MCL coexpression mm9:3168: Difference between revisions
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{{MCL_coexpression_mm9 | 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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 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| |||
|coexpression_dpi_cluster_scores_median=-0.129269089024474,-0.529476797198118,-0.366614030906442,-0.836068880500575,-0.748636001658379,-0.264801474582188,-0.148962407306745,-0.520296482969576,-0.766788353779283,-0.543733828274398,-0.988581239336693,-0.608700537530905,-0.599102602809651,-0.441114870226033,-0.128445505063164,-0.223773584651075,-0.149424146031891,-0.937528088096076,-0.881813119497307,-0.823029607042725,0.168376979688613,-0.000177003775228779,-0.120017307139541,-0.123502850483947,-0.161692409065463,-0.529476797198118,-0.259608159187767,-0.0943063870955983,-0.199034508129027,-0.284929931097772,-0.442501377414722,0.152684895881844,0.141732040047232,-0.10987193673795,0.0603071151391246,0.212147753825662,0.100616297995144,-1.15777558553649,-0.897632645187692,-0.863476905226453,-1.42189969755048,-1.42189969755048,-1.25002401465305,0.19125673113494,0.147303338593415,0.228708793888335,0.450517576925638,0.913375328678431,0.844467603865579,0.821657183249163,0.833137855446762,0.795262811351712,-1.1988893515988,-0.589205793334869,-0.750076197954601,0.526148599721266,0.088766723565981,0.193233819985672,0.122033886090037,0.0910700159868338,0.132719394497641,0.498949740617567,0.667416729908598,0.296554522619736,0.351470644595505,0.271058624817406,0.722410587608152,0.813571039573085,6.40524601854819e-05,0.00583085666419136,-0.0419949238543467,0.497083323762263,0.397218625163396,-0.0236712055153662,0.0502391736022583,0.045440263863501,0.560206608668939,0.614622727286609,0.64284912085397,0.191872710595134,0.186777667487129,0.183787464426648,0.559173171110991,0.620187091979955,0.642369225713175,0.413600288269169,0.318138073611786,0.22333857093667,-0.0725291706802278,0.258611362620078,0.0209510954907675,0.727251774627286,1.1157838353417,1.05953559466725,1.01260017064861,1.05562954521979,0.855655454191976,0.363575143004116,0.374384578084878,0.430842222546075,0.00127830636180515,0.440606321943333,0.371564197938093,0.580479519976351,-0.0672062390462442,-0.0594241109592122,-0.142635845622693,0.872181343042268,-0.522204815186128,1.04714151945006,0.475149296989026,0.647419835175503,0.787533857918276,0.817970487586754,0.595656552106692,0.929434376851695,-0.558814330530249,-0.0633081360567262,-0.150239021894405,-0.105184019006786,-0.26806986607222,-0.24403486409991,-0.0725162769595507,0.178002351299589,0.0445679559549423,-0.0110795406950103,-0.496147462842174,-0.705953223744731,-0.685705811218575,0.5042332542086,0.341771271657008,0.108574585919193,0.319677924129665,0.356153726860231,0.520840403275679,0.483507344015913,0.0785240781084808,0.255901860804329,0.61919088556595,-0.329745611135848,-0.0226948340588058,-0.0340437066746895,0.0282152621130856,-0.0472013272223395,0.00825593007524494,-0.0413867024047698,0.00266460541874713,-0.065279567086415,-0.0461660216333522,-0.0075615087736649,-0.117258225497151,-0.164893086619608,-0.195333475161698,-0.190950357283065,-0.0756335897045817,0.0921717846466132,-0.929608829020685,-0.93635099325608,-0.906912826276291,-0.220778197199302,-0.1108738795142,-0.186230240659294,-0.182966162267415,-0.235401365769689,-0.306860807059817,-0.320609930454987,-0.175574699680926,-0.432565558341942,-0.246167973410927,-0.463461339655513,-0.414972842628167,-0.451859852187099,-0.174274772902419,-0.296516345356342,0.372164311579972,0.255851291212611,-0.72597822332331,-0.137534640770537,0.0553258053386885,0.0623413507588797,0.177864482226177,0.28063822330611,0.379870453256236,0.332502174191237,-0.225712429769682,-0.134624175821509,-0.130147316467395,-0.0837779236304722,-0.121285574515193,-0.288888914598107,-0.0296000272170499,-0.247552323053758,-0.074710144914238,0.016397959838415,-0.0297547634021431,-0.0759432839686982,-0.0843822122164084,-0.221355780161651,-0.0887521931536088,0.0157526732988118,0.261578996663816,0.107183922582288,1.27442632019337,0.0544433264237993,0.177132743795346,0.192529917877377,0.259085788137865,0.400574406473368,0.417946471670541,0.604620437055262,0.118731640506