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MCL coexpression mm9:1879: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000926!1.82e-09!120;UBERON:0004120!1.82e-09!120;UBERON:0006603!1.82e-09!120;UBERON:0000475!7.81e-08!150;UBERON:0003081!3.44e-07!87;UBERON:0000153!6.26e-07!43
|ontology_enrichment_uberon=UBERON:0000926!1.82e-09!120;UBERON:0004120!1.82e-09!120;UBERON:0006603!1.82e-09!120;UBERON:0000475!7.81e-08!150;UBERON:0003081!3.44e-07!87;UBERON:0000153!6.26e-07!43
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.128156,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.162942,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,0.570433,0.197567,1.90943,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.318879,0.503207,0.30022,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.185353,0.504971,0.0986756,0.675898,0.938241,0.744678,0.49007,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,0.593145,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.986898,1.04072,0.884013,0.362446,1.20828,0.758875,0.40635,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,1.09896,0.409166,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,0.576517,0.7614,1.51002,1.1991,0.442329,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.79777,0.542121,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,1.56687,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.992915
}}
}}

Revision as of 20:34, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127472693..127472711,+p1@Naca
Mm9::chr15:101904346..101904365,+p1@Eif4b
Mm9::chr15:43114241..43114274,-p1@Eif3e
Mm9::chr2:104857172..104857232,-p1@Eif3m


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:0003743translation initiation factor activity1.64645390302682e-05
GO:0008135translation factor activity, nucleic acid binding2.73842277135108e-05
GO:0006412translation0.00090974244592492
GO:0009059macromolecule biosynthetic process0.0022983298963885
GO:0044249cellular biosynthetic process0.00336881789978311
GO:0017025TATA-binding protein binding0.00336881789978311
GO:0010467gene expression0.00336881789978311
GO:0003676nucleic acid binding0.00336881789978311
GO:0009058biosynthetic process0.00563358731139172
GO:0043170macromolecule metabolic process0.0398666698402492
GO:0044267cellular protein metabolic process0.0478404692008998
GO:0044260cellular macromolecule metabolic process0.0478404692008998
GO:0019538protein metabolic process0.0478404692008998
GO:0044238primary metabolic process0.0478404692008998
GO:0044237cellular metabolic process0.0478404692008998



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
mesoderm1.82e-09120
mesoderm-derived structure1.82e-09120
presumptive mesoderm1.82e-09120
organism subdivision7.81e-08150
lateral plate mesoderm3.44e-0787
anterior region of body6.26e-0743


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}}}