Personal tools

MCL coexpression mm9:1830

From FANTOM5_SSTAR

Revision as of 20:30, 26 November 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr6:55401989..55402045,+p1@Adcyap1r1
Mm9::chr7:100228369..100228380,+p4@Fam181b
Mm9::chr7:100228393..100228411,+p3@Fam181b
Mm9::chr7:100228422..100228441,+p1@Fam181b
Mm9::chr7:100228450..100228465,+p2@Fam181b


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:0004999vasoactive intestinal polypeptide receptor activity0.00476633977976223
GO:0001633secretin-like receptor activity0.0142990193392867



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
nervous system1.74e-3975
central nervous system1.01e-3873
ectoderm-derived structure5.83e-3595
ectoderm5.83e-3595
presumptive ectoderm5.83e-3595
regional part of nervous system4.74e-2654
neural tube2.87e-2552
neural rod2.87e-2552
future spinal cord2.87e-2552
neural keel2.87e-2552
neurectoderm1.14e-2464
neural plate1.14e-2464
presumptive neural plate1.14e-2464
ecto-epithelium1.08e-2373
brain1.50e-2147
future brain1.50e-2147
structure with developmental contribution from neural crest1.88e-2192
regional part of brain8.01e-2146
anterior neural tube3.31e-1840
gray matter7.60e-1834
regional part of forebrain1.29e-1739
forebrain1.29e-1739
future forebrain1.29e-1739
pre-chordal neural plate4.40e-1649
brain grey matter2.75e-1429
regional part of telencephalon2.75e-1429
telencephalon2.75e-1429
cerebral cortex3.11e-1021
cerebral hemisphere3.11e-1021
pallium3.11e-1021
regional part of cerebral cortex9.10e-0917
multi-cellular organism6.72e-08333
posterior neural tube1.20e-0712
chordal neural plate1.20e-0712


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}}}