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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.203902841136986,0.404298764158439,0,0,0,0.788289851869135,0.869536070373044,0,0,0,0.881210724954738,0.767313137373841,0.698428524236755,0,0,0,1.05422113047342,0.78282103008584,0.792051154918035,0.275054562543737,0.330205393193943,0,0.184715090233432,0.0611293222874226,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.153061513253607,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.20018311764962,0.392249223948363,0,0,0,0,0.401521489696852,0.451786805560604,0,0.229245865416417,0.35766376392443,0.592069294963302,0.574968502268146,0,0,0,0,0,0,0,0,0,0,0,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.286542960923556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.656300727727621,0.805618936442092,0,0,0,0,0,0,0,0,0,0,0,0.121008441369486,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.77862026339407,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.260378737351975,0.376754964798171,0.331587424856164,0.375631696029311,0.374778587894724,0.244374584202533,0.371076178555103,0.211000756227603,0.162308177550168,0.308675506925909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0865703124974023,0.0905641158318875
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.203902841136986,0.404298764158439,0,0,0,0.788289851869135,0.869536070373044,0,0,0,0.881210724954738,0.767313137373841,0.698428524236755,0,0,0,1.05422113047342,0.78282103008584,0.792051154918035,0.275054562543737,0.330205393193943,0,0.184715090233432,0.0611293222874226,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.153061513253607,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.20018311764962,0.392249223948363,0,0,0,0,0.401521489696852,0.451786805560604,0,0.229245865416417,0.35766376392443,0.592069294963302,0.574968502268146,0,0,0,0,0,0,0,0,0,0,0,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.286542960923556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.656300727727621,0.805618936442092,0,0,0,0,0,0,0,0,0,0,0,0.121008441369486,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.77862026339407,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.260378737351975,0.376754964798171,0.331587424856164,0.375631696029311,0.374778587894724,0.244374584202533,0.371076178555103,0.211000756227603,0.162308177550168,0.308675506925909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0865703124974023,0.0905641158318875
|gostat_on_MCL_coexpression=GO:0019911;structural constituent of myelin sheath;0.0439582683660776;17196!GO:0000015;phosphopyruvate hydratase complex;0.0439582683660776;13807!GO:0004634;phosphopyruvate hydratase activity;0.0439582683660776;13807!GO:0043209;myelin sheath;0.0439582683660776;17196!GO:0044265;cellular macromolecule catabolic process;0.0439582683660776;13807,78651!GO:0019894;kinesin binding;0.0439582683660776;60597!GO:0008191;metalloendopeptidase inhibitor activity;0.0439582683660776;110595!GO:0030295;protein kinase activator activity;0.0439582683660776;60597!GO:0009057;macromolecule catabolic process;0.0468695565507533;13807,78651!GO:0019209;kinase activator activity;0.0468695565507533;60597!GO:0007267;cell-cell signaling;0.048916634562752;14618,17196!
|gostat_on_MCL_coexpression=GO:0019911;structural constituent of myelin sheath;0.0439582683660776;17196!GO:0000015;phosphopyruvate hydratase complex;0.0439582683660776;13807!GO:0004634;phosphopyruvate hydratase activity;0.0439582683660776;13807!GO:0043209;myelin sheath;0.0439582683660776;17196!GO:0044265;cellular macromolecule catabolic process;0.0439582683660776;13807,78651!GO:0019894;kinesin binding;0.0439582683660776;60597!GO:0008191;metalloendopeptidase inhibitor activity;0.0439582683660776;110595!GO:0030295;protein kinase activator activity;0.0439582683660776;60597!GO:0009057;macromolecule catabolic process;0.0468695565507533;13807,78651!GO:0019209;kinase activator activity;0.0468695565507533;60597!GO:0007267;cell-cell signaling;0.048916634562752;14618,17196!