082,0.674409522180756,0.890173630085274,1.06192573757672,1.05421864989355,1.06790928606587,1.1946955864322,1.16576055988763,0.212816594077291,-0.0766215985414342,0.0158560353026753,-0.0234203458949761,-0.115590489590469,-0.133523281265513,0.0290493853162429,-0.352514663754672,0.0437313268180102,-0.0574149495413474,-0.0895124740973325,0.00934187705915324,0.0460527711399198,0.0443612664675763,0.228694077435487,0.068266920818713,1.1688008144882,0.656936059915561,0.406815349453935,0.446130928578327,0.362695560085422,-0.36685378922565,0.204291263888245,0.247243552183534,0.290133484329547,0.344159855390606,0.326131469650575,0.346207099525449,0.317196349404452,0.305904088542268,0.335307379123465,0.416737008170376,0.249581918417227,0.160342248348629,-0.0757464236241274,0.206941288864626,-0.162596179141638,-0.0714883812519989,-0.0424691619061266,-0.0904148451116225,0.0288413132987275,0.100292631247389,-0.169235379392194,-0.0918514422620742,-0.0850436701136194,-0.106914992755016,0.18792275657525,0.180252808616497,0.147317301687454,0.0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| |||
|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! | |||
|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 | |||
}} | |||
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 ID | GO name | FDR corrected p-value |
|---|---|---|
| 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 |
| GO:0006633 | fatty acid biosynthetic process | 0.000205094490965306 |
| GO:0046394 | carboxylic acid biosynthetic process | 0.000205094490965306 |
| GO:0016053 | organic acid biosynthetic process | 0.000205094490965306 |
| GO:0020037 | heme binding | 0.000317631118047488 |
| GO:0046906 | tetrapyrrole binding | 0.000317631118047488 |
| GO:0016705 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen | 0.000345614765162237 |
| GO:0006631 | fatty acid metabolic process | 0.000496347398226541 |
| GO:0033559 | unsaturated fatty acid metabolic process | 0.00051797213907552 |
| GO:0006636 | unsaturated fatty acid biosynthetic process | 0.00051797213907552 |
| GO:0016213 | linoleoyl-CoA desaturase activity | 0.00051797213907552 |
| GO:0032787 | monocarboxylic acid metabolic process | 0.00058734442123474 |
| GO:0008610 | lipid biosynthetic process | 0.000665878730180066 |
| GO:0005506 | iron ion binding | 0.000960385390342108 |
| GO:0006118 | electron transport | 0.00102268375246333 |
| GO:0042759 | long-chain fatty acid biosynthetic process | 0.00142430631939206 |
| GO:0006091 | generation of precursor metabolites and energy | 0.00153212140282759 |
| GO:0004768 | stearoyl-CoA 9-desaturase activity | 0.00156283875124613 |
| GO:0019752 | carboxylic acid metabolic process | 0.00156283875124613 |
| GO:0006082 | organic acid metabolic process | 0.00156283875124613 |
| GO:0044255 | cellular lipid metabolic process | 0.00189924604176143 |
| GO:0006629 | lipid metabolic process | 0.00239902661422411 |
| GO:0005783 | endoplasmic reticulum | 0.0031149362027669 |
| GO:0001676 | long-chain fatty acid metabolic process | 0.00332247092140442 |
| GO:0016491 | oxidoreductase activity | 0.00357302698397313 |
| GO:0044249 | cellular biosynthetic process | 0.00424092472185725 |
| GO:0009058 | biosynthetic process | 0.00747993101152702 |
| GO:0006810 | transport | 0.0278685447113121 |
| GO:0046914 | transition metal ion binding | 0.0278685447113121 |
| GO:0051234 | establishment of localization | 0.0279914959145771 |
| GO:0051179 | localization | 0.0345224871427369 |
| GO:0044444 | cytoplasmic part | 0.0455975566128692 |
| GO:0043169 | cation binding | 0.0471255320321226 |
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>
| Ontology term | p-value | n |
|---|---|---|
| non-terminally differentiated cell | 1.12e-11 | 49 |
| neural cell | 1.44e-10 | 43 |
| ectodermal cell | 2.10e-10 | 44 |
| neurectodermal cell | 2.10e-10 | 44 |
| embryonic cell | 2.89e-10 | 70 |
| electrically responsive cell | 7.20e-08 | 39 |
| electrically active cell | 7.20e-08 | 39 |
| neuron | 7.96e-07 | 33 |
| neuronal stem cell | 7.96e-07 | 33 |
| neuroblast | 7.96e-07 | 33 |
| electrically signaling cell | 7.96e-07 | 33 |
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) |
|---|---|
| MA0003.1 | 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 |
