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MCL coexpression mm9:794: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0046578;regulation of Ras protein signal transduction;0.0367190231283963;97761,16443!GO:0051056;regulation of small GTPase mediated signal transduction;0.0367190231283963;97761,16443!GO:0007265;Ras protein signal transduction;0.0367190231283963;97761,16443!GO:0004887;thyroid hormone receptor activity;0.0367190231283963;21833!GO:0005083;small GTPase regulator activity;0.0367190231283963;97761,16443!
|gostat_on_MCL_coexpression=GO:0046578;regulation of Ras protein signal transduction;0.0367190231283963;97761,16443!GO:0051056;regulation of small GTPase mediated signal transduction;0.0367190231283963;97761,16443!GO:0007265;Ras protein signal transduction;0.0367190231283963;97761,16443!GO:0004887;thyroid hormone receptor activity;0.0367190231283963;21833!GO:0005083;small GTPase regulator activity;0.0367190231283963;97761,16443!
|ontology_enrichment_celltype=CL:0000221!2.56e-15!44;CL:0000133!2.56e-15!44;CL:0002319!4.13e-15!43;CL:0000055!5.70e-15!49;CL:0000117!1.45e-14!23;CL:0000337!1.45e-14!23;CL:0000540!2.45e-14!33;CL:0000047!2.45e-14!33;CL:0000031!2.45e-14!33;CL:0000404!2.45e-14!33;CL:0000393!6.03e-14!39;CL:0000211!6.03e-14!39;CL:0002321!8.01e-11!70
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!3.23e-31!73;UBERON:0001016!1.17e-29!75;UBERON:0004121!8.49e-27!95;UBERON:0000924!8.49e-27!95;UBERON:0006601!8.49e-27!95;UBERON:0000073!3.34e-26!54;UBERON:0001049!5.82e-25!52;UBERON:0005068!5.82e-25!52;UBERON:0006241!5.82e-25!52;UBERON:0007135!5.82e-25!52;UBERON:0002346!6.45e-25!64;UBERON:0003075!6.45e-25!64;UBERON:0007284!6.45e-25!64;UBERON:0010371!5.98e-23!73;UBERON:0000955!1.52e-21!47;UBERON:0006238!1.52e-21!47;UBERON:0002616!4.80e-21!46;UBERON:0002020!1.23e-20!34;UBERON:0010314!3.78e-20!92;UBERON:0003056!6.99e-19!49;UBERON:0003080!8.21e-19!40;UBERON:0002780!2.53e-18!39;UBERON:0001890!2.53e-18!39;UBERON:0006240!2.53e-18!39;UBERON:0003528!2.52e-17!29;UBERON:0002791!2.52e-17!29;UBERON:0001893!2.52e-17!29;UBERON:0000956!6.97e-13!21;UBERON:0001869!6.97e-13!21;UBERON:0000203!6.97e-13!21;UBERON:0002619!2.17e-10!17;UBERON:0000025!1.20e-07!114;UBERON:0004111!3.46e-07!122;UBERON:0002021!3.49e-07!10;UBERON:0000411!3.49e-07!10;UBERON:0001950!3.49e-07!10
}}
}}

Revision as of 21:15, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:74710554..74710596,-p1@Sgsm2
Mm9::chr11:98603160..98603171,+p3@Thra
Mm9::chr11:98603185..98603208,+p1@Thra
Mm9::chr16:91729647..91729680,+p3@Itsn1
Mm9::chr1:196446044..196446066,+p2@Plxna2
Mm9::chr3:55046452..55046477,+p4@Dclk1
Mm9::chr3:55046483..55046501,+p3@Dclk1
Mm9::chr4:117222931..117223014,+p1@Eri3
Mm9::chr8:13907736..13907745,+p3@Fbxo25


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:0046578regulation of Ras protein signal transduction0.0367190231283963
GO:0051056regulation of small GTPase mediated signal transduction0.0367190231283963
GO:0007265Ras protein signal transduction0.0367190231283963
GO:0004887thyroid hormone receptor activity0.0367190231283963
GO:0005083small GTPase regulator activity0.0367190231283963



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>

Uber Anatomy
Ontology termp-valuen
central nervous system3.23e-3173
nervous system1.17e-2975
ectoderm-derived structure8.49e-2795
ectoderm8.49e-2795
presumptive ectoderm8.49e-2795
regional part of nervous system3.34e-2654
neural tube5.82e-2552
neural rod5.82e-2552
future spinal cord5.82e-2552
neural keel5.82e-2552
neurectoderm6.45e-2564
neural plate6.45e-2564
presumptive neural plate6.45e-2564
ecto-epithelium5.98e-2373
brain1.52e-2147
future brain1.52e-2147
regional part of brain4.80e-2146
gray matter1.23e-2034
structure with developmental contribution from neural crest3.78e-2092
pre-chordal neural plate6.99e-1949
anterior neural tube8.21e-1940
regional part of forebrain2.53e-1839
forebrain2.53e-1839
future forebrain2.53e-1839
brain grey matter2.52e-1729
regional part of telencephalon2.52e-1729
telencephalon2.52e-1729
cerebral cortex6.97e-1321
cerebral hemisphere6.97e-1321
pallium6.97e-1321
regional part of cerebral cortex2.17e-1017
tube1.20e-07114
anatomical conduit3.46e-07122
occipital lobe3.49e-0710
visual cortex3.49e-0710
neocortex3.49e-0710


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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