|ontology_enrichment_celltype=CL:0000117!2.43e-08!23;CL:0000337!2.43e-08!23;CL:0002614!4.23e-08!3;CL:0002610!6.38e-08!3;CL:0000221!7.02e-08!44;CL:0000133!7.02e-08!44;CL:0002319!4.74e-07!43
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!2.35e-30!54;UBERON:0001016!2.71e-30!75;UBERON:0001017!1.16e-27!73;UBERON:0001049!7.51e-27!52;UBERON:0005068!7.51e-27!52;UBERON:0006241!7.51e-27!52;UBERON:0007135!7.51e-27!52;UBERON:0004121!3.81e-25!95;UBERON:0000924!3.81e-25!95;UBERON:0006601!3.81e-25!95;UBERON:0002346!4.08e-22!64;UBERON:0003075!4.08e-22!64;UBERON:0007284!4.08e-22!64;UBERON:0000955!6.84e-21!47;UBERON:0006238!6.84e-21!47;UBERON:0002020!7.74e-21!34;UBERON:0010371!5.52e-20!73;UBERON:0002616!1.23e-19!46;UBERON:0002021!6.20e-19!10;UBERON:0000411!6.20e-19!10;UBERON:0001950!6.20e-19!10;UBERON:0003528!2.87e-15!29;UBERON:0002791!2.87e-15!29;UBERON:0001893!2.87e-15!29;UBERON:0003080!4.71e-15!40;UBERON:0010314!2.45e-14!92;UBERON:0003076!8.10e-14!12;UBERON:0003057!8.10e-14!12;UBERON:0002780!1.02e-13!39;UBERON:0001890!1.02e-13!39;UBERON:0006240!1.02e-13!39;UBERON:0003056!9.47e-13!49;UBERON:0002619!1.59e-12!17;UBERON:0000956!1.33e-11!21;UBERON:0001869!1.33e-11!21;UBERON:0000203!1.33e-11!21;UBERON:0002950!5.29e-10!4;UBERON:0001891!5.29e-10!4;UBERON:0009616!5.29e-10!4;UBERON:0010286!5.29e-10!4;UBERON:0002240!1.98e-09!6;UBERON:0005174!1.98e-09!6;UBERON:0001137!1.98e-09!6;UBERON:0000025!1.74e-08!114;UBERON:0004111!2.98e-08!122;UBERON:0002038!4.23e-08!3;UBERON:0009663!4.23e-08!3;UBERON:0009661!4.23e-08!3;UBERON:0000125!4.23e-08!3;UBERON:0002308!4.23e-08!3;UBERON:0004684!6.38e-08!3;UBERON:0002275!6.38e-08!3;UBERON:0001948!1.91e-07!5;UBERON:0002315!1.91e-07!5;UBERON:0011216!3.18e-07!194
}}
}}

Revision as of 18:53, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:100442103..100442128,+p@chr11:100442103..100442128
+
Mm9::chr11:100442142..100442165,+p@chr11:100442142..100442165
+
Mm9::chr11:100442597..100442612,+p@chr11:100442597..100442612
+
Mm9::chr14:68705447..68705460,-p@chr14:68705447..68705460
-
Mm9::chr15:82086621..82086634,+p3@1500009C09Rik
Mm9::chr15:89284538..89284545,+p8@Mapk8ip2
Mm9::chr18:82742238..82742272,-p@chr18:82742238..82742272
-
Mm9::chr18:82744988..82745004,+p@chr18:82744988..82745004
+
Mm9::chr18:82748407..82748411,+p@chr18:82748407..82748411
+
Mm9::chr18:82753500..82753517,+p12@Mbp
Mm9::chr18:82753633..82753676,-p@chr18:82753633..82753676
-
Mm9::chr18:82753891..82753908,+p@chr18:82753891..82753908
+
Mm9::chr18:82753905..82753933,-p@chr18:82753905..82753933
-
Mm9::chr18:82753941..82753954,+p@chr18:82753941..82753954
+
Mm9::chr18:82753999..82754008,+p@chr18:82753999..82754008
+
Mm9::chr18:82754039..82754053,+p@chr18:82754039..82754053
+
Mm9::chr18:82754092..82754126,+p@chr18:82754092..82754126
+
Mm9::chr18:82754173..82754194,+p@chr18:82754173..82754194
+
Mm9::chr18:82754208..82754223,+p@chr18:82754208..82754223
+
Mm9::chr18:82754410..82754428,+p@chr18:82754410..82754428
+
Mm9::chr18:82754517..82754531,+p@chr18:82754517..82754531
+
Mm9::chr18:82754558..82754580,+p@chr18:82754558..82754580
+
