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MCL coexpression mm9:1234: Difference between revisions

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{{MCL_coexpression_mm9
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binding;0.0127348408191326;13014!GO:0008475;procollagen-lysine 5-dioxygenase activity;0.0127348408191326;26433!GO:0010008;endosome membrane;0.0127348408191326;12512!GO:0044440;endosomal part;0.0127348408191326;12512!GO:0031418;L-ascorbic acid binding;0.0356126357062929;26433!GO:0016706;oxidoreductase 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 donors;0.0356126357062929;26433!GO:0005770;late endosome;0.0356126357062929;12512!GO:0004869;cysteine protease inhibitor activity;0.0356126357062929;13014!GO:0008344;adult locomotory behavior;0.0474470832588804;13014!GO:0016702;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen;0.0476580977648303;26433!GO:0051213;dioxygenase activity;0.0476580977648303;26433!GO:0016701;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen;0.0476580977648303;26433!GO:0030534;adult 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|gostat_on_MCL_coexpression=GO:0002020;protease binding;0.0127348408191326;13014!GO:0008475;procollagen-lysine 5-dioxygenase activity;0.0127348408191326;26433!GO:0010008;endosome membrane;0.0127348408191326;12512!GO:0044440;endosomal part;0.0127348408191326;12512!GO:0031418;L-ascorbic acid binding;0.0356126357062929;26433!GO:0016706;oxidoreductase 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 donors;0.0356126357062929;26433!GO:0005770;late endosome;0.0356126357062929;12512!GO:0004869;cysteine protease inhibitor activity;0.0356126357062929;13014!GO:0008344;adult locomotory behavior;0.0474470832588804;13014!GO:0016702;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen;0.0476580977648303;26433!GO:0051213;dioxygenase activity;0.0476580977648303;26433!GO:0016701;oxidoreductase activity, acting on single donors with incorporation of molecular oxygen;0.0476580977648303;26433!GO:0030534;adult behavior;0.0476580977648303;13014!
|ontology_enrichment_celltype=CL:0000333!1.54e-07!10;CL:0000095!1.54e-07!10;CL:0000243!1.54e-07!10;CL:0000123!1.54e-07!10;CL:0000125!1.54e-07!10;CL:0000030!1.54e-07!10;CL:0000339!1.54e-07!10
|ontology_enrichment_disease=
|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
}}

Latest revision as of 16:36, 17 September 2013


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)
MA0003.10.135108
MA0004.11.3269
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.12.76368
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.370592
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.11.02391
MA0048.11.50576
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.11.71525
MA0056.10
MA0057.10.895081
MA0058.13.94958
MA0059.14.02467
MA0060.10.275911
MA0061.10.307097
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.0198269
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.11.74419
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.12.63488
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.10.199622
MA0106.10.737893
MA0107.10.392331
MA0108.20.824407
MA0109.10
MA0111.11.2824
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.12.54057
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.10.682297
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.13.16739
MA0145.13.15794
MA0146.12.42438
MA0147.10.858298
MA0148.10.553294
MA0149.11.17328
MA0062.20.204999
MA0035.20.630778
MA0039.23.08685
MA0138.20.788113
MA0002.20.246463
MA0137.22.80903
MA0104.21.33199
MA0047.20.685741
MA0112.21.24549
MA0065.21.24784
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.480757
MA0155.11.33283
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.11.36931
MA0161.10
MA0162.12.04167
MA0163.10.163321
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.21.83891
MA0079.23.41496
MA0102.21.7182
MA0258.10.290587
MA0259.11.5079
MA0442.10
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