Personal tools

MCL coexpression mm9:2890

From FANTOM5_SSTAR

Revision as of 22:06, 26 November 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr14:14117267..14117278,+p7@Synpr
Mm9::chr14:14117288..14117307,+p3@Synpr
Mm9::chr14:14117315..14117341,+p1@Synpr


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


no results for this coexpression

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
neuron3.21e-1033
neuronal stem cell3.21e-1033
neuroblast3.21e-1033
electrically signaling cell3.21e-1033
CNS neuron (sensu Vertebrata)6.92e-0723
neuroblast (sensu Vertebrata)6.92e-0723

Uber Anatomy
Ontology termp-valuen
ectoderm-derived structure1.73e-2295
ectoderm1.73e-2295
presumptive ectoderm1.73e-2295
neurectoderm3.89e-2264
neural plate3.89e-2264
presumptive neural plate3.89e-2264
central nervous system5.83e-2273
nervous system7.58e-2175
ecto-epithelium4.69e-2073
regional part of nervous system1.38e-1754
neural tube2.47e-1652
neural rod2.47e-1652
future spinal cord2.47e-1652
neural keel2.47e-1652
pre-chordal neural plate5.60e-1649
structure with developmental contribution from neural crest4.93e-1592
brain7.14e-1447
future brain7.14e-1447
regional part of brain3.36e-1346
gray matter2.14e-1234
anterior neural tube7.77e-1240
regional part of forebrain3.00e-1139
forebrain3.00e-1139
future forebrain3.00e-1139
brain grey matter7.49e-1029
regional part of telencephalon7.49e-1029
telencephalon7.49e-1029
occipital lobe4.02e-0810
visual cortex4.02e-0810
neocortex4.02e-0810
cerebral cortex5.88e-0721
cerebral hemisphere5.88e-0721
pallium5.88e-0721


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}}}