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MCL coexpression mm9:3168: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0016717;oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water;1.12380542994689e-05;76267,56473!GO:0006633;fatty acid biosynthetic process;0.000205094490965306;76267,56473!GO:0046394;carboxylic acid biosynthetic process;0.000205094490965306;76267,56473!GO:0016053;organic acid biosynthetic process;0.000205094490965306;76267,56473!GO:0020037;heme binding;0.000317631118047488;76267,56473!GO:0046906;tetrapyrrole binding;0.000317631118047488;76267,56473!GO:0016705;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen;0.000345614765162237;76267,56473!GO:0006631;fatty acid metabolic process;0.000496347398226541;76267,56473!GO:0033559;unsaturated fatty acid metabolic process;0.00051797213907552;76267!GO:0006636;unsaturated fatty acid biosynthetic process;0.00051797213907552;76267!GO:0016213;linoleoyl-CoA desaturase activity;0.00051797213907552;76267!GO:0032787;monocarboxylic acid metabolic process;0.00058734442123474;76267,56473!GO:0008610;lipid biosynthetic process;0.000665878730180066;76267,56473!GO:0005506;iron ion binding;0.000960385390342108;76267,56473!GO:0006118;electron transport;0.00102268375246333;76267,56473!GO:0042759;long-chain fatty acid biosynthetic process;0.00142430631939206;76267!GO:0006091;generation of precursor metabolites and energy;0.00153212140282759;76267,56473!GO:0004768;stearoyl-CoA 9-desaturase activity;0.00156283875124613;56473!GO:0019752;carboxylic acid metabolic process;0.00156283875124613;76267,56473!GO:0006082;organic acid metabolic process;0.00156283875124613;76267,56473!GO:0044255;cellular lipid metabolic process;0.00189924604176143;76267,56473!GO:0006629;lipid metabolic process;0.00239902661422411;76267,56473!GO:0005783;endoplasmic reticulum;0.0031149362027669;76267,56473!GO:0001676;long-chain fatty acid metabolic process;0.00332247092140442;76267!GO:0016491;oxidoreductase activity;0.00357302698397313;76267,56473!GO:0044249;cellular biosynthetic process;0.00424092472185725;76267,56473!GO:0009058;biosynthetic process;0.00747993101152702;76267,56473!GO:0006810;transport;0.0278685447113121;76267,56473!GO:0046914;transition metal ion binding;0.0278685447113121;76267,56473!GO:0051234;establishment of localization;0.0279914959145771;76267,56473!GO:0051179;localization;0.0345224871427369;76267,56473!GO:0044444;cytoplasmic part;0.0455975566128692;76267,56473!GO:0043169;cation binding;0.0471255320321226;76267,56473!}}
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activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water;1.12380542994689e-05;76267,56473!GO:0006633;fatty acid biosynthetic process;0.000205094490965306;76267,56473!GO:0046394;carboxylic acid biosynthetic process;0.000205094490965306;76267,56473!GO:0016053;organic acid biosynthetic process;0.000205094490965306;76267,56473!GO:0020037;heme binding;0.000317631118047488;76267,56473!GO:0046906;tetrapyrrole binding;0.000317631118047488;76267,56473!GO:0016705;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen;0.000345614765162237;76267,56473!GO:0006631;fatty acid metabolic process;0.000496347398226541;76267,56473!GO:0033559;unsaturated fatty acid metabolic process;0.00051797213907552;76267!GO:0006636;unsaturated fatty acid biosynthetic process;0.00051797213907552;76267!GO:0016213;linoleoyl-CoA desaturase activity;0.00051797213907552;76267!GO:0032787;monocarboxylic acid metabolic process;0.00058734442123474;76267,56473!GO:0008610;lipid biosynthetic process;0.000665878730180066;76267,56473!GO:0005506;iron ion binding;0.000960385390342108;76267,56473!GO:0006118;electron transport;0.00102268375246333;76267,56473!GO:0042759;long-chain