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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!5.16e-39!73;UBERON:0001016!2.84e-37!75;UBERON:0002346!5.46e-36!64;UBERON:0003075!5.46e-36!64;UBERON:0007284!5.46e-36!64;UBERON:0000073!3.43e-35!54;UBERON:0001049!4.48e-33!52;UBERON:0005068!4.48e-33!52;UBERON:0006241!4.48e-33!52;UBERON:0007135!4.48e-33!52;UBERON:0004121!8.47e-32!95;UBERON:0000924!8.47e-32!95;UBERON:0006601!8.47e-32!95;UBERON:0010371!1.22e-28!73;UBERON:0000955!6.44e-28!47;UBERON:0006238!6.44e-28!47;UBERON:0002616!3.31e-27!46;UBERON:0002020!3.52e-27!34;UBERON:0003056!1.14e-25!49;UBERON:0003080!2.87e-24!40;UBERON:0002780!2.12e-23!39;UBERON:0001890!2.12e-23!39;UBERON:0006240!2.12e-23!39;UBERON:0010314!1.30e-22!92;UBERON:0003528!3.20e-22!29;UBERON:0002791!3.20e-22!29;UBERON:0001893!3.20e-22!29;UBERON:0000956!1.07e-15!21;UBERON:0001869!1.07e-15!21;UBERON:0000203!1.07e-15!21;UBERON:0002619!5.81e-13!17;UBERON:0003076!5.03e-09!12;UBERON:0003057!5.03e-09!12;UBERON:0002021!8.06e-09!10;UBERON:0000411!8.06e-09!10;UBERON:0001950!8.06e-09!10;UBERON:0002420!1.13e-07!8;UBERON:0007245!1.13e-07!8;UBERON:0010009!1.13e-07!8;UBERON:0010011!1.13e-07!8;UBERON:0000454!1.13e-07!8;UBERON:0002240!8.68e-07!6;UBERON:0005174!8.68e-07!6;UBERON:0001137!8.68e-07!6
|ontology_enrichment_uberon=UBERON:0001017!5.16e-39!73;UBERON:0001016!2.84e-37!75;UBERON:0002346!5.46e-36!64;UBERON:0003075!5.46e-36!64;UBERON:0007284!5.46e-36!64;UBERON:0000073!3.43e-35!54;UBERON:0001049!4.48e-33!52;UBERON:0005068!4.48e-33!52;UBERON:0006241!4.48e-33!52;UBERON:0007135!4.48e-33!52;UBERON:0004121!8.47e-32!95;UBERON:0000924!8.47e-32!95;UBERON:0006601!8.47e-32!95;UBERON:0010371!1.22e-28!73;UBERON:0000955!6.44e-28!47;UBERON:0006238!6.44e-28!47;UBERON:0002616!3.31e-27!46;UBERON:0002020!3.52e-27!34;UBERON:0003056!1.14e-25!49;UBERON:0003080!2.87e-24!40;UBERON:0002780!2.12e-23!39;UBERON:0001890!2.12e-23!39;UBERON:0006240!2.12e-23!39;UBERON:0010314!1.30e-22!92;UBERON:0003528!3.20e-22!29;UBERON:0002791!3.20e-22!29;UBERON:0001893!3.20e-22!29;UBERON:0000956!1.07e-15!21;UBERON:0001869!1.07e-15!21;UBERON:0000203!1.07e-15!21;UBERON:0002619!5.81e-13!17;UBERON:0003076!5.03e-09!12;UBERON:0003057!5.03e-09!12;UBERON:0002021!8.06e-09!10;UBERON:0000411!8.06e-09!10;UBERON:0001950!8.06e-09!10;UBERON:0002420!1.13e-07!8;UBERON:0007245!1.13e-07!8;UBERON:0010009!1.13e-07!8;UBERON:0010011!1.13e-07!8;UBERON:0000454!1.13e-07!8;UBERON:0002240!8.68e-07!6;UBERON:0005174!8.68e-07!6;UBERON:0001137!8.68e-07!6
|tfbs_overrepresentation_for_novel_motifs=0.737036,1.24506,0.686572,0.303186,0.1565,0.315748,1.02601,0.0908011,0.320069,2.01579,0.357058,0.385627,0.630954,0.407615,0.169024,0,1.43434,1.44151,0.279039,0.33293,0.215242,0.235703,1.04849,0.155356,0.251585,0.432737,0.265362,0.334131,0.191143,0.438367,0.860721,0.683831,1.43157,0.234079,0.505829,0.612118,0.438297,0.382372,0.126724,1.16642,0.153518,0.326286,0.407596,0.508662,0.461548,0.293566,0.512146,0.34807,0.337012,0.19345,1.39948,0.457464,0.736781,0.82076,0.837732,0.414119,0.581069,0.37415,0.0716833,0.412262,0.664611,0.46618,0.104381,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,1.21364,0.0945081,0.763255,0.870406,0.51601,0.222652,0.233965,0.50152,1.56206,1.171,0.316038,0.60374,0.464847,0.0868537,0.758319,1.5015,0.0395547,0.053731,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,0.391609,0.11194,0.622881,0.698838,0.512384,0.67526,0.862562,1.63583,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,1.18615,0.619563,0.261228,0.805555,0.219561,0.361667,1.04639,0.463309,1.39764,0.306448,0.58848,0.139554,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.95011,0.787341,0.296885,0.940498,0.426575,1.06766,0.092963,0.274293,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.757925,0.477267,0.445509,0.983868,0.822286,0.115938,0.425729,0.901933,0.458393,0.178202,0.265096,0.752802,1.02862,0.757491,0.652135,0.25933,0.561023,0.418964,0.141416,0.384198,0.365903
}}
}}

