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MCL coexpression mm9:1455: Difference between revisions

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{{MCL_coexpression_mm9
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acid metabolic process;0.00335232242348332;12896,15107!GO:0032787;monocarboxylic acid metabolic process;0.00335232242348332;12896,15107!GO:0005743;mitochondrial inner membrane;0.00335232242348332;15107,57279!GO:0019866;organelle inner membrane;0.00335232242348332;15107,57279!GO:0031966;mitochondrial membrane;0.00335232242348332;15107,57279!GO:0005740;mitochondrial envelope;0.00335232242348332;15107,57279!GO:0004095;carnitine O-palmitoyltransferase activity;0.00335232242348332;12896!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.00335232242348332;15107!GO:0016416;O-palmitoyltransferase activity;0.00335232242348332;12896!GO:0044429;mitochondrial part;0.00410810615792097;15107,57279!GO:0016406;carnitine O-acyltransferase activity;0.0041899438406562;12896!GO:0031975;envelope;0.00453799157182207;15107,57279!GO:0031967;organelle envelope;0.00453799157182207;15107,57279!GO:0019752;carboxylic acid metabolic process;0.00565429891753072;12896,15107!GO:0006082;organic acid metabolic 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|gostat_on_MCL_coexpression=GO:0005739;mitochondrion;0.00335232242348332;12896,15107,57279!GO:0006631;fatty acid metabolic process;0.00335232242348332;12896,15107!GO:0032787;monocarboxylic acid metabolic process;0.00335232242348332;12896,15107!GO:0005743;mitochondrial inner membrane;0.00335232242348332;15107,57279!GO:0019866;organelle inner membrane;0.00335232242348332;15107,57279!GO:0031966;mitochondrial membrane;0.00335232242348332;15107,57279!GO:0005740;mitochondrial envelope;0.00335232242348332;15107,57279!GO:0004095;carnitine O-palmitoyltransferase activity;0.00335232242348332;12896!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.00335232242348332;15107!GO:0016416;O-palmitoyltransferase activity;0.00335232242348332;12896!GO:0044429;mitochondrial part;0.00410810615792097;15107,57279!GO:0016406;carnitine O-acyltransferase activity;0.0041899438406562;12896!GO:0031975;envelope;0.00453799157182207;15107,57279!GO:0031967;organelle envelope;0.00453799157182207;15107,57279!GO:0019752;carboxylic acid metabolic process;0.00565429891753072;12896,15107!GO:0006082;organic acid metabolic process;0.00565429891753072;12896,15107!GO:0044255;cellular lipid metabolic process;0.00661243880005698;12896,15107!GO:0031090;organelle membrane;0.00661243880005698;15107,57279!GO:0016409;palmitoyltransferase activity;0.00661243880005698;12896!GO:0006629;lipid metabolic process;0.007600041905139;12896,15107!GO:0044444;cytoplasmic part;0.0114105288159519;12896,15107,57279!GO:0008374;O-acyltransferase activity;0.0114120987087785;12896!GO:0016616;oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor;0.0396417957725654;15107!GO:0050662;coenzyme binding;0.0396417957725654;15107!GO:0016614;oxidoreductase activity, acting on CH-OH group of donors;0.0396417957725654;15107!GO:0005737;cytoplasm;0.0483821185722341;12896,15107,57279!GO:0048037;cofactor binding;0.0489670450367433;15107!GO:0008415;acyltransferase activity;0.0489670450367433;12896!GO:0016747;transferase activity, transferring groups other than amino-acyl groups;0.0489670450367433;12896!GO:0016746;transferase activity, transferring acyl groups;0.0492535389499352;12896!