Personal tools

MCL coexpression mm9:522

From FANTOM5_SSTAR

Revision as of 20:49, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80987126..80987135,-p10@Gna15
Mm9::chr13:74075570..74075595,+p@chr13:74075570..74075595
+
Mm9::chr15:84155210..84155241,+p2@Parvg
Mm9::chr16:92826167..92826176,-p@chr16:92826167..92826176
-
Mm9::chr16:92826180..92826191,-p5@Runx1
Mm9::chr16:92826232..92826245,-p4@Runx1
Mm9::chr17:48438853..48438867,+p5@Treml2
Mm9::chr17:48439797..48439804,+p9@Treml2
Mm9::chr17:48439824..48439849,+p4@Treml2
Mm9::chr18:65961097..65961123,+p3@Sec11c
Mm9::chr19:5877794..5877840,+p3@Slc25a45
Mm9::chr2:112108160..112108174,-p@chr2:112108160..112108174
-
Mm9::chr6:113187870..113187901,+p2@Mtmr14
Mm9::chrY:622960..622991,-p2@Ddx3y


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>


Uber Anatomy
Ontology termp-valuen
hemolymphoid system7.31e-2448
immune system7.31e-2448
hematopoietic system3.07e-2245
blood island3.07e-2245
hemopoietic organ1.11e-1229
immune organ1.11e-1229
mixed endoderm/mesoderm-derived structure1.44e-1135
foregut2.50e-1180
bone element7.73e-1122
skeletal element7.73e-1122
skeletal system7.73e-1122
bone marrow2.51e-1016
lateral plate mesoderm2.66e-1087
connective tissue3.65e-0946
thymus6.65e-0923
neck6.65e-0923
respiratory system epithelium6.65e-0923
hemolymphoid system gland6.65e-0923
pharyngeal epithelium6.65e-0923
thymic region6.65e-0923
pharyngeal gland6.65e-0923
entire pharyngeal arch endoderm6.65e-0923
thymus primordium6.65e-0923
early pharyngeal endoderm6.65e-0923
musculoskeletal system7.23e-0932
respiratory tract1.27e-0841
pharynx2.78e-0824
gland of gut2.78e-0824
upper respiratory tract2.78e-0824
chordate pharynx2.78e-0824
pharyngeal arch system2.78e-0824
pharyngeal region of foregut2.78e-0824
endo-epithelium2.86e-0869
respiratory system3.23e-0842
mesoderm3.63e-07120
mesoderm-derived structure3.63e-07120
presumptive mesoderm3.63e-07120
endoderm-derived structure7.83e-07118
endoderm7.83e-07118
presumptive endoderm7.83e-07118
digestive system8.40e-07116
digestive tract8.40e-07116
primitive gut8.40e-07116


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}}}