Personal tools

MCL coexpression mm9:920

From FANTOM5_SSTAR

Revision as of 19:07, 26 November 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr11:87562456..87562471,+p@chr11:87562456..87562471
+
Mm9::chr14:45608251..45608286,+p1@Ptger2
Mm9::chr17:69766781..69766805,+p2@ENSMUST00000097289
Mm9::chr2:167602975..167603013,+p1@ENSMUST00000139927
Mm9::chr3:106563434..106563448,-p@chr3:106563434..106563448
-
Mm9::chr3:106592965..106592990,-p1@Cd53
Mm9::chr3:108714724..108714742,+p@chr3:108714724..108714742
+
Mm9::chr9:121584220..121584230,-p@chr9:121584220..121584230
-


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:0004960thromboxane receptor activity0.00730293432441445
GO:0004953icosanoid receptor activity0.00730293432441445
GO:0004954prostanoid receptor activity0.00730293432441445



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 system2.91e-1548
immune system2.91e-1548
hematopoietic system2.69e-1445
blood island2.69e-1445
digestive system1.34e-09116
digestive tract1.34e-09116
primitive gut1.34e-09116
endoderm-derived structure1.96e-09118
endoderm1.96e-09118
presumptive endoderm1.96e-09118
subdivision of digestive tract3.60e-09114
hemopoietic organ7.49e-0929
immune organ7.49e-0929
foregut1.28e-0880
mixed endoderm/mesoderm-derived structure1.65e-0835
respiratory system9.57e-0842
gland of gut2.20e-0724
respiratory tract2.67e-0741
pharynx5.49e-0724
upper respiratory tract5.49e-0724
chordate pharynx5.49e-0724
pharyngeal arch system5.49e-0724
pharyngeal region of foregut5.49e-0724
thymus6.93e-0723
neck6.93e-0723
respiratory system epithelium6.93e-0723
hemolymphoid system gland6.93e-0723
pharyngeal epithelium6.93e-0723
thymic region6.93e-0723
pharyngeal gland6.93e-0723
entire pharyngeal arch endoderm6.93e-0723
thymus primordium6.93e-0723
early pharyngeal endoderm6.93e-0723


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}}}