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!7.70e-13!31;UBERON:0005409!8.99e-10!47;UBERON:0003914!6.10e-09!47;UBERON:0009854!5.95e-08!23;UBERON:0009856!5.95e-08!23;UBERON:0000344!1.13e-07!15;UBERON:0002365!1.63e-07!25;UBERON:0002330!1.63e-07!25;UBERON:0002107!1.90e-07!22;UBERON:0007499!1.90e-07!22;UBERON:0006925!1.90e-07!22;UBERON:0009497!1.90e-07!22;UBERON:0000015!1.90e-07!22;UBERON:0002423!1.90e-07!22;UBERON:0006235!1.90e-07!22;UBERON:0008835!1.90e-07!22;UBERON:0003894!1.90e-07!22;UBERON:0004161!1.90e-07!22;UBERON:0008836!1.90e-07!22;UBERON:0001242!8.62e-07!13;UBERON:0000060!8.62e-07!13;UBERON:0001262!8.62e-07!13;UBERON:0004786!8.62e-07!13
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.473747,0.464605,0.535892,0.346849,0.550971,0.645383,0.691572,0.257202,0.0835344,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.656199,0.442204,0.426133,1.17476,1.58083,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.534301,0.558142,0.960397,0.892985,0.204204,4.55385,0.951637,0.326478,0.629145,1.48701,0.27383,0.907317,0.56353,0.327433,0.959963,2.48719,1.30113,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,1.04848,0.619643,0.614918,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,0.11437,1.156,0.208101,1.08629,0.204132,0.763395,0.922432,1.10012,0.254777,0.874787,0.722675,0.240896,1.03903,0.768392,0.0610418,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.685716,0.976308,0.775372,0.938145,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,1.10269,0.605144,1.33732,2.45028,0.0704207,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,1.38533,0.778321,2.10357,0.503174,0.348692,0.540361,0.667976,1.10596,0.783181,1.62569,1.18867,0.71546,0.376898,0.48935,1.25034,1.31911,2.36367,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,0.5667
|tfbs_overrepresentation_jaspar=MA0003.1;0.730824,MA0004.1;0.536396,MA0006.1;0.945134,MA0007.1;0.52077,MA0009.1;0.987341,MA0014.1;0.883128,MA0017.1;0.387481,MA0019.1;0.800946,MA0024.1;0.942716,MA0025.1;1.22395,MA0027.1;2.64231,MA0028.1;2.59368,MA0029.1;0.920529,MA0030.1;0.927235,MA0031.1;0.890871,MA0038.1;0.686534,MA0040.1;2.28622,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;1.22706,MA0056.1;0,MA0057.1;0.149949,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;0.467569,MA0069.1;1.00864,MA0070.1;0.998765,MA0071.1;0.575909,MA0072.1;0.990133,MA0073.1;2.47041,MA0074.1;1.54084,MA0076.1;3.77832,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;0.358337,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;0.458688,MA0103.1;0.398766,MA0105.1;1.09694,MA0106.1;0.737893,MA0107.1;1.79828,MA0108.2;0.824407,MA0109.1;0,MA0111.1;0.515457,MA0113.1;0.708789,MA0114.1;0.822296,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;2.74529,MA0140.1;0.625902,MA0141.1;0.419361,MA0142.1;0.876028,MA0143.1;0.725672,MA0144.1;1.502,MA0145.1;0.119202,MA0146.1;1.89206,MA0147.1;0.320675,MA0148.1;0.553294,MA0149.1;0.464445,MA0062.2;5.05991,MA0035.2;0.630778,MA0039.2;10.7159,MA0138.2;0.788113,MA0002.2;0.689262,MA0137.2;1.88035,MA0104.2;0.261255,MA0047.2;0.685741,MA0112.2;2.45463,MA0065.2;1.24784,MA0150.1;1.29346,MA0151.1;0,MA0152.1;0.685852,MA0153.1;1.13945,MA0154.1;0.933846,MA0155.1;0.132921,MA0156.1;1.84703,MA0157.1;0.843181,MA0158.1;0,MA0159.1;0.881902,MA0160.1;0.556423,MA0161.1;0,MA0162.1;4.55334,MA0163.1;0.372305,MA0164.1;0.658997,MA0080.2;0.393257,MA0018.2;0.669032,MA0099.2;0.781628,MA0079.2;4.96575,MA0102.2;1.7182,MA0258.1;0.790457,MA0259.1;0.833237,MA0442.1;0
}}

