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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.190947417941288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0414509950648858,0.152691370679199,0.180814285155944,0,0,0,0.505464404962115,0.388754004533344,0.474376110081431,0.0538027986792206,0.0729756721489083,0,0.376502785117782,0.327466262382121,0.345790571471271,0.201194179703458,0.126782537345348,0.105918927514698,0.0158508717912236,0.046384316262602,0,0,0,0,0,0,0,0,0,0,0.0286130208973782,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.719602915528406,0.750837066366866,0,0,0,0,0.564525631438855,0.570187158930076,0,0.52136310266979,0.424731130019536,0.555801564256652,0.525241391638601,0,0,0,0.688685112945555,0.0265623655145556,0,0.0359524366705627,0.106540992333397,0.216428576822011,0.229033594065763,0.276366583636413,1.0185116135109,0,0,0,0,0,0,0.0406344227647811,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.486472810766023,0.0406393010046813,0,0,0,0,0,0.048123666213638,0,0,0,0,0,0,0,0,0,0,0,0.046982063026719,0,0.040250349638994,0,0.0432236120246624,0.0193689905203134,0,0,0.0478974089166825,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.555639962055787,0.520673880326087,0,0,0,0,0,0,0,0,0,0,0,0.491776926005755,0,0.0355847379748454,0.0623370450154778,0.163771052865932,0,0,0,0,0.0561855000898185,0,0,0,0,0,0,0,0.216441035209049,0,0,0,0,0.0712812415377886,0.0948573962131381,0,0,0,0,0,0,0,0,0,0,0.691144707657439,0,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0531569878936061,0,0,0.054962990285351,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.194445471641185,0.368482786744713,0.434359137099159,0.52144776504667,0.399765551626207,0.502103122473327,0.29754841187768,0.371245906776716,0.539261686628647,0.397340781290642,0,0,0,0.0945084131504676,0,0,0,0.081359932135904,0.0287716872813423,0,0.0173921424653696,0.0433789098003251,0.0593724567368882,0.0523284672130554,0.0472245945615809,0,0,0,0,0.0596387295197733,0.0640168649599105,0.0354759961767123,0.0464368173027965,0.0294684307081759,0.0569785733435272,0.0352754493378881,0.0729583017401753,0.0507136604151505,0.0553034373508932,0,0.0486884105045233,0.0408018333703219,0,0,0,0,0.091291089277545,0.0422650922646472,0,0.0116187155333168,0.0452820579159438
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|gostat_on_MCL_coexpression=GO:0007268;synaptic transmission;0.0171056100137584;14394,64176!GO:0019226;transmission of nerve impulse;0.0171056100137584;14394,64176!GO:0007267;cell-cell signaling;0.0237379267073981;14394,64176!GO:0030054;cell junction;0.0246834425755739;14394,64176!GO:0007214;gamma-aminobutyric acid signaling pathway;0.0474193736602506;14394!GO:0004890;GABA-A receptor activity;0.0498905126945302;14394!GO:0016917;GABA receptor activity;0.0498905126945302;14394!
|gostat_on_MCL_coexpression=GO:0007268;synaptic transmission;0.0171056100137584;14394,64176!GO:0019226;transmission of nerve impulse;0.0171056100137584;14394,64176!GO:0007267;cell-cell signaling;0.0237379267073981;14394,64176!GO:0030054;cell junction;0.0246834425755739;14394,64176!GO:0007214;gamma-aminobutyric acid signaling pathway;0.0474193736602506;14394!GO:0004890;GABA-A receptor activity;0.0498905126945302;14394!GO:0016917;GABA receptor activity;0.0498905126945302;14394!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!1.43e-25!64;UBERON:0003075!1.43e-25!64;UBERON:0007284!1.43e-25!64;UBERON:0000073!2.92e-23!54;UBERON:0010371!1.55e-21!73;UBERON:0001049!2.12e-21!52;UBERON:0005068!2.12e-21!52;UBERON:0006241!2.12e-21!52;UBERON:0007135!2.12e-21!52;UBERON:0003056!3.19e-19!49;UBERON:0004121!3.47e-19!95;UBERON:0000924!3.47e-19!95;UBERON:0006601!3.47e-19!95;UBERON:0000955!2.80e-17!47;UBERON:0006238!2.80e-17!47;UBERON:0001016!3.01e-17!75;UBERON:0002616!2.37e-16!46;UBERON:0001017!2.82e-16!73;UBERON:0002020!2.12e-15!34;UBERON:0010314!4.79e-14!92;UBERON:0003080!1.29e-13!40;UBERON:0002780!1.12e-12!39;UBERON:0001890!1.12e-12!39;UBERON:0006240!1.12e-12!39;UBERON:0003528!1.51e-11!29;UBERON:0002791!1.51e-11!29;UBERON:0001893!1.51e-11!29;UBERON:0002021!1.96e-11!10;UBERON:0000411!1.96e-11!10;UBERON:0001950!1.96e-11!10;UBERON:0003076!5.95e-09!12;UBERON:0003057!5.95e-09!12;UBERON:0000956!4.20e-08!21;UBERON:0001869!4.20e-08!21;UBERON:0000203!4.20e-08!21;UBERON:0002619!5.64e-08!17;UBERON:0000970!6.84e-07!9;UBERON:0000019!6.84e-07!9;UBERON:0000047!6.84e-07!9;UBERON:0010312!6.84e-07!9;UBERON:0004088!6.84e-07!9;UBERON:0002104!6.84e-07!9;UBERON:0001456!6.84e-07!9;UBERON:0003072!6.84e-07!9;UBERON:0004128!6.84e-07!9;UBERON:0003071!6.84e-07!9;UBERON:0002240!9.81e-07!6;UBERON:0005174!9.81e-07!6;UBERON:0001137!9.81e-07!6
}}
}}

