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MCL coexpression mm9:1163: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0016014;dystrobrevin complex;0.0177505067660111;13527!
|gostat_on_MCL_coexpression=GO:0016014;dystrobrevin complex;0.0177505067660111;13527!
|ontology_enrichment_celltype=CL:0000117!3.62e-09!23;CL:0000337!3.62e-09!23;CL:0000540!6.49e-08!33;CL:0000047!6.49e-08!33;CL:0000031!6.49e-08!33;CL:0000404!6.49e-08!33
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0010314!5.38e-23!92;UBERON:0000073!7.35e-17!54;UBERON:0001017!8.01e-17!73;UBERON:0001016!2.22e-16!75;UBERON:0002346!2.64e-16!64;UBERON:0003075!2.64e-16!64;UBERON:0007284!2.64e-16!64;UBERON:0001049!1.29e-15!52;UBERON:0005068!1.29e-15!52;UBERON:0006241!1.29e-15!52;UBERON:0007135!1.29e-15!52;UBERON:0004121!3.15e-15!95;UBERON:0000924!3.15e-15!95;UBERON:0006601!3.15e-15!95;UBERON:0010371!2.26e-14!73;UBERON:0002020!2.05e-13!34;UBERON:0000955!7.49e-13!47;UBERON:0006238!7.49e-13!47;UBERON:0002616!1.75e-12!46;UBERON:0003056!4.82e-11!49;UBERON:0003528!6.42e-11!29;UBERON:0002791!6.42e-11!29;UBERON:0001893!6.42e-11!29;UBERON:0003080!1.56e-10!40;UBERON:0004111!5.09e-10!122;UBERON:0002780!5.93e-10!39;UBERON:0001890!5.93e-10!39;UBERON:0006240!5.93e-10!39;UBERON:0000025!1.59e-09!114;UBERON:0000468!5.58e-08!333;UBERON:0000956!8.78e-08!21;UBERON:0001869!8.78e-08!21;UBERON:0000203!8.78e-08!21;UBERON:0002619!6.73e-07!17
}}
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Revision as of 16:26, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:23573663..23573716,+p7@Dtna
Mm9::chr19:7062081..7062108,-p3@Vegfb
Mm9::chr1:74331613..74331646,+p1@Pnkd
Mm9::chr3:127201904..127201956,-p1@Gm4392
Mm9::chr3:127201967..127201989,-p7@Ank2
Mm9::chr3:127201994..127202011,-p13@Ank2
Mm9::chr3:127202013..127202055,-p10@Ank2


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:0016014dystrobrevin complex0.0177505067660111



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)3.62e-0923
neuroblast (sensu Vertebrata)3.62e-0923
neuron6.49e-0833
neuronal stem cell6.49e-0833
neuroblast6.49e-0833
electrically signaling cell6.49e-0833

Uber Anatomy
Ontology termp-valuen
structure with developmental contribution from neural crest5.38e-2392
regional part of nervous system7.35e-1754
central nervous system8.01e-1773
nervous system2.22e-1675
neurectoderm2.64e-1664
neural plate2.64e-1664
presumptive neural plate2.64e-1664
neural tube1.29e-1552
neural rod1.29e-1552
future spinal cord1.29e-1552
neural keel1.29e-1552
ectoderm-derived structure3.15e-1595
ectoderm3.15e-1595
presumptive ectoderm3.15e-1595
ecto-epithelium2.26e-1473
gray matter2.05e-1334
brain7.49e-1347
future brain7.49e-1347
regional part of brain1.75e-1246
pre-chordal neural plate4.82e-1149
brain grey matter6.42e-1129
regional part of telencephalon6.42e-1129
telencephalon6.42e-1129
anterior neural tube1.56e-1040
anatomical conduit5.09e-10122
regional part of forebrain5.93e-1039
forebrain5.93e-1039
future forebrain5.93e-1039
tube1.59e-09114
multi-cellular organism5.58e-08333
cerebral cortex8.78e-0821
cerebral hemisphere8.78e-0821
pallium8.78e-0821
regional part of cerebral cortex6.73e-0717


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)

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