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|gostat_on_MCL_coexpression=GO:0006342;chromatin silencing;0.00655901656221973;64383,13435!GO:0031507;heterochromatin formation;0.00655901656221973;64383,13435!GO:0045814;negative regulation of gene expression, epigenetic;0.00655901656221973;64383,13435!GO:0016458;gene silencing;0.0163581245209923;64383,13435!GO:0006338;chromatin remodeling;0.0247222116908219;64383,13435!GO:0040029;regulation of gene expression, epigenetic;0.0278597844445692;64383,13435!GO:0003830;beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.0378020051498384;17309!
|gostat_on_MCL_coexpression=GO:0006342;chromatin silencing;0.00655901656221973;64383,13435!GO:0031507;heterochromatin formation;0.00655901656221973;64383,13435!GO:0045814;negative regulation of gene expression, epigenetic;0.00655901656221973;64383,13435!GO:0016458;gene silencing;0.0163581245209923;64383,13435!GO:0006338;chromatin remodeling;0.0247222116908219;64383,13435!GO:0040029;regulation of gene expression, epigenetic;0.0278597844445692;64383,13435!GO:0003830;beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.0378020051498384;17309!
|ontology_enrichment_celltype=CL:0000117!1.20e-08!23;CL:0000337!1.20e-08!23;CL:0002610!8.87e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.75e-31!54;UBERON:0001049!2.12e-28!52;UBERON:0005068!2.12e-28!52;UBERON:0006241!2.12e-28!52;UBERON:0007135!2.12e-28!52;UBERON:0001017!2.38e-28!73;UBERON:0001016!2.35e-27!75;UBERON:0002346!1.44e-26!64;UBERON:0003075!1.44e-26!64;UBERON:0007284!1.44e-26!64;UBERON:0004121!9.09e-24!95;UBERON:0000924!9.09e-24!95;UBERON:0006601!9.09e-24!95;UBERON:0002020!1.18e-23!34;UBERON:0010371!2.93e-22!73;UBERON:0000955!1.54e-20!47;UBERON:0006238!1.54e-20!47;UBERON:0002616!2.53e-19!46;UBERON:0002021!6.24e-19!10;UBERON:0000411!6.24e-19!10;UBERON:0001950!6.24e-19!10;UBERON:0010314!6.07e-16!92;UBERON:0003528!8.28e-16!29;UBERON:0002791!8.28e-16!29;UBERON:0001893!8.28e-16!29;UBERON:0003076!8.36e-16!12;UBERON:0003057!8.36e-16!12;UBERON:0003056!1.80e-15!49;UBERON:0003080!3.65e-15!40;UBERON:0002780!6.33e-14!39;UBERON:0001890!6.33e-14!39;UBERON:0006240!6.33e-14!39;UBERON:0002240!1.30e-12!6;UBERON:0005174!1.30e-12!6;UBERON:0001137!1.30e-12!6;UBERON:0002619!2.57e-12!17;UBERON:0000956!2.80e-11!21;UBERON:0001869!2.80e-11!21;UBERON:0000203!2.80e-11!21;UBERON:0001948!8.46e-11!5;UBERON:0002315!8.46e-11!5;UBERON:0000025!8.67e-09!114;UBERON:0002950!3.74e-08!4;UBERON:0001891!3.74e-08!4;UBERON:0009616!3.74e-08!4;UBERON:0010286!3.74e-08!4;UBERON:0004111!9.80e-08!122;UBERON:0004684!8.87e-07!3;UBERON:0002275!8.87e-07!3
}}
}}