fatty acid biosynthetic process;0.00142430631939206;76267!GO:0006091;generation of precursor metabolites and energy;0.00153212140282759;76267,56473!GO:0004768;stearoyl-CoA 9-desaturase activity;0.00156283875124613;56473!GO:0019752;carboxylic acid metabolic process;0.00156283875124613;76267,56473!GO:0006082;organic acid metabolic process;0.00156283875124613;76267,56473!GO:0044255;cellular lipid metabolic process;0.00189924604176143;76267,56473!GO:0006629;lipid metabolic process;0.00239902661422411;76267,56473!GO:0005783;endoplasmic reticulum;0.0031149362027669;76267,56473!GO:0001676;long-chain fatty acid metabolic process;0.00332247092140442;76267!GO:0016491;oxidoreductase activity;0.00357302698397313;76267,56473!GO:0044249;cellular biosynthetic process;0.00424092472185725;76267,56473!GO:0009058;biosynthetic process;0.00747993101152702;76267,56473!GO:0006810;transport;0.0278685447113121;76267,56473!GO:0046914;transition metal ion binding;0.0278685447113121;76267,56473!GO:0051234;establishment of localization;0.0279914959145771;76267,56473!GO:0051179;localization;0.0345224871427369;76267,56473!GO:0044444;cytoplasmic part;0.0455975566128692;76267,56473!GO:0043169;cation binding;0.0471255320321226;76267,56473!|ontology_enrichment_celltype=CL:0000055!1.12e-11!49;CL:0002319!1.44e-10!43;CL:0000221!2.10e-10!44;CL:0000133!2.10e-10!44;CL:0002321!2.89e-10!70;CL:0000393!7.20e-08!39;CL:0000211!7.20e-08!39;CL:0000540!7.96e-07!33;CL:0000047!7.96e-07!33;CL:0000031!7.96e-07!33;CL:0000404!7.96e-07!33|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0001017!3.62e-15!73;UBERON:0001016!4.15e-15!75;UBERON:0000025!7.08e-11!114;UBERON:0002107!1.68e-10!22;UBERON:0007499!1.68e-10!22;UBERON:0006925!1.68e-10!22;UBERON:0009497!1.68e-10!22;UBERON:0000015!1.68e-10!22;UBERON:0002423!1.68e-10!22;UBERON:0006235!1.68e-10!22;UBERON:0008835!1.68e-10!22;UBERON:0003894!1.68e-10!22;UBERON:0004161!1.68e-10!22;UBERON:0008836!1.68e-10!22;UBERON:0005256!1.79e-10!45;UBERON:0002365!1.97e-10!25;UBERON:0002330!1.97e-10!25;UBERON:0000073!5.74e-10!54;UBERON:0009854!6.43e-10!23;UBERON:0009856!6.43e-10!23;UBERON:0004121!9.74e-10!95;UBERON:0000924!9.74e-10!95;UBERON:0006601!9.74e-10!95;UBERON:0001049!4.53e-09!52;UBERON:0005068!4.53e-09!52;UBERON:0006241!4.53e-09!52;UBERON:0007135!4.53e-09!52;UBERON:0004111!6.57e-09!122;UBERON:0005172!8.82e-09!49;UBERON:0005173!8.82e-09!49;UBERON:0002417!8.82e-09!49;UBERON:0000916!8.82e-09!49;UBERON:0002346!4.37e-08!64;UBERON:0003075!4.37e-08!64;UBERON:0007284!4.37e-08!64;UBERON:0002020!1.35e-07!34;UBERON:0000955!1.41e-07!47;UBERON:0006238!1.41e-07!47;UBERON:0002616!2.99e-07!46;UBERON:0003104!8.66e-07!61;UBERON:0009142!8.66e-07!61|tfbs_overrepresentation_for_novel_motifs=0.752782,0.193418,0.722405,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,2.68971,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.275782,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.99159,0.825437,1.24901,0.575271,0.411696,0.608816,0.872889,5.95379,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,1.47707,0.788421,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,7.06659,1.44925,1.07031,1.03818,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.535545,0.568545,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.928366,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,1.79445,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,1.45847,1.36093,0.792832,1.52297,0.955954,1.65529,2.11565,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,0.765221,0.589976,0.38417,2.0485,1.39822,1.28513,0.954936,1.48249,0.993889,0.622823,0.749933,1.79877,1.61484,1.32889,1.21423,1.75703,1.11251,0.94678,0.562367,0.904334,0.421338|tfbs_overrepresentation_jaspar=MA0003.1;5.27617,MA0004.1;0.801718,MA0006.1;0.60285,MA0007.1;0.784593,MA0009.1;1.27673,MA0014.1;0.825079,MA0017.1;0.635031,MA0019.1;1.08369,MA0024.1;1.23079,MA0025.1;1.51835,MA0027.1;2.9431,MA0028.1;0.61552,MA0029.1;1.20789,MA0030.1;1.21482,MA0031.1;1.17722,MA0038.1;0.963265,MA0040.1;1.28983,MA0041.1;1.69964,MA0042.1;1.66761,MA0043.1;1.3775,MA0046.1;1.31428,MA0048.1;0.353763,MA0050.1;0.845669,MA0051.1;0.973068,MA0052.1;1.29825,MA0055.1;0.190475,MA0056.1;0,MA0057.1;0.337566,MA0058.1;0.690848,MA0059.1;0.705317,MA0060.1;1.25521,MA0061.1;0.5406,MA0063.1;0,MA0066.1;0.951196,MA0067.1;1.63197,MA0068.1;0.343188,MA0069.1;1.29861,MA0070.1;1.28847,MA0071.1;0.844726,MA0072.1;1.2796,MA0073.1;0.00834468,MA0074.1;0.911576,MA0076.1;0.657929,MA0077.1;1.2569,MA0078.1;1.0091,MA0081.1;0.732313,MA0083.1;1.37668,MA0084.1;1.96428,MA0087.1;1.33189,MA0088.1;0.766354,MA0089.1;0,MA0090.1;0.762482,MA0091.1;0.816659,MA0092.1;0.762845,MA0093.1;0.62555,MA0095.1;0,MA0098.1;0,MA0100.1;0.89873,MA0101.1;0.71579,MA0103.1;0.647985,MA0105.1;0.405648,MA0106.1;1.01755,MA0107.1;0.640607,MA0108.2;1.10817,MA0109.1;0,MA0111.1;0.778753,MA0113.1;0.986839,MA0114.1;0.537669,MA0115.1;1.38041,MA0116.1;2.49617,MA0117.1;1.34691,MA0119.1;0.716476,MA0122.1;1.36752,MA0124.1;1.57762,MA0125.1;1.5017,MA0130.1;0,MA0131.1;1.07881,MA0132.1;0,MA0133.1;0,MA0135.1;1.4152,MA0136.1;0.933582,MA0139.1;1.16863,MA0140.1;0.898603,MA0141.1;0.671467,MA0142.1;1.16183,MA0143.1;1.00467,MA0144.1;0.541532,MA0145.1;0.292366,MA0146.1;0.900029,MA0147.1;0.556853,MA0148.1;0.820161,MA0149.1;0.722227,MA0062.2;0.412742,MA0035.2;0.903829,MA0039.2;0.181475,MA0138.2;1.07027,MA0002.2;0.466067,MA0137.2;0.668025,MA0104.2;0.48458,MA0047.2;0.962424,MA0112.2;0.29236,MA0065.2;0.79573,MA0150.1;0.784464,MA0151.1;0,MA0152.1;0.962542,MA0153.1;1.43238,MA0154.1;0.925147,MA0155.1;0.312898,MA0156.1;0.656895,MA0157.1;1.12772,MA0158.1;0,MA0159.1;0.569393,MA0160.1;0.823568,MA0161.1;0,MA0162.1;0.166722,MA0163.1;0.927936,MA0164.1;0.933981,MA0080.2;0.64167,MA0018.2;0.944669,MA0099.2;1.06348,MA0079.2;0.890297,MA0102.2;2.01714,MA0258.1;0.520639,MA0259.1;0.543506,MA0442.1;0}}

Latest revision as of 19:41, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr19:10175991..10176022,-p1@Fads2
Mm9::chr19:10257396..10257407,+p4@Fads1
Mm9::chr19:10257411..10257459,+p1@Fads1


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:0016717oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water1.12380542994689e-05
GO:0006633fatty acid biosynthetic process0.000205094490965306
GO:0046394carboxylic acid biosynthetic process0.000205094490965306
GO:0016053organic acid biosynthetic process0.000205094490965306
GO:0020037heme binding0.000317631118047488
GO:0046906tetrapyrrole binding0.000317631118047488
GO:0016705oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen0.000345614765162237
GO:0006631fatty acid metabolic process0.000496347398226541
GO:0033559unsaturated fatty acid metabolic process0.00051797213907552
GO:0006636unsaturated fatty acid biosynthetic process0.00051797213907552
GO:0016213linoleoyl-CoA desaturase activity0.00051797213907552
GO:0032787monocarboxylic acid metabolic process0.00058734442123474
GO:0008610lipid biosynthetic process0.000665878730180066
GO:0005506iron ion binding0.000960385390342108
GO:0006118electron transport0.00102268375246333
GO:0042759long-chain fatty acid biosynthetic process0.00142430631939206
GO:0006091generation of precursor metabolites and energy0.00153212140282759
GO:0004768stearoyl-CoA 9-desaturase activity0.00156283875124613
GO:0019752carboxylic acid metabolic process0.00156283875124613
GO:0006082organic acid metabolic process0.00156283875124613
GO:0044255cellular lipid metabolic process0.00189924604176143
