Personal tools

MCL coexpression mm9:398

From FANTOM5_SSTAR

Revision as of 18:17, 26 November 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr11:120328644..120328685,-p2@Arl16
Mm9::chr15:102341112..102341136,-p5@Map3k12
Mm9::chr15:99288189..99288208,-p2@Nckap5l
Mm9::chr17:36116182..36116253,-p1@Prr3
Mm9::chr4:117556033..117556112,-p1@B4galt2
Mm9::chr5:114893964..114893987,-p3@Mmab
Mm9::chr7:134592623..134592680,-p1@Zfp689
Mm9::chr7:150239284..150239364,-p1@ENSMUST00000133630
Mm9::chr7:19661591..19661622,+p2@Dmwd
Mm9::chr7:25372631..25372684,-p1@Zfp575
Mm9::chr7:28043859..28043878,+p2@Numbl
Mm9::chr7:5003102..5003113,+p4@Zfp580
Mm9::chr7:5003117..5003159,+p1@Zfp580
Mm9::chr7:5003165..5003203,+p2@Zfp580
Mm9::chr7:5003205..5003234,+p3@Zfp580
Mm9::chr7:69565028..69565043,-p1@Mkrn3
Mm9::chr8:13869673..13869740,+p1@Zfp828
Mm9::chr8:81923412..81923431,-p2@Smad1
Mm9::chrX:148803223..148803283,-p1@Gpr173


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:0009235cobalamin metabolic process0.0363227962526708
GO:0008817cob(I)yrinic acid a,c-diamide adenosyltransferase activity0.0363227962526708
GO:0016572histone phosphorylation0.0363227962526708
GO:0009236cobalamin biosynthetic process0.0363227962526708



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 system1.90e-3173
nervous system1.87e-3075
ectoderm-derived structure7.48e-2895
ectoderm7.48e-2895
presumptive ectoderm7.48e-2895
neurectoderm2.65e-2664
neural plate2.65e-2664
presumptive neural plate2.65e-2664
ecto-epithelium1.20e-2373
regional part of nervous system4.38e-2354
neural tube7.13e-2352
neural rod7.13e-2352
future spinal cord7.13e-2352
neural keel7.13e-2352
structure with developmental contribution from neural crest1.30e-2092
pre-chordal neural plate4.00e-2049
brain9.99e-2047
future brain9.99e-2047
regional part of brain3.66e-1946
anterior neural tube6.18e-1840
regional part of forebrain9.70e-1839
forebrain9.70e-1839
future forebrain9.70e-1839
gray matter3.28e-1734
brain grey matter7.83e-1429
regional part of telencephalon7.83e-1429
telencephalon7.83e-1429
cerebral cortex1.56e-1021
cerebral hemisphere1.56e-1021
pallium1.56e-1021
regional part of cerebral cortex2.46e-0817
multi-cellular organism3.20e-07333


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}}}