Mm9::chr18:82754581..82754615,+p@chr18:82754581..82754615
+
Mm9::chr18:82754675..82754700,-p@chr18:82754675..82754700
-
Mm9::chr2:29701161..29701165,-p1@Mir219-2
Mm9::chr6:115202281..115202317,-p2@Timp4
Mm9::chr6:124713083..124713094,-p5@Eno2
Mm9::chr6:125168999..125169012,+p@chr6:125168999..125169012
+
Mm9::chr7:107793432..107793445,-p@chr7:107793432..107793445
-
Mm9::chr8:81334181..81334194,-p8@Lsm6
Mm9::chrX:98579120..98579141,+p6@Gjb1


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:0019911structural constituent of myelin sheath0.0439582683660776
GO:0000015phosphopyruvate hydratase complex0.0439582683660776
GO:0004634phosphopyruvate hydratase activity0.0439582683660776
GO:0043209myelin sheath0.0439582683660776
GO:0044265cellular macromolecule catabolic process0.0439582683660776
GO:0019894kinesin binding0.0439582683660776
GO:0008191metalloendopeptidase inhibitor activity0.0439582683660776
GO:0030295protein kinase activator activity0.0439582683660776
GO:0009057macromolecule catabolic process0.0468695565507533
GO:0019209kinase activator activity0.0468695565507533
GO:0007267cell-cell signaling0.048916634562752



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)2.43e-0823
neuroblast (sensu Vertebrata)2.43e-0823
neuron of the substantia nigra4.23e-083
raphe nuclei neuron6.38e-083
ectodermal cell7.02e-0844
neurectodermal cell7.02e-0844
neural cell4.74e-0743

Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.35e-3054
nervous system2.71e-3075
central nervous system1.16e-2773
neural tube7.51e-2752
neural rod7.51e-2752
future spinal cord7.51e-2752
neural keel7.51e-2752
ectoderm-derived structure3.81e-2595
ectoderm3.81e-2595
presumptive ectoderm3.81e-2595
neurectoderm4.08e-2264
neural plate4.08e-2264
presumptive neural plate4.08e-2264
brain6.84e-2147
future brain6.84e-2147
gray matter7.74e-2134
ecto-epithelium5.52e-2073
regional part of brain1.23e-1946
occipital lobe6.20e-1910
visual cortex6.20e-1910
neocortex6.20e-1910
brain grey matter2.87e-1529
regional part of telencephalon2.87e-1529
telencephalon2.87e-1529
anterior neural tube4.71e-1540
structure with developmental contribution from neural crest2.45e-1492
posterior neural tube8.10e-1412
chordal neural plate8.10e-1412
regional part of forebrain1.02e-1339
forebrain1.02e-1339
future forebrain1.02e-1339
pre-chordal neural plate9.47e-1349
regional part of cerebral cortex1.59e-1217
cerebral cortex1.33e-1121
cerebral hemisphere1.33e-1121
pallium1.33e-1121
regional part of midbrain5.29e-104
midbrain5.29e-104
presumptive midbrain5.29e-104
midbrain neural tube5.29e-104
spinal cord1.98e-096
dorsal region element1.98e-096
dorsum1.98e-096
tube1.74e-08114
anatomical conduit2.98e-08122
substantia nigra4.23e-083
telencephalic nucleus4.23e-083
midbrain nucleus4.23e-083
neural nucleus4.23e-083
nucleus of brain4.23e-083
raphe nuclei6.38e-083
reticular formation6.38e-083
regional part of spinal cord1.91e-075
gray matter of spinal cord1.91e-075
organ system subdivision3.18e-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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