Revision as of 19:15, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:39139854..39139880,+p3@Fyn
Mm9::chr11:100437196..100437214,+p3@Cnp
Mm9::chr11:58996296..58996303,-p3@Gjc2
Mm9::chr11:70420158..70420172,+p5@Mink1
Mm9::chr11:78138175..78138191,+p9@Aldoc
Mm9::chr11:8522555..8522588,-p@chr11:8522555..8522588
-
Mm9::chr12:3806003..3806031,+p11@Dnmt3a
Mm9::chr12:86865781..86865791,+p@chr12:86865781..86865791
+
Mm9::chr13:51844144..51844190,-p4@Sema4d
Mm9::chr14:70928312..70928353,+p@chr14:70928312..70928353
+
Mm9::chr15:80003618..80003634,+p@chr15:80003618..80003634
+
Mm9::chr18:32109225..32109242,-p1@Gpr17
Mm9::chr18:32114761..32114783,+p@chr18:32114761..32114783
+
Mm9::chr1:134603826..134603860,-p2@Nfasc
Mm9::chr1:134603881..134603894,-p3@Nfasc
Mm9::chr1:134603916..134603928,-p4@Nfasc
Mm9::chr2:152777263..152777276,-p2@Dusp15
Mm9::chr2:29701822..29701836,-p@chr2:29701822..29701836
-
Mm9::chr2:29701996..29702014,-p@chr2:29701996..29702014
-
Mm9::chr3:87804765..87804788,-p7@Bcan
Mm9::chr3:87804816..87804827,-p@chr3:87804816..87804827
-
Mm9::chr5:125583272..125583283,-p@chr5:125583272..125583283
-
Mm9::chr7:29075714..29075740,-p@chr7:29075714..29075740
-
Mm9::chr7:29346063..29346073,-p@chr7:29346063..29346073
-
Mm9::chr7:29346120..29346131,-p@chr7:29346120..29346131
-
Mm9::chr7:29551856..29551868,+p2@Sirt2
Mm9::chr7:29569372..29569384,+p5@Sirt2
Mm9::chr9:120084593..120084603,+p@chr9:120084593..120084603
+


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:0006342chromatin silencing0.00655901656221973
GO:0031507heterochromatin formation0.00655901656221973
GO:0045814negative regulation of gene expression, epigenetic0.00655901656221973
GO:0016458gene silencing0.0163581245209923
GO:0006338chromatin remodeling0.0247222116908219
GO:0040029regulation of gene expression, epigenetic0.0278597844445692
GO:0003830beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity0.0378020051498384



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)1.20e-0823
neuroblast (sensu Vertebrata)1.20e-0823
raphe nuclei neuron8.87e-073

Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.75e-3154
neural tube2.12e-2852
neural rod2.12e-2852
future spinal cord2.12e-2852
neural keel2.12e-2852
central nervous system2.38e-2873
nervous system2.35e-2775
neurectoderm1.44e-2664
neural plate1.44e-2664
presumptive neural plate1.44e-2664
ectoderm-derived structure9.09e-2495
ectoderm9.09e-2495
presumptive ectoderm9.09e-2495
gray matter1.18e-2334
ecto-epithelium2.93e-2273
brain1.54e-2047
future brain1.54e-2047
regional part of brain2.53e-1946
occipital lobe6.24e-1910
visual cortex6.24e-1910
neocortex6.24e-1910
structure with developmental contribution from neural crest6.07e-1692
brain grey matter8.28e-1629
regional part of telencephalon8.28e-1629
telencephalon8.28e-1629
posterior neural tube8.36e-1612
chordal neural plate8.36e-1612
pre-chordal neural plate1.80e-1549
anterior neural tube3.65e-1540
regional part of forebrain6.33e-1439
forebrain6.33e-1439
future forebrain6.33e-1439
spinal cord1.30e-126
dorsal region element1.30e-126
dorsum1.30e-126
regional part of cerebral cortex2.57e-1217
cerebral cortex2.80e-1121
cerebral hemisphere2.80e-1121
pallium2.80e-1121
regional part of spinal cord8.46e-115
gray matter of spinal cord8.46e-115
tube8.67e-09114
regional part of midbrain3.74e-084
midbrain3.74e-084
presumptive midbrain3.74e-084
midbrain neural tube3.74e-084
anatomical conduit9.80e-08122
raphe nuclei8.87e-073
reticular formation8.87e-073


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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