Revision as of 21:06, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79819225..79819239,+p1@Plk5
Mm9::chr11:41996015..41996022,-p14@Gabra1
Mm9::chr11:41996032..41996041,-p10@Gabra1
Mm9::chr16:31942578..31942582,+p@chr16:31942578..31942582
+
Mm9::chr3:126864840..126864852,-p20@Ank2
Mm9::chr3:33037158..33037162,-p@chr3:33037158..33037162
-
Mm9::chr7:82453803..82453825,-p5@Sv2b
Mm9::chr9:29219870..29219883,-p17@Ntm
Mm9::chr9:40183917..40183943,-p11@Gramd1b
Mm9::chr9:40183944..40184000,-p4@Gramd1b


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:0007268synaptic transmission0.0171056100137584
GO:0019226transmission of nerve impulse0.0171056100137584
GO:0007267cell-cell signaling0.0237379267073981
GO:0030054cell junction0.0246834425755739
GO:0007214gamma-aminobutyric acid signaling pathway0.0474193736602506
GO:0004890GABA-A receptor activity0.0498905126945302
GO:0016917GABA receptor activity0.0498905126945302



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
neurectoderm1.43e-2564
neural plate1.43e-2564
presumptive neural plate1.43e-2564
regional part of nervous system2.92e-2354
ecto-epithelium1.55e-2173
neural tube2.12e-2152
neural rod2.12e-2152
future spinal cord2.12e-2152
neural keel2.12e-2152
pre-chordal neural plate3.19e-1949
ectoderm-derived structure3.47e-1995
ectoderm3.47e-1995
presumptive ectoderm3.47e-1995
brain2.80e-1747
future brain2.80e-1747
nervous system3.01e-1775
regional part of brain2.37e-1646
central nervous system2.82e-1673
gray matter2.12e-1534
structure with developmental contribution from neural crest4.79e-1492
anterior neural tube1.29e-1340
regional part of forebrain1.12e-1239
forebrain1.12e-1239
future forebrain1.12e-1239
brain grey matter1.51e-1129
regional part of telencephalon1.51e-1129
telencephalon1.51e-1129
occipital lobe1.96e-1110
visual cortex1.96e-1110
neocortex1.96e-1110
posterior neural tube5.95e-0912
chordal neural plate5.95e-0912
cerebral cortex4.20e-0821
cerebral hemisphere4.20e-0821
pallium4.20e-0821
regional part of cerebral cortex5.64e-0817
eye6.84e-079
camera-type eye6.84e-079
simple eye6.84e-079
immature eye6.84e-079
ocular region6.84e-079
visual system6.84e-079
face6.84e-079
optic cup6.84e-079
optic vesicle6.84e-079
eye primordium6.84e-079
spinal cord9.81e-076
dorsal region element9.81e-076
dorsum9.81e-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}}}

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