Personal tools

MCL coexpression mm9:445

From FANTOM5_SSTAR

Revision as of 20:42, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr13:119521631..119521634,+p@chr13:119521631..119521634
+
Mm9::chr14:51818615..51818621,-p@chr14:51818615..51818621
-
Mm9::chr17:14813991..14813999,+p@chr17:14813991..14813999
+
Mm9::chr2:113589212..113589219,-p@chr2:113589212..113589219
-
Mm9::chr2:113589255..113589261,-p@chr2:113589255..113589261
-
Mm9::chr2:113598795..113598812,-p1@Grem1
Mm9::chr3:141948405..141948408,-p@chr3:141948405..141948408
-
Mm9::chr3:67308130..67308141,+p@chr3:67308130..67308141
+
Mm9::chr7:91120932..91120938,-p@chr7:91120932..91120938
-
Mm9::chr7:91143826..91143830,-p@chr7:91143826..91143830
-
Mm9::chr7:91196656..91196662,-p@chr7:91196656..91196662
-
Mm9::chr7:91202832..91202836,-p@chr7:91202832..91202836
-
Mm9::chr7:91226073..91226075,-p@chr7:91226073..91226075
-
Mm9::chr8:22042143..22042150,-p1@Gm15056
p1@LOC100504014
Mm9::chr8:26312911..26312918,-p@chr8:26312911..26312918
-
Mm9::chr9:96632593..96632620,-p12@Zbtb38
Mm9::chr9:96632636..96632649,-p16@Zbtb38


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:0009954proximal/distal pattern formation0.030231653759293
GO:0030514negative regulation of BMP signaling pathway0.030231653759293
GO:0030510regulation of BMP signaling pathway0.030231653759293
GO:0001658ureteric bud branching0.030231653759293
GO:0030509BMP signaling pathway0.030231653759293
GO:0001657ureteric bud development0.030231653759293
GO:0001656metanephros development0.030231653759293
GO:0048754branching morphogenesis of a tube0.030231653759293
GO:0001763morphogenesis of a branching structure0.030231653759293
GO:0030326embryonic limb morphogenesis0.030231653759293
GO:0035113embryonic appendage morphogenesis0.030231653759293
GO:0001822kidney development0.030231653759293
GO:0035107appendage morphogenesis0.030231653759293
GO:0035108limb morphogenesis0.030231653759293
GO:0001655urogenital system development0.030231653759293
GO:0048736appendage development0.030231653759293
GO:0060173limb development0.030231653759293
GO:0007178transmembrane receptor protein serine/threonine kinase signaling pathway0.030231653759293
GO:0009968negative regulation of signal transduction0.0326185805678833
GO:0003002regionalization0.0484536275196609
GO:0035239tube morphogenesis0.0484536275196609



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
smooth muscle tissue1.18e-443
blood vessel smooth muscle1.18e-443
arterial system smooth muscle1.18e-443
artery smooth muscle tissue1.18e-443
aorta smooth muscle tissue1.18e-443
aorta9.53e-344
artery9.53e-344
systemic artery9.53e-344
arterial blood vessel9.53e-344
systemic arterial system9.53e-344
aortic system9.53e-344
arterial system9.53e-344
vessel3.42e-275
epithelial tube open at both ends3.42e-275
blood vessel3.42e-275
vasculature3.42e-275
vascular system3.42e-275
blood vasculature3.42e-275
vascular cord3.42e-275
skeletal muscle tissue1.69e-159
striated muscle tissue1.69e-159
muscle tissue1.69e-159
multilaminar epithelium1.69e-159
epithelial vesicle1.69e-159
musculature1.69e-159
somite1.69e-159
myotome1.69e-159
presomitic mesoderm1.69e-159
presumptive segmental plate1.69e-159
dermomyotome1.69e-159
trunk paraxial mesoderm1.69e-159
musculature of body4.97e-1410
dense mesenchyme tissue7.94e-1311
paraxial mesoderm7.94e-1311
presumptive paraxial mesoderm7.94e-1311
eye2.54e-079
camera-type eye2.54e-079
simple eye2.54e-079
immature eye2.54e-079
ocular region2.54e-079
visual system2.54e-079
face2.54e-079
optic cup2.54e-079
optic vesicle2.54e-079
eye primordium2.54e-079


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}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:445&oldid=2156219"