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MCL coexpression mm9:1536: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0045161;neuronal ion channel clustering;0.0203802114720868;56462!
|gostat_on_MCL_coexpression=GO:0045161;neuronal ion channel clustering;0.0203802114720868;56462!
|ontology_enrichment_celltype=CL:0000055!6.92e-20!49;CL:0000221!1.86e-19!44;CL:0000133!1.86e-19!44;CL:0002319!6.04e-19!43;CL:0000393!1.81e-16!39;CL:0000211!1.81e-16!39;CL:0000540!1.16e-15!33;CL:0000047!1.16e-15!33;CL:0000031!1.16e-15!33;CL:0000404!1.16e-15!33;CL:0000117!1.17e-13!23;CL:0000337!1.17e-13!23;CL:0002321!7.28e-09!70
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!9.15e-33!73;UBERON:0001016!1.21e-30!75;UBERON:0010314!5.03e-26!92;UBERON:0004121!2.75e-24!95;UBERON:0000924!2.75e-24!95;UBERON:0006601!2.75e-24!95;UBERON:0000073!7.89e-24!54;UBERON:0002346!2.95e-23!64;UBERON:0003075!2.95e-23!64;UBERON:0007284!2.95e-23!64;UBERON:0001049!1.53e-22!52;UBERON:0005068!1.53e-22!52;UBERON:0006241!1.53e-22!52;UBERON:0007135!1.53e-22!52;UBERON:0000955!4.52e-19!47;UBERON:0006238!4.52e-19!47;UBERON:0010371!4.95e-19!73;UBERON:0002616!6.73e-19!46;UBERON:0000025!1.24e-16!114;UBERON:0004111!3.05e-16!122;UBERON:0003080!1.19e-15!40;UBERON:0003056!1.31e-15!49;UBERON:0002780!2.57e-15!39;UBERON:0001890!2.57e-15!39;UBERON:0006240!2.57e-15!39;UBERON:0002020!2.67e-15!34;UBERON:0003528!2.34e-12!29;UBERON:0002791!2.34e-12!29;UBERON:0001893!2.34e-12!29;UBERON:0000956!4.67e-08!21;UBERON:0001869!4.67e-08!21;UBERON:0000203!4.67e-08!21;UBERON:0003076!1.15e-07!12;UBERON:0003057!1.15e-07!12;UBERON:0000477!2.74e-07!244
}}
}}

Revision as of 17:03, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80119230..80119264,-p1@Btbd2
Mm9::chr11:120459768..120459832,+p1@Anapc11
Mm9::chr17:29484698..29484737,-p1@Mtch1
Mm9::chr2:180689352..180689375,-p1@Nkain4
Mm9::chr2:180689381..180689413,-p2@Nkain4


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:0045161neuronal ion channel clustering0.0203802114720868



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 system9.15e-3373
nervous system1.21e-3075
structure with developmental contribution from neural crest5.03e-2692
ectoderm-derived structure2.75e-2495
ectoderm2.75e-2495
presumptive ectoderm2.75e-2495
regional part of nervous system7.89e-2454
neurectoderm2.95e-2364
neural plate2.95e-2364
presumptive neural plate2.95e-2364
neural tube1.53e-2252
neural rod1.53e-2252
future spinal cord1.53e-2252
neural keel1.53e-2252
brain4.52e-1947
future brain4.52e-1947
ecto-epithelium4.95e-1973
regional part of brain6.73e-1946
tube1.24e-16114
anatomical conduit3.05e-16122
anterior neural tube1.19e-1540
pre-chordal neural plate1.31e-1549
regional part of forebrain2.57e-1539
forebrain2.57e-1539
future forebrain2.57e-1539
gray matter2.67e-1534
brain grey matter2.34e-1229
regional part of telencephalon2.34e-1229
telencephalon2.34e-1229
cerebral cortex4.67e-0821
cerebral hemisphere4.67e-0821
pallium4.67e-0821
posterior neural tube1.15e-0712
chordal neural plate1.15e-0712
anatomical cluster2.74e-07244


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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