GO:0006629lipid metabolic process0.00239902661422411
GO:0005783endoplasmic reticulum0.0031149362027669
GO:0001676long-chain fatty acid metabolic process0.00332247092140442
GO:0016491oxidoreductase activity0.00357302698397313
GO:0044249cellular biosynthetic process0.00424092472185725
GO:0009058biosynthetic process0.00747993101152702
GO:0006810transport0.0278685447113121
GO:0046914transition metal ion binding0.0278685447113121
GO:0051234establishment of localization0.0279914959145771
GO:0051179localization0.0345224871427369
GO:0044444cytoplasmic part0.0455975566128692
GO:0043169cation binding0.0471255320321226



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
non-terminally differentiated cell1.12e-1149
neural cell1.44e-1043
ectodermal cell2.10e-1044
neurectodermal cell2.10e-1044
embryonic cell2.89e-1070
electrically responsive cell7.20e-0839
electrically active cell7.20e-0839
neuron7.96e-0733
neuronal stem cell7.96e-0733
neuroblast7.96e-0733
electrically signaling cell7.96e-0733

Uber Anatomy
Ontology termp-valuen
central nervous system3.62e-1573
nervous system4.15e-1575
tube7.08e-11114
liver1.68e-1022
epithelial sac1.68e-1022
digestive gland1.68e-1022
epithelium of foregut-midgut junction1.68e-1022
anatomical boundary1.68e-1022
hepatobiliary system1.68e-1022
foregut-midgut junction1.68e-1022
hepatic diverticulum1.68e-1022
liver primordium1.68e-1022
septum transversum1.68e-1022
liver bud1.68e-1022
trunk mesenchyme1.79e-1045
exocrine gland1.97e-1025
exocrine system1.97e-1025
regional part of nervous system5.74e-1054
digestive tract diverticulum6.43e-1023
sac6.43e-1023
ectoderm-derived structure9.74e-1095
ectoderm9.74e-1095
presumptive ectoderm9.74e-1095
neural tube4.53e-0952
neural rod4.53e-0952
future spinal cord4.53e-0952
neural keel4.53e-0952
anatomical conduit6.57e-09122
abdomen element8.82e-0949
abdominal segment element8.82e-0949
abdominal segment of trunk8.82e-0949
abdomen8.82e-0949
neurectoderm4.37e-0864
neural plate4.37e-0864
presumptive neural plate4.37e-0864
gray matter1.35e-0734
brain1.41e-0747
future brain1.41e-0747
regional part of brain2.99e-0746
mesenchyme8.66e-0761
entire embryonic mesenchyme8.66e-0761


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)
MA0003.15.27617
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.10.825079
MA0017.10.635031
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.10.61552
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.11.69964
MA0042.11.66761
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.190475
MA0056.10
MA0057.10.337566
MA0058.10.690848
MA0059.10.705317
MA0060.11.25521
MA0061.10.5406
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.10.343188
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.00834468
MA0074.10.911576
MA0076.10.657929
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.11.37668
MA0084.11.96428
MA0087.11.33189
MA0088.10.766354
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.10.778753
MA0113.10.986839
MA0114.10.537669
MA0115.11.38041
MA0116.12.49617
MA0117.11.34691
MA0119.10.716476
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.11.16863
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.10.292366
MA0146.10.900029
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.20.412742
MA0035.20.903829
MA0039.20.181475
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.20.48458
MA0047.20.962424
MA0112.20.29236
MA0065.20.79573
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.925147
MA0155.10.312898
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.10.166722
MA0163.10.927936
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.20.890297
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
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