Personal tools

MCL coexpression mm9:1234: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007524!7.72e-07!11;UBERON:0003077!7.72e-07!11;UBERON:0007285!7.72e-07!11
|ontology_enrichment_uberon=UBERON:0007524!7.72e-07!11;UBERON:0003077!7.72e-07!11;UBERON:0007285!7.72e-07!11
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.819928,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,1.48899,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.143775,0.426133,1.17476,0.657163,0.345236,0.472505,0.686615,0.223823,0.572827,1.02135,0.534301,0.558142,0.960397,0.892985,0.589948,0.364821,0.607065,0.326478,0.629145,0.303703,0.752287,0.342638,0.56353,0.327433,0.366415,1.45501,0.524258,0.77511,0.589246,0.594982,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.366795,1.156,0.208101,1.08629,0.204132,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.439832,0.0610418,1.02367,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,1.47187,0.769162,0.685716,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,1.94583,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,1.35637,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,1.1648,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,1.64681,1.03315,0.325363,1.10596,0.287383,0.678689,1.18867,0.71546,0.983048,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,2.79088
}}
}}

Revision as of 19:35, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128346925..128346929,+p3@Cd63
p3@LOC100505035
Mm9::chr10:128346951..128346986,+p1@Cd63
p1@LOC100505035
Mm9::chr10:77888435..77888474,+p2@Cstb
Mm9::chr18:50294404..50294420,+p1@ENSMUST00000163860
Mm9::chr2:32731656..32731761,+p1@Fam129b
Mm9::chr5:137463454..137463512,+p1@Plod3


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:0002020protease binding0.0127348408191326
GO:0008475procollagen-lysine 5-dioxygenase activity0.0127348408191326
GO:0010008endosome membrane0.0127348408191326
GO:0044440endosomal part0.0127348408191326
GO:0031418L-ascorbic acid binding0.0356126357062929
GO:0016706oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0.0356126357062929
GO:0005770late endosome0.0356126357062929
GO:0004869cysteine protease inhibitor activity0.0356126357062929
GO:0008344adult locomotory behavior0.0474470832588804
GO:0016702oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen0.0476580977648303
GO:0051213dioxygenase activity0.0476580977648303
GO:0016701oxidoreductase activity, acting on single donors with incorporation of molecular oxygen0.0476580977648303
GO:0030534adult behavior0.0476580977648303



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
dense mesenchyme tissue7.72e-0711
paraxial mesoderm7.72e-0711
presumptive paraxial mesoderm7.72e-0711


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}}}