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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179051645532617,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.702975580019422,0.412791885609234,0.548429419791112,0,0,0,0,0,0,0,0,0,0.0829019901297716,0,0.0866689030825281,0.0951629323478916,0.109759520249235,0,0,0.247021199245269,0.116346380288332,0.576296656162458,0.613903092435099,0.615474509542399,0.106932678779961,0,0,0,0.0578074284787346,0.793733439721974,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0932921651944173,0,0.0519509775191307,0.278466377096388,0.163608743054207,0.0514050548005424,0.66748197250856,0.728123404792573,0.262724437924219,0.329537978565126,0,0,0,0,0,0.0898705446131073,0.235591192680759,0.372238575043149,0.656854725638547,1.05603582561539,1.23814901805821,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.393053673693912,0.0812786020093627,0,0,0,0,0,0,0,0,0,0,0,0.0788034163803455,0,0,0,0,0.0754257438189354,0,0,0,0,0,0.139696273758293,0.338632005510089,0.435682909330784,0.270394681419558,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.130859448321889,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0661577744756082,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0.127090816446242,0.230386905221361,0.15063362961962,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0771684068561175,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.741782856327806,0.748440183111848,0.789302817287802,0.647095658441101,0.894915307697504,0.742910698304561,0.757787438810128,0.568427876181492,0.742836956754754,0.665048084301853,0.580041626276955,0.476414860375642,0.373990665472433,0.0945084131504676,0.0826465040380816,0,0.221867905942098,0,0,0,0,0.0750453505157095,0.107523539997041,0.0763037466917402,0.146762969796454,0.169172763866184,0,0,0.14986111676545,0,0,0.0709519923534245,0.092873634605593,0.0589368614163519,0.0390607415003592,0.0678996586311492,0,0.101427320830301,0.104353329269123,0,0.0924644954689594,0.0408018333703219,0,0.0625582350728301,0.141704700595215,0.300865434577911,0.091291089277545,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179051645532617,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.702975580019422,0.412791885609234,0.548429419791112,0,0,0,0,0,0,0,0,0,0.0829019901297716,0,0.0866689030825281,0.0951629323478916,0.109759520249235,0,0,0.247021199245269,0.116346380288332,0.576296656162458,0.613903092435099,0.615474509542399,0.106932678779961,0,0,0,0.0578074284787346,0.793733439721974,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0932921651944173,0,0.0519509775191307,0.278466377096388,0.163608743054207,0.0514050548005424,0.66748197250856,0.728123404792573,0.262724437924219,0.329537978565126,0,0,0,0,0,0.0898705446131073,0.235591192680759,0.372238575043149,0.656854725638547,1.05603582561539,1.23814901805821,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.393053673693912,0.0812786020093627,0,0,0,0,0,0,0,0,0,0,0,0.0788034163803455,0,0,0,0,0.0754257438189354,0,0,0,0,0,0.139696273758293,0.338632005510089,0.435682909330784,0.270394681419558,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.130859448321889,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0661577744756082,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0.127090816446242,0.230386905221361,0.15063362961962,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0771684068561175,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.741782856327806,0.748440183111848,0.789302817287802,0.647095658441101,0.894915307697504,0.742910698304561,0.757787438810128,0.568427876181492,0.742836956754754,0.665048084301853,0.580041626276955,0.476414860375642,0.373990665472433,0.0945084131504676,0.0826465040380816,0,0.221867905942098,0,0,0,0,0.0750453505157095,0.107523539997041,0.0763037466917402,0.146762969796454,0.169172763866184,0,0,0.14986111676545,0,0,0.0709519923534245,0.092873634605593,0.0589368614163519,0.0390607415003592,0.0678996586311492,0,0.101427320830301,0.104353329269123,0,0.0924644954689594,0.0408018333703219,0,0.0625582350728301,0.141704700595215,0.300865434577911,0.091291089277545,0,0,0,0
