Personal tools

MCL coexpression mm9:900

From FANTOM5_SSTAR

Revision as of 21:26, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr11:3309082..3309091,-p5@Limk2
Mm9::chr12:114663890..114663905,-p@chr12:114663890..114663905
-
Mm9::chr17:84174825..84174832,+p@chr17:84174825..84174832
+
Mm9::chr17:84174847..84174856,+p@chr17:84174847..84174856
+
Mm9::chr17:84174862..84174879,+p@chr17:84174862..84174879
+
Mm9::chr6:136780418..136780458,+p@chr6:136780418..136780458
+
Mm9::chr9:103391631..103391640,-p@chr9:103391631..103391640
-
Mm9::chr9:103391651..103391674,-p@chr9:103391651..103391674
-


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:0005801cis-Golgi network0.0218594203692544



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
hemolymphoid system7.74e-2448
immune system7.74e-2448
hemopoietic organ9.06e-2429
immune organ9.06e-2429
hematopoietic system9.24e-2445
blood island9.24e-2445
mixed endoderm/mesoderm-derived structure1.13e-1835
thymus2.88e-1823
neck2.88e-1823
respiratory system epithelium2.88e-1823
hemolymphoid system gland2.88e-1823
pharyngeal epithelium2.88e-1823
thymic region2.88e-1823
pharyngeal gland2.88e-1823
entire pharyngeal arch endoderm2.88e-1823
thymus primordium2.88e-1823
early pharyngeal endoderm2.88e-1823
pharynx2.56e-1724
gland of gut2.56e-1724
upper respiratory tract2.56e-1724
chordate pharynx2.56e-1724
pharyngeal arch system2.56e-1724
pharyngeal region of foregut2.56e-1724
segment of respiratory tract6.78e-1527
respiratory tract2.54e-1341
respiratory system7.09e-1342
lateral plate mesoderm2.08e-1287
foregut1.67e-1080
organ segment1.70e-1035
craniocervical region4.37e-1036
endo-epithelium3.77e-0869
anterior region of body9.00e-0843
gut epithelium1.32e-0755
connective tissue2.27e-0746
mesoderm7.11e-07120
mesoderm-derived structure7.11e-07120
presumptive mesoderm7.11e-07120


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}}}