Revision as of 18:36, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:104171642..104171655,+p@chr11:104171642..104171655
+
Mm9::chr11:104171701..104171731,+p@chr11:104171701..104171731
+
Mm9::chr12:73313193..73313244,-p@chr12:73313193..73313244
-
Mm9::chr12:73313326..73313392,-p@chr12:73313326..73313392
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Mm9::chr12:73324386..73324412,-p@chr12:73324386..73324412
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Mm9::chr15:44579907..44579923,-p7@Sybu
Mm9::chr16:20619899..20619944,-p@chr16:20619899..20619944
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Mm9::chr16:42249172..42249185,-p@chr16:42249172..42249185
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Mm9::chr1:84692327..84692341,-p5@Dner
Mm9::chr1:84692342..84692353,-p6@Dner
Mm9::chr3:95023823..95023839,-p@chr3:95023823..95023839
-
Mm9::chr8:96334719..96334728,+p13@Gnao1


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:0043005neuron projection0.01507268662812
GO:0007220Notch receptor processing0.0206975803128446
GO:0005112Notch binding0.0206975803128446
GO:0005519cytoskeletal regulatory protein binding0.0206975803128446
GO:0042995cell projection0.0206975803128446
GO:0051605protein maturation via proteolysis0.0206975803128446
GO:0007026negative regulation of microtubule depolymerization0.0206975803128446
GO:0051604protein maturation0.0206975803128446
GO:0031114regulation of microtubule depolymerization0.0206975803128446
GO:0007019microtubule depolymerization0.0206975803128446
GO:0031111negative regulation of microtubule polymerization or depolymerization0.0206975803128446
GO:0031110regulation of microtubule polymerization or depolymerization0.0222860376811327
GO:0031109microtubule polymerization or depolymerization0.0222860376811327
GO:0007212dopamine receptor signaling pathway0.0266009680357124
GO:0051261protein depolymerization0.0413067546960271
GO:0005834heterotrimeric G-protein complex0.0413067546960271
GO:0051129negative regulation of cellular component organization and biogenesis0.0413067546960271
GO:0008016regulation of heart contraction0.0413067546960271
GO:0010001glial cell differentiation0.0413067546960271
GO:0042063gliogenesis0.0413067546960271
GO:0060047heart contraction0.0413067546960271
GO:0003015heart process0.0413067546960271
GO:0030425dendrite0.0413067546960271
GO:0019897extrinsic to plasma membrane0.0413067546960271
GO:0007219Notch signaling pathway0.0413067546960271
GO:0051128regulation of cellular component organization and biogenesis0.0426065032114335
GO:0043025cell soma0.0426065032114335
GO:0030424axon0.0426065032114335
GO:0000226microtubule cytoskeleton organization and biogenesis0.0426065032114335
GO:0048741skeletal muscle fiber development0.0426065032114335
GO:0048747muscle fiber development0.0426065032114335
GO:0051248negative regulation of protein metabolic process0.043139354940474
GO:0019898extrinsic to membrane0.043139354940474



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>


Uber Anatomy
Ontology termp-valuen
central nervous system5.16e-3973
nervous system2.84e-3775
neurectoderm5.46e-3664
neural plate5.46e-3664
presumptive neural plate5.46e-3664
regional part of nervous system3.43e-3554
neural tube4.48e-3352
neural rod4.48e-3352
future spinal cord4.48e-3352
neural keel4.48e-3352
ectoderm-derived structure8.47e-3295
ectoderm8.47e-3295
presumptive ectoderm8.47e-3295
ecto-epithelium1.22e-2873
brain6.44e-2847
future brain6.44e-2847
regional part of brain3.31e-2746
gray matter3.52e-2734
pre-chordal neural plate1.14e-2549
anterior neural tube2.87e-2440
regional part of forebrain2.12e-2339
forebrain2.12e-2339
future forebrain2.12e-2339
structure with developmental contribution from neural crest1.30e-2292
brain grey matter3.20e-2229
regional part of telencephalon3.20e-2229
telencephalon3.20e-2229
cerebral cortex1.07e-1521
cerebral hemisphere1.07e-1521
pallium1.07e-1521
regional part of cerebral cortex5.81e-1317
posterior neural tube5.03e-0912
chordal neural plate5.03e-0912
occipital lobe8.06e-0910
visual cortex8.06e-0910
neocortex8.06e-0910
basal ganglion1.13e-078
nuclear complex of neuraxis1.13e-078
aggregate regional part of brain1.13e-078
collection of basal ganglia1.13e-078
cerebral subcortex1.13e-078
spinal cord8.68e-076
dorsal region element8.68e-076
dorsum8.68e-076


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}}}