|gostat_on_MCL_coexpression=GO:0001764;neuron migration;0.0377198268777735;19649!GO:0046982;protein heterodimerization activity;0.0377198268777735;19649!GO:0007411;axon guidance;0.0377198268777735;19649!GO:0042803;protein homodimerization activity;0.0377198268777735;19649!GO:0042330;taxis;0.0377198268777735;19649!GO:0006935;chemotaxis;0.0377198268777735;19649!GO:0007409;axonogenesis;0.0377198268777735;19649!GO:0048667;neuron morphogenesis during differentiation;0.0377198268777735;19649!GO:0048812;neurite morphogenesis;0.0377198268777735;19649!GO:0042802;identical protein binding;0.0377198268777735;19649!GO:0000904;cellular morphogenesis during differentiation;0.0377198268777735;19649!GO:0031175;neurite development;0.0377198268777735;19649!GO:0046983;protein dimerization activity;0.0377198268777735;19649!GO:0007626;locomotory behavior;0.0377198268777735;19649!GO:0048666;neuron development;0.0377198268777735;19649!GO:0032990;cell part morphogenesis;0.0377198268777735;19649!GO:0030030;cell projection organization and biogenesis;0.0377198268777735;19649!GO:0048858;cell projection morphogenesis;0.0377198268777735;19649!GO:0016477;cell migration;0.0377198268777735;19649!GO:0030182;neuron differentiation;0.0377198268777735;19649!GO:0007610;behavior;0.0377198268777735;19649!GO:0048699;generation of neurons;0.0377198268777735;19649!GO:0051674;localization of cell;0.0377198268777735;19649!GO:0006928;cell motility;0.0377198268777735;19649!GO:0022008;neurogenesis;0.0377757081027776;19649!GO:0042221;response to chemical stimulus;0.0443195922446381;19649!GO:0009605;response to external stimulus;0.0443195922446381;19649!GO:0032989;cellular structure morphogenesis;0.0443195922446381;19649!GO:0000902;cell morphogenesis;0.0443195922446381;19649!
|gostat_on_MCL_coexpression=GO:0001764;neuron migration;0.0377198268777735;19649!GO:0046982;protein heterodimerization activity;0.0377198268777735;19649!GO:0007411;axon guidance;0.0377198268777735;19649!GO:0042803;protein homodimerization activity;0.0377198268777735;19649!GO:0042330;taxis;0.0377198268777735;19649!GO:0006935;chemotaxis;0.0377198268777735;19649!GO:0007409;axonogenesis;0.0377198268777735;19649!GO:0048667;neuron morphogenesis during differentiation;0.0377198268777735;19649!GO:0048812;neurite morphogenesis;0.0377198268777735;19649!GO:0042802;identical protein binding;0.0377198268777735;19649!GO:0000904;cellular morphogenesis during differentiation;0.0377198268777735;19649!GO:0031175;neurite development;0.0377198268777735;19649!GO:0046983;protein dimerization activity;0.0377198268777735;19649!GO:0007626;locomotory behavior;0.0377198268777735;19649!GO:0048666;neuron development;0.0377198268777735;19649!GO:0032990;cell part morphogenesis;0.0377198268777735;19649!GO:0030030;cell projection organization and biogenesis;0.0377198268777735;19649!GO:0048858;cell projection morphogenesis;0.0377198268777735;19649!GO:0016477;cell migration;0.0377198268777735;19649!GO:0030182;neuron differentiation;0.0377198268777735;19649!GO:0007610;behavior;0.0377198268777735;19649!GO:0048699;generation of neurons;0.0377198268777735;19649!GO:0051674;localization of cell;0.0377198268777735;19649!GO:0006928;cell motility;0.0377198268777735;19649!GO:0022008;neurogenesis;0.0377757081027776;19649!GO:0042221;response to chemical stimulus;0.0443195922446381;19649!GO:0009605;response to external stimulus;0.0443195922446381;19649!GO:0032989;cellular structure morphogenesis;0.0443195922446381;19649!GO:0000902;cell morphogenesis;0.0443195922446381;19649!
|ontology_enrichment_celltype=CL:0000117!2.41e-08!23;CL:0000337!2.41e-08!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003056!5.37e-19!49;UBERON:0002020!1.74e-17!34;UBERON:0002346!1.91e-17!64;UBERON:0003075!1.91e-17!64;UBERON:0007284!1.91e-17!64;UBERON:0003528!1.24e-16!29;UBERON:0002791!1.24e-16!29;UBERON:0001893!1.24e-16!29;UBERON:0000073!1.98e-15!54;UBERON:0003080!4.22e-15!40;UBERON:0001049!5.80e-15!52;UBERON:0005068!5.80e-15!52;UBERON:0006241!5.80e-15!52;UBERON:0007135!5.80e-15!52;UBERON:0002780!3.07e-14!39;UBERON:0001890!3.07e-14!39;UBERON:0006240!3.07e-14!39;UBERON:0010371!7.00e-14!73;UBERON:0002021!7.10e-14!10;UBERON:0000411!7.10e-14!10;UBERON:0001950!7.10e-14!10;UBERON:0002616!3.28e-13!46;UBERON:0002619!4.33e-13!17;UBERON:0000956!5.49e-13!21;UBERON:0001869!5.49e-13!21;UBERON:0000203!5.49e-13!21;UBERON:0000955!9.45e-13!47;UBERON:0006238!9.45e-13!47;UBERON:0001017!1.16e-12!73;UBERON:0004121!2.25e-12!95;UBERON:0000924!2.25e-12!95;UBERON:0006601!2.25e-12!95;UBERON:0001016!4.87e-12!75;UBERON:0010314!8.67e-09!92
}}
}}

