Personal tools

MCL coexpression mm9:3421

From FANTOM5_SSTAR

Revision as of 22:53, 26 November 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr3:8665782..8665799,-p@chr3:8665782..8665799
-
Mm9::chr3:8666963..8666978,-p1@Hey1
Mm9::chr3:8666997..8667012,-p2@Hey1


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
ectodermal cell5.51e-0744
neurectodermal cell5.51e-0744

Uber Anatomy
Ontology termp-valuen
central nervous system7.85e-1873
structure with developmental contribution from neural crest1.52e-1792
regional part of nervous system7.49e-1754
nervous system7.65e-1775
neurectoderm1.18e-1664
neural plate1.18e-1664
presumptive neural plate1.18e-1664
ectoderm-derived structure1.26e-1695
ectoderm1.26e-1695
presumptive ectoderm1.26e-1695
neural tube3.19e-1652
neural rod3.19e-1652
future spinal cord3.19e-1652
neural keel3.19e-1652
ecto-epithelium7.60e-1673
pre-chordal neural plate7.94e-1449
brain8.06e-1447
future brain8.06e-1447
regional part of brain1.56e-1346
anterior neural tube1.71e-1240
regional part of forebrain5.08e-1239
forebrain5.08e-1239
future forebrain5.08e-1239
gray matter2.07e-0934
anatomical conduit3.46e-09122
tube4.80e-09114
multi-cellular organism1.02e-08333
brain grey matter1.71e-0729
regional part of telencephalon1.71e-0729
telencephalon1.71e-0729
embryo3.36e-07320


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}}}