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MCL coexpression mm9:1239: Difference between revisions

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|ontology_enrichment_uberon=
|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.473747,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.283981,0.599767,0.632897,0.692139,0.6581,0.955327,0,0.856992,0.89822,0.232269,0.86893,0.426133,0.713088,0.657163,0.91309,0.472505,0.686615,1.1909,0.572827,1.02135,0.534301,0.558142,0.960397,0.336199,1.11492,0.364821,0.607065,0.326478,0.629145,0.820134,0.27383,0.342638,0.56353,0.327433,0.366415,1.02402,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,1.50238,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.740068,1.156,0.208101,0.57254,1.11463,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.768392,0.479018,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.685716,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.90315,0.247162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,1.25623,0.348692,0.540361,0.667976,1.10596,0.783181,1.62569,1.18867,0.71546,0.376898,1.22669,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,1.73883
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.473747,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.283981,0.599767,0.632897,0.692139,0.6581,0.955327,0,0.856992,0.89822,0.232269,0.86893,0.426133,0.713088,0.657163,0.91309,0.472505,0.686615,1.1909,0.572827,1.02135,0.534301,0.558142,0.960397,0.336199,1.11492,0.364821,0.607065,0.326478,0.629145,0.820134,0.27383,0.342638,0.56353,0.327433,0.366415,1.02402,0.524258,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,1.50238,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.740068,1.156,0.208101,0.57254,1.11463,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.768392,0.479018,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.685716,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.90315,0.247162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,1.25623,0.348692,0.540361,0.667976,1.10596,0.783181,1.62569,1.18867,0.71546,0.376898,1.22669,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,1.73883
|tfbs_overrepresentation_jaspar=MA0003.1;0.276983,MA0004.1;0.536396,MA0006.1;0.359699,MA0007.1;0.52077,MA0009.1;0.987341,MA0014.1;0.304529,MA0017.1;0.387481,MA0019.1;0.800946,MA0024.1;0.942716,MA0025.1;1.22395,MA0027.1;2.64231,MA0028.1;0.969171,MA0029.1;0.920529,MA0030.1;0.927235,MA0031.1;0.890871,MA0038.1;0.686534,MA0040.1;1.00009,MA0041.1;0.457338,MA0042.1;0.443591,MA0043.1;1.08567,MA0046.1;1.02391,MA0048.1;0.486223,MA0050.1;0.57678,MA0051.1;0.695779,MA0052.1;1.00829,MA0055.1;0.212634,MA0056.1;0,MA0057.1;0.457693,MA0058.1;0.436487,MA0059.1;0.449345,MA0060.1;0.757042,MA0061.1;1.49922,MA0063.1;0,MA0066.1;0.675169,MA0067.1;1.33603,MA0068.1;0.153907,MA0069.1;1.00864,MA0070.1;0.998765,MA0071.1;0.575909,MA0072.1;0.990133,MA0073.1;0.270597,MA0074.1;0.638014,MA0076.1;0.407465,MA0077.1;0.968053,MA0078.1;0.729877,MA0081.1;0.473489,MA0083.1;1.08487,MA0084.1;1.66561,MA0087.1;1.04109,MA0088.1;0.111145,MA0089.1;0,MA0090.1;0.500693,MA0091.1;0.55008,MA0092.1;0.501022,MA0093.1;0.379257,MA0095.1;0,MA0098.1;0,MA0100.1;0.626021,MA0101.1;1.16089,MA0103.1;0.398766,MA0105.1;0.57901,MA0106.1;0.737893,MA0107.1;1.0169,MA0108.2;1.92698,MA0109.1;0,MA0111.1;0.515457,MA0113.1;0.708789,MA0114.1;0.304661,MA0115.1;1.08851,MA0116.1;0.359483,MA0117.1;1.05576,MA0119.1;0.459301,MA0122.1;1.07591,MA0124.1;1.28237,MA0125.1;1.20757,MA0130.1;0,MA0131.1;0.796279,MA0132.1;0,MA0133.1;0,MA0135.1;1.1226,MA0136.1;0.658622,MA0139.1;0.243463,MA0140.1;0.625902,MA0141.1;0.419361,MA0142.1;0.876028,MA0143.1;0.725672,MA0144.1;0.307873,MA0145.1;0.761789,MA0146.1;1.41218,MA0147.1;0.858298,MA0148.1;0.553294,MA0149.1;0.464445,MA0062.2;0.591842,MA0035.2;0.630778,MA0039.2;0.181031,MA0138.2;0.788113,MA0002.2;0.246463,MA0137.2;0.416331,MA0104.2;0.723439,MA0047.2;0.685741,MA0112.2;0.76177,MA0065.2;0.380324,MA0150.1;0.520653,MA0151.1;0,MA0152.1;0.685852,MA0153.1;1.13945,MA0154.1;0.933846,MA0155.1;0.414701,MA0156.1;0.406559,MA0157.1;0.843181,MA0158.1;0,MA0159.1;0.331229,MA0160.1;0.556423,MA0161.1;0,MA0162.1;0.176524,MA0163.1;0.372305,MA0164.1;0.658997,MA0080.2;0.393257,MA0018.2;0.669032,MA0099.2;0.781628,MA0079.2;0.0267793,MA0102.2;1.7182,MA0258.1;0.790457,MA0259.1;0.309517,MA0442.1;0
}}
}}