Latest revision as of 16:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:130974927..130974991,-p1@Hadh
Mm9::chr3:130974995..130974996,-p2@Hadh
Mm9::chr4:107596084..107596100,-p2@Cpt2
Mm9::chr4:107596113..107596122,-p3@Cpt2
Mm9::chr4:107596124..107596220,-p1@Cpt2
Mm9::chr9:108564430..108564550,+p1@Slc25a20


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:0005739mitochondrion0.00335232242348332
GO:0006631fatty acid metabolic process0.00335232242348332
GO:0032787monocarboxylic acid metabolic process0.00335232242348332
GO:0005743mitochondrial inner membrane0.00335232242348332
GO:0019866organelle inner membrane0.00335232242348332
GO:0031966mitochondrial membrane0.00335232242348332
GO:0005740mitochondrial envelope0.00335232242348332
GO:0004095carnitine O-palmitoyltransferase activity0.00335232242348332
GO:00038573-hydroxyacyl-CoA dehydrogenase activity0.00335232242348332
GO:0016416O-palmitoyltransferase activity0.00335232242348332
GO:0044429mitochondrial part0.00410810615792097
GO:0016406carnitine O-acyltransferase activity0.0041899438406562
GO:0031975envelope0.00453799157182207
GO:0031967organelle envelope0.00453799157182207
GO:0019752carboxylic acid metabolic process0.00565429891753072
GO:0006082organic acid metabolic process0.00565429891753072
GO:0044255cellular lipid metabolic process0.00661243880005698
GO:0031090organelle membrane0.00661243880005698
GO:0016409palmitoyltransferase activity0.00661243880005698
GO:0006629lipid metabolic process0.007600041905139
GO:0044444cytoplasmic part0.0114105288159519
GO:0008374O-acyltransferase activity0.0114120987087785
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor0.0396417957725654
GO:0050662coenzyme binding0.0396417957725654
GO:0016614oxidoreductase activity, acting on CH-OH group of donors0.0396417957725654
GO:0005737cytoplasm0.0483821185722341
GO:0048037cofactor binding0.0489670450367433
GO:0008415acyltransferase activity0.0489670450367433
GO:0016747transferase activity, transferring groups other than amino-acyl groups0.0489670450367433
GO:0016746transferase activity, transferring acyl groups0.0492535389499352



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>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
intestine7.70e-1331
gastrointestinal system8.99e-1047
epithelial tube6.10e-0947
digestive tract diverticulum5.95e-0823
sac5.95e-0823
mucosa1.13e-0715
exocrine gland1.63e-0725
exocrine system1.63e-0725
liver1.90e-0722
epithelial sac1.90e-0722
digestive gland1.90e-0722
epithelium of foregut-midgut junction1.90e-0722
anatomical boundary1.90e-0722
hepatobiliary system1.90e-0722
foregut-midgut junction1.90e-0722
hepatic diverticulum1.90e-0722
liver primordium1.90e-0722
septum transversum1.90e-0722
liver bud1.90e-0722
intestinal mucosa8.62e-0713
anatomical wall8.62e-0713
wall of intestine8.62e-0713
gastrointestinal system mucosa8.62e-0713


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)
MA0003.10.730824
MA0004.10.536396
MA0006.10.945134
MA0007.10.52077
MA0009.10.987341
MA0014.10.883128
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.12.59368
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.12.28622
MA0041.10.457338
MA0042.10.443591
MA0043.11.08567
MA0046.11.02391
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.11.22706
MA0056.10
MA0057.10.149949
MA0058.10.436487
MA0059.10.449345
MA0060.10.757042
MA0061.11.49922
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.467569
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.12.47041
MA0074.11.54084
MA0076.13.77832
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.358337
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.379257
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.11.09694
MA0106.10.737893
MA0107.11.79828
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.822296
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
MA0139.12.74529
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.11.502
MA0145.10.119202
MA0146.11.89206
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.25.05991
MA0035.20.630778
MA0039.210.7159
MA0138.20.788113
MA0002.20.689262
MA0137.21.88035
MA0104.20.261255
MA0047.20.685741
MA0112.22.45463
MA0065.21.24784
MA0150.11.29346
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.933846
MA0155.10.132921
MA0156.11.84703
MA0157.10.843181
MA0158.10
MA0159.10.881902
MA0160.10.556423
MA0161.10
MA0162.14.55334
MA0163.10.372305
MA0164.10.658997
MA0080.20.393257
MA0018.20.669032
MA0099.20.781628
MA0079.24.96575
MA0102.21.7182
MA0258.10.790457
MA0259.10.833237
MA0442.10
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