Revision as of 19:49, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr1:9591572..9591585,+p3@3110035E14Rik
Mm9::chr9:37240723..37240752,-p1@Robo3
Mm9::chr9:37240831..37240835,-p2@Robo3


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:0001764neuron migration0.0377198268777735
GO:0046982protein heterodimerization activity0.0377198268777735
GO:0007411axon guidance0.0377198268777735
GO:0042803protein homodimerization activity0.0377198268777735
GO:0042330taxis0.0377198268777735
GO:0006935chemotaxis0.0377198268777735
GO:0007409axonogenesis0.0377198268777735
GO:0048667neuron morphogenesis during differentiation0.0377198268777735
GO:0048812neurite morphogenesis0.0377198268777735
GO:0042802identical protein binding0.0377198268777735
GO:0000904cellular morphogenesis during differentiation0.0377198268777735
GO:0031175neurite development0.0377198268777735
GO:0046983protein dimerization activity0.0377198268777735
GO:0007626locomotory behavior0.0377198268777735
GO:0048666neuron development0.0377198268777735
GO:0032990cell part morphogenesis0.0377198268777735
GO:0030030cell projection organization and biogenesis0.0377198268777735
GO:0048858cell projection morphogenesis0.0377198268777735
GO:0016477cell migration0.0377198268777735
GO:0030182neuron differentiation0.0377198268777735
GO:0007610behavior0.0377198268777735
GO:0048699generation of neurons0.0377198268777735
GO:0051674localization of cell0.0377198268777735
GO:0006928cell motility0.0377198268777735
GO:0022008neurogenesis0.0377757081027776
GO:0042221response to chemical stimulus0.0443195922446381
GO:0009605response to external stimulus0.0443195922446381
GO:0032989cellular structure morphogenesis0.0443195922446381
GO:0000902cell morphogenesis0.0443195922446381



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)2.41e-0823
neuroblast (sensu Vertebrata)2.41e-0823

Uber Anatomy
Ontology termp-valuen
pre-chordal neural plate5.37e-1949
gray matter1.74e-1734
neurectoderm1.91e-1764
neural plate1.91e-1764
presumptive neural plate1.91e-1764
brain grey matter1.24e-1629
regional part of telencephalon1.24e-1629
telencephalon1.24e-1629
regional part of nervous system1.98e-1554
anterior neural tube4.22e-1540
neural tube5.80e-1552
neural rod5.80e-1552
future spinal cord5.80e-1552
neural keel5.80e-1552
regional part of forebrain3.07e-1439
forebrain3.07e-1439
future forebrain3.07e-1439
ecto-epithelium7.00e-1473
occipital lobe7.10e-1410
visual cortex7.10e-1410
neocortex7.10e-1410
regional part of brain3.28e-1346
regional part of cerebral cortex4.33e-1317
cerebral cortex5.49e-1321
cerebral hemisphere5.49e-1321
pallium5.49e-1321
brain9.45e-1347
future brain9.45e-1347
central nervous system1.16e-1273
ectoderm-derived structure2.25e-1295
ectoderm2.25e-1295
presumptive ectoderm2.25e-1295
nervous system4.87e-1275
structure with developmental contribution from neural crest8.67e-0992


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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