Personal tools

MCL coexpression mm9:1180

From FANTOM5_SSTAR

Revision as of 16:28, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr2:104966436..104966455,+p7@Wt1
Mm9::chr2:104966465..104966479,+p6@Wt1
Mm9::chr2:104966510..104966538,-p2@ENSMUST00000174870
Mm9::chr2:104966545..104966586,-p1@ENSMUST00000174870
Mm9::chr2:104966662..104966673,+p4@Wt1
Mm9::chr2:104966766..104966786,+p1@Wt1
Mm9::chr2:105003277..105003280,+p5@Wt1


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:0001823mesonephros development0.0102996767654632
GO:0008584male gonad development0.0213350447284595
GO:0046546development of primary male sexual characteristics0.0213350447284595
GO:0007530sex determination0.0213350447284595
GO:0007281germ cell development0.0213350447284595
GO:0046661male sex differentiation0.0213350447284595
GO:0001570vasculogenesis0.0213350447284595
GO:0030855epithelial cell differentiation0.0231742727222922
GO:0001656metanephros development0.0248128576622523
GO:0008406gonad development0.0248128576622523
GO:0048608reproductive structure development0.0248128576622523
GO:0045137development of primary sexual characteristics0.0248908855165361
GO:0007548sex differentiation0.0254273270147373
GO:0001822kidney development0.0254273270147373
GO:0043010camera-type eye development0.0254273270147373
GO:0001655urogenital system development0.0254273270147373
GO:0003006reproductive developmental process0.0260521235832305
GO:0001654eye development0.0297546217668937
GO:0045786negative regulation of progression through cell cycle0.0314411185472035
GO:0002009morphogenesis of an epithelium0.0316715060537994
GO:0048514blood vessel morphogenesis0.039291359512693
GO:0000074regulation of progression through cell cycle0.039291359512693
GO:0007423sensory organ development0.039291359512693
GO:0045944positive regulation of transcription from RNA polymerase II promoter0.039291359512693
GO:0001568blood vessel development0.039291359512693
GO:0022414reproductive process0.039291359512693
GO:0001944vasculature development0.039291359512693
GO:0045893positive regulation of transcription, DNA-dependent0.0434057806544521
GO:0007276gamete generation0.0443951584718242
GO:0009888tissue development0.0455682669017463
GO:0045941positive regulation of transcription0.0455682669017463
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0455682669017463
GO:0019953sexual reproduction0.0455682669017463



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
body cavity4.99e-2037
body cavity or lining4.99e-2037
body cavity precursor4.32e-1938
anatomical cavity3.31e-1839
reproductive structure2.03e-1726
reproductive system2.03e-1726
reproductive organ1.57e-1624
gonad3.48e-1418
gonad primordium3.48e-1418
external genitalia2.56e-1317
indifferent external genitalia2.56e-1317
indifferent gonad2.56e-1317
anatomical space1.09e-1157
testis9.71e-1114
renal system2.65e-1019
splanchnic layer of lateral plate mesoderm4.35e-1033
urinary system structure6.99e-1018
male organism1.26e-0916
male reproductive system1.26e-0916
male reproductive organ1.28e-0915
compound organ2.76e-0943
kidney1.89e-0814
kidney mesenchyme1.89e-0814
upper urinary tract1.89e-0814
kidney rudiment1.89e-0814
kidney field1.89e-0814
female reproductive system2.47e-089
immaterial anatomical entity5.49e-0879
primary circulatory organ1.24e-0718
heart1.24e-0718
primitive heart tube1.24e-0718
primary heart field1.24e-0718
anterior lateral plate mesoderm1.24e-0718
heart tube1.24e-0718
heart primordium1.24e-0718
cardiac mesoderm1.24e-0718
cardiogenic plate1.24e-0718
heart rudiment1.24e-0718
female reproductive organ1.88e-078
viscus1.97e-0719
trunk region element3.08e-0779


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_mm9:1180&oldid=2153266"