Revision as of 13:01, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:29033033..29033044,+p4@Echdc1
Mm9::chr11:120677718..120677738,-p@chr11:120677718..120677738
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Mm9::chr11:120678463..120678477,-p@chr11:120678463..120678477
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Mm9::chr11:120679899..120679911,-p@chr11:120679899..120679911
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Mm9::chr11:120681605..120681624,-p@chr11:120681605..120681624
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Mm9::chr11:120685412..120685430,-p1@Fasn


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:00043173-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity0.000803498870553531
GO:0004319enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity0.000803498870553531
GO:00191713-hydroxyacyl-[acyl-carrier-protein] dehydratase activity0.000803498870553531
GO:0016631enoyl-[acyl-carrier-protein] reductase activity0.000803498870553531
GO:0004313[acyl-carrier-protein] S-acetyltransferase activity0.000803498870553531
GO:00043163-oxoacyl-[acyl-carrier-protein] reductase activity0.000803498870553531
GO:0004314[acyl-carrier-protein] S-malonyltransferase activity0.000803498870553531
GO:0016418S-acetyltransferase activity0.000803498870553531
GO:0031177phosphopantetheine binding0.000803498870553531
GO:0016419S-malonyltransferase activity0.000803498870553531
GO:0042587glycogen granule0.000803498870553531
GO:0016297acyl-[acyl-carrier-protein] hydrolase activity0.000803498870553531
GO:00043153-oxoacyl-[acyl-carrier-protein] synthase activity0.000803498870553531
GO:0004320oleoyl-[acyl-carrier-protein] hydrolase activity0.000803498870553531
GO:0016420malonyltransferase activity0.000803498870553531
GO:0016417S-acyltransferase activity0.00177227831245159
GO:0004312fatty-acid synthase activity0.00177227831245159
GO:0016628oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor0.00502007947745704
GO:0016627oxidoreductase activity, acting on the CH-CH group of donors0.0133065681477556
GO:0016836hydro-lyase activity0.0147452817551305
GO:0016407acetyltransferase activity0.0161360480054141
GO:0016835carbon-oxygen lyase activity0.0161360480054141
GO:0006633fatty acid biosynthetic process0.0175623990263522
GO:0046394carboxylic acid biosynthetic process0.0175623990263522
GO:0016053organic acid biosynthetic process0.0175623990263522
GO:0016790thiolester hydrolase activity0.0203484562106651
GO:0019842vitamin binding0.0233692564329233
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor0.0236044754148206
GO:0016614oxidoreductase activity, acting on CH-OH group of donors0.0246491106439858
GO:0016829lyase activity0.0301681293013406
GO:0006631fatty acid metabolic process0.0301681293013406
GO:0048037cofactor binding0.0301681293013406
GO:0008415acyltransferase activity0.0301681293013406
GO:0016747transferase activity, transferring groups other than amino-acyl groups0.0301681293013406
GO:0016746transferase activity, transferring acyl groups0.0304999738833587
GO:0032787monocarboxylic acid metabolic process0.0354491625982649
GO:0008610lipid biosynthetic process0.0381912467386299



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><br><br>


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)
MA0003.10.276983
MA0004.10.536396
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.10.304529
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.969171
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
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.212634
MA0056.10
MA0057.10.457693
MA0058.10.436487
MA0059.10.449345
MA0060.10.757042
MA0061.11.49922
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.270597
MA0074.10.638014
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.111145
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.11.16089
MA0103.10.398766
MA0105.10.57901
MA0106.10.737893
MA0107.11.0169
MA0108.21.92698
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.304661
MA0115.11.08851
MA0116.10.359483
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
MA0139.10.243463
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.307873
MA0145.10.761789
MA0146.11.41218
MA0147.10.858298
MA0148.10.553294
MA0149.10.464445
MA0062.20.591842
MA0035.20.630778
MA0039.20.181031
MA0138.20.788113
MA0002.20.246463
MA0137.20.416331
MA0104.20.723439
MA0047.20.685741
MA0112.20.76177
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.933846
MA0155.10.414701
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.10.176524
MA0163.10.372305
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.20.0267793
MA0102.21.7182
MA0258.10.790457
MA0259.10.309517
MA0442.10
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