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MCL coexpression mm9:442: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!1.76e-08!23;UBERON:0001009!1.76e-08!23;UBERON:0007100!5.05e-07!18;UBERON:0000948!5.05e-07!18;UBERON:0005498!5.05e-07!18;UBERON:0004140!5.05e-07!18;UBERON:0009881!5.05e-07!18;UBERON:0004141!5.05e-07!18;UBERON:0003084!5.05e-07!18;UBERON:0007005!5.05e-07!18;UBERON:0004139!5.05e-07!18;UBERON:0004291!5.05e-07!18
|ontology_enrichment_uberon=UBERON:0004535!1.76e-08!23;UBERON:0001009!1.76e-08!23;UBERON:0007100!5.05e-07!18;UBERON:0000948!5.05e-07!18;UBERON:0005498!5.05e-07!18;UBERON:0004140!5.05e-07!18;UBERON:0009881!5.05e-07!18;UBERON:0004141!5.05e-07!18;UBERON:0003084!5.05e-07!18;UBERON:0007005!5.05e-07!18;UBERON:0004139!5.05e-07!18;UBERON:0004291!5.05e-07!18
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.00904452,0.157426,0.593409,0.617852,0.618816,0.286882,0.376224,0.177198,0.260666,0.252112,0.277243,1.47689,0.296787,1.62191,0,0.46143,1.49303,1.85053,0.157913,0.415519,1.51108,0.296055,1.02912,0.489022,0.319311,0.13779,1.22281,0.366819,0.230852,0.22152,0.552579,0.0827485,0.82702,0.322914,0.0757799,0.0778621,0.274364,0.510225,0.197991,0.290922,0.225414,0.33101,0.0986861,0.832307,0.197508,0.391673,0.244272,0.64057,0.37148,0.445973,0.341665,0.416592,0.683824,0.700221,0.817643,0.121631,0.26711,1.26643,0.300938,0.534331,0.349585,0.192373,0.43605,0.311703,0.471894,0.829699,1.16897,0.530087,1.02503,0.144846,0.0453143,0.106553,0.731855,0.120421,0.493181,0.518029,0.381898,0.518764,1.3517,0.0458011,0.476893,0.348372,0.0404688,0.623727,0.138967,0.0831859,0.439688,1.0247,1.32869,0.896685,0.62835,0.564287,0.633578,0.231442,0.0567726,0.0419895,0.56686,1.01594,0.073048,0.566793,0.552324,0.667487,0.446498,0.445567,0.225081,0.498793,0.241171,0.139088,0.134388,0.50853,0.669156,0.424252,0.711663,0.903482,0.288262,0.205053,1.13142,0.462587,0.55693,0.736964,0.4177,0.320815,0.992328,0.955823,0.522111,0.293459,0.558086,0.828246,1.07003,0.651613,1.72769,0.799981,0.842798,0.92434,0.57618,0.181334,0.226479,0.876916,1.69384,1.29725,0.834212,1.58373,0.562149,0.439856,0.225756,0.394362,1.65442,0.183006,0.299565,0.0217799,0.0820291,1.63944,0.215456,0.313008,0.762455,0.342508,0.694768,0.516355,0.181136,0.886073,0.622933,0.522515,0.50469,0.436947,0.306938,0.954853,0.275979,0.0629756
}}
}}

Revision as of 18:22, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:61392754..61392766,-p@chr11:61392754..61392766
-
Mm9::chr15:99230200..99230234,+p@chr15:99230200..99230234
+
Mm9::chr16:95500961..95500974,+p9@Kcnj15
Mm9::chr17:28654436..28654449,-p6@Fkbp5
Mm9::chr17:28654454..28654503,-p2@Fkbp5
Mm9::chr19:20567067..20567078,+p6@E030003E18Rik
Mm9::chr19:20567096..20567107,+p3@E030003E18Rik
Mm9::chr19:20567153..20567160,+p7@E030003E18Rik
Mm9::chr19:20567168..20567179,+p5@E030003E18Rik
Mm9::chr1:43198700..43198717,-p@chr1:43198700..43198717
-
Mm9::chr1:74044459..74044466,-p@chr1:74044459..74044466
-
Mm9::chr1:78813484..78813488,+p1@Kcne4
Mm9::chr2:25256065..25256077,+p3@Npdc1
Mm9::chr6:91222464..91222477,+p@chr6:91222464..91222477
+
Mm9::chr8:11449034..11449045,+p@chr8:11449034..11449045
+
Mm9::chr9:102766842..102766853,+p@chr9:102766842..102766853
+
Mm9::chr9:21574473..21574490,-p@chr9:21574473..21574490
-


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:0005249voltage-gated potassium channel activity0.0122444119045219
GO:0030955potassium ion binding0.0122444119045219
GO:0022843voltage-gated cation channel activity0.0122444119045219
GO:0005267potassium channel activity0.0122444119045219
GO:0006813potassium ion transport0.0128416386282628
GO:0022832voltage-gated channel activity0.0128416386282628
GO:0005244voltage-gated ion channel activity0.0128416386282628
GO:0031420alkali metal ion binding0.0128416386282628
GO:0016505apoptotic protease activator activity0.0190961456510468
GO:0005261cation channel activity0.0190961456510468
GO:0022836gated channel activity0.0198529700108855
GO:0046873metal ion transmembrane transporter activity0.0204301555929285
GO:0015672monovalent inorganic cation transport0.0204301555929285
GO:0016504protease activator activity0.0223896866406807
GO:0005216ion channel activity0.0223896866406807
GO:0022838substrate specific channel activity0.0223896866406807
GO:0005242inward rectifier potassium channel activity0.0223896866406807
GO:0030693caspase activity0.0223896866406807
GO:0022803passive transmembrane transporter activity0.0223896866406807
GO:0015267channel activity0.0223896866406807
GO:0030001metal ion transport0.0231536167857767
GO:0008324cation transmembrane transporter activity0.029217087446526
GO:0006812cation transport0.029217087446526
GO:0043281regulation of caspase activity0.0394981256273736
GO:0003755peptidyl-prolyl cis-trans isomerase activity0.0411462600089206
GO:0016859cis-trans isomerase activity0.0411462600089206
GO:0015075ion transmembrane transporter activity0.0446302359362335



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>

Cell Type
Ontology termp-valuen
muscle precursor cell7.78e-076
contractile cell7.78e-076
muscle cell7.78e-076
myoblast7.78e-076

Uber Anatomy
Ontology termp-valuen
cardiovascular system1.76e-0823
circulatory system1.76e-0823
primary circulatory organ5.05e-0718
heart5.05e-0718
primitive heart tube5.05e-0718
primary heart field5.05e-0718
anterior lateral plate mesoderm5.05e-0718
heart tube5.05e-0718
heart primordium5.05e-0718
cardiac mesoderm5.05e-0718
cardiogenic plate5.05e-0718
heart rudiment5.05e-0718


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}}}

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