandin metabolic process0.0155718198200468
GO:0051349positive regulation of lyase activity0.0155718198200468
GO:0006692prostanoid metabolic process0.0155718198200468
GO:0045761regulation of adenylate cyclase activity0.0182451842133976
GO:0009725response to hormone stimulus0.0182451842133976
GO:0031279regulation of cyclase activity0.0191521964900769
GO:0021983pituitary gland development0.0191521964900769
GO:0051339regulation of lyase activity0.0191521964900769
GO:0046883regulation of hormone secretion0.020369096904043
GO:0021536diencephalon development0.020369096904043
GO:0040018positive regulation of multicellular organism growth0.0219332061928605
GO:0046456icosanoid biosynthetic process0.0234324059863803
GO:0045927positive regulation of growth0.024870591313716
GO:0030072peptide hormone secretion0.0261593210842317
GO:0002790peptide secretion0.0261593210842317
GO:0007623circadian rhythm0.0261593210842317
GO:0006690icosanoid metabolic process0.0265565931679067
GO:0015833peptide transport0.0329905833999019
GO:0046879hormone secretion0.0349451179678578
GO:0007165signal transduction0.0378623178446707
GO:0035270endocrine system development0.0394627785810368
GO:0051046regulation of secretion0.0413036714176191
GO:0040014regulation of multicellular organism growth0.0413036714176191
GO:0001664G-protein-coupled receptor binding0.0429527559484707
GO:0007154cell communication0.0434650748053211
GO:0005615extracellular space0.0452583109456235
GO:0035264multicellular organism growth0.0453681727674484
GO:0030424axon0.0453962838751811
GO:0044463cell projection part0.0489666142369662
GO:0006633fatty acid biosynthetic process0.0489666142369662
GO:0044421extracellular region part0.0491541024175729
GO:0046394carboxylic acid biosynthetic process0.0495224249914147
GO:0016053organic acid biosynthetic process0.0495224249914147
GO:0048732gland development0.0495224249914147



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
CNS neuron (sensu Vertebrata)3.13e-0923
neuroblast (sensu Vertebrata)3.13e-0923
neuron of the substantia nigra2.85e-073
raphe nuclei neuron5.31e-073

Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.48e-4154
neurectoderm5.46e-3864
neural plate5.46e-3864
presumptive neural plate5.46e-3864
neural tube1.71e-3752
neural rod1.71e-3752
future spinal cord1.71e-3752
neural keel1.71e-3752
central nervous system1.38e-3573
nervous system2.35e-3475
brain1.18e-3247
future brain1.18e-3247
ectoderm-derived structure2.53e-3295
ectoderm2.53e-3295
presumptive ectoderm2.53e-3295
ecto-epithelium4.89e-3273
regional part of brain3.79e-3146
pre-chordal neural plate3.74e-2749
anterior neural tube1.90e-2440
structure with developmental contribution from neural crest2.68e-2392
gray matter4.44e-2334
regional part of forebrain6.50e-2339
forebrain6.50e-2339
future forebrain6.50e-2339
brain grey matter1.30e-1829
regional part of telencephalon1.30e-1829
telencephalon1.30e-1829
occipital lobe1.14e-1710
visual cortex1.14e-1710
neocortex1.14e-1710
posterior neural tube1.79e-1312
chordal neural plate1.79e-1312
regional part of cerebral cortex2.81e-1317
tube4.70e-13114
cerebral cortex3.74e-1221
cerebral hemisphere3.74e-1221
pallium3.74e-1221
anatomical conduit1.39e-11122
regional part of midbrain5.23e-094
midbrain5.23e-094
presumptive midbrain5.23e-094
midbrain neural tube5.23e-094
epithelium2.56e-08174
cell layer4.14e-08176
segmental subdivision of hindbrain6.78e-086
segmental subdivision of nervous system6.78e-086
hindbrain6.78e-086
presumptive hindbrain6.78e-086
basal ganglion7.79e-088
nuclear complex of neuraxis7.79e-088
aggregate regional part of brain7.79e-088
collection of basal ganglia7.79e-088
cerebral subcortex7.79e-088
substantia nigra2.85e-073
telencephalic nucleus2.85e-073
midbrain nucleus2.85e-073
neural nucleus2.85e-073
nucleus of brain2.85e-073
spinal cord4.16e-076
dorsal region element4.16e-076
dorsum4.16e-076
raphe nuclei5.31e-073
reticular formation5.31e-073
organ system subdivision6.83e-07194


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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