Personal tools

MCL coexpression mm9:1747

From FANTOM5_SSTAR

Revision as of 17:22, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr1:181890115..181890211,+p1@Cdc42bpa
Mm9::chr5:8567093..8567110,+p@chr5:8567093..8567110
+
Mm9::chr5:8567113..8567123,+p@chr5:8567113..8567123
+
Mm9::chr5:8606564..8606568,+p@chr5:8606564..8606568
+
Mm9::chr9:42914037..42914109,-p1@Arhgef12


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:0005083small GTPase regulator activity0.00509899699284794
GO:0030695GTPase regulator activity0.00821737696392652
GO:0007097nuclear migration0.00821737696392652
GO:0040023establishment of nucleus localization0.00986004192010371
GO:0051647nucleus localization0.00986004192010371
GO:0051656establishment of organelle localization0.027715412429569
GO:0007242intracellular signaling cascade0.027715412429569
GO:0051640organelle localization0.027715412429569
GO:0019992diacylglycerol binding0.0403401200135352
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0403401200135352
GO:0035023regulation of Rho protein signal transduction0.0403401200135352
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0403401200135352
GO:0000226microtubule cytoskeleton organization and biogenesis0.0403871732472332
GO:0007266Rho protein signal transduction0.0468573864306494



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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
anatomical conduit1.60e-16122
tube1.73e-15114
structure with developmental contribution from neural crest1.86e-1192
multi-cellular organism2.27e-10333
regional part of nervous system5.30e-1054
neurectoderm4.27e-0964
neural plate4.27e-0964
presumptive neural plate4.27e-0964
neural tube5.03e-0952
neural rod5.03e-0952
future spinal cord5.03e-0952
neural keel5.03e-0952
ecto-epithelium5.37e-0973
ectoderm-derived structure1.21e-0895
ectoderm1.21e-0895
presumptive ectoderm1.21e-0895
brain2.69e-0847
future brain2.69e-0847
central nervous system6.90e-0873
regional part of brain8.23e-0846
nervous system8.56e-0875
tissue2.31e-07349
pre-chordal neural plate4.17e-0749
lung6.52e-0714
respiratory tube6.52e-0714
respiration organ6.52e-0714
pair of lungs6.52e-0714
lung primordium6.52e-0714
lung bud6.52e-0714


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}}}