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MCL coexpression mm9:460: Difference between revisions

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{{MCL_coexpression_mm9
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binding;3.08264671866295e-06;19692,30053,19694,19693!GO:0030246;carbohydrate binding;6.36811064614988e-06;19692,30053,19694,19693!GO:0005615;extracellular space;0.0105805068748342;19692,30053,19694,19693!GO:0044421;extracellular region part;0.0105805068748342;19692,30053,19694,19693!GO:0006953;acute-phase response;0.0252677257855688;19694!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0001264!5.43e-17!12;UBERON:0000160!1.97e-14!31;UBERON:0005409!1.50e-13!47;UBERON:0002075!3.05e-10!19;UBERON:0000344!6.15e-09!15;UBERON:0001962!6.09e-07!2;UBERON:0001961!6.09e-07!2;UBERON:0001744!6.09e-07!2|tfbs_overrepresentation_for_novel_motifs=0.19013,0.00185571,0.171413,1.18186,0.325044,0.232532,0.305009,0.186307,0.439801,0.0241551,0.26934,0.295134,0.0498401,0.315149,0.108498,0,0.482714,0.645746,0.167127,0.0703027,0.146132,0.0408122,0.3144,0.663197,0.176763,0.338177,0.644752,0.248835,0.397744,0.490013,0.237846,0.574932,0.0927567,0.133454,0.108791,0.0161089,0.0875334,0.292182,0.55598,0.0613737,1.61024,0.241862,0.034405,0.354562,0.0559452,0.213039,0.41191,0.26128,0.491562,0.402574,0.467043,0.360991,0.247305,0.7073,0.723811,0.321095,1.33918,0.284741,0.145788,0.319396,0.556492,0.369066,1.23635,0.456979,0.330403,0.493315,0.854035,1.19441,0.552202,1.05011,0.158281,1.15547,0.261967,0.755651,0.0343898,0.0305002,0.0329844,0.401969,0.540754,0.148967,0.433876,0.498379,0.963084,0.400248,0.646739,0.0847426,0.0019315,0.107772,0.416206,1.35441,0.92132,0.6514,0.586758,1.13179,0.073664,0.231057,0.183077,0.589355,0.412133,0.0193059,0.295113,0.574674,0.690844,0.467576,1.17798,0.241519,0.52055,0.25809,0.152257,0.147333,0.185018,0.692526,0.149729,0.273484,2.13952,0.0952498,0.0551807,0.224335,0.483885,0.0854853,1.79591,0.438354,0.339713,0.40118,0.980682,0.544138,0.311744,0.580495,0.852575,0.339019,0.67485,0.215942,0.824167,0.332514,0.949083,0.00756838,0.571001,0.24296,0.901468,1.71991,1.32292,0.85857,0.349901,0.584599,0.46084,0.242215,0.414644,1.68046,0.198013,0.0996378,0.0261402,0.212292,0.708784,0.0677483,0.331737,0.786435,0.94989,0.115836,0.188342,0.196072,0.910663,0.645939,0.544546,0.183389,0.457889,0.325532,0.611396,0.293837,0.081468|tfbs_overrepresentation_jaspar=MA0003.1;0.0040136,MA0004.1;0.221835,MA0006.1;0.105852,MA0007.1;0.210531,MA0009.1;0.599391,MA0014.1;0.0122179,MA0017.1;0.122138,MA0019.1;0.434009,MA0024.1;0.558971,MA0025.1;0.819843,MA0027.1;2.21717,MA0028.1;0.112137,MA0029.1;0.53905,MA0030.1;0.545058,MA0031.1;0.512616,MA0038.1;0.33811,MA0040.1;0.611015,MA0041.1;0.498821,MA0042.1;1.48217,MA0043.1;0.689898,MA0046.1;0.632833,MA0048.1;0.0196258,MA0050.1;0.701661,MA0051.1;0.345658,MA0052.1;0.618515,MA0055.1;0.189769,MA0056.1;0,MA0057.1;0.0166073,MA0058.1;0.152805,MA0059.1;0.942177,MA0060.1;0.0623353,MA0061.1;0.267107,MA0063.1;0,MA0066.1;0.328887,MA0067.1;0.92691,MA0068.1;0.0798662,MA0069.1;0.618831,MA0070.1;0.609808,MA0071.1;0.251158,MA0072.1;0.601934,MA0073.1;0.000442205,MA0074.1;0.299171,MA0076.1;0.134359,MA0077.1;0.581866,MA0078.1;0.976277,MA0081.1;0.177433,MA0083.1;0.68915,MA0084.1;1.24749,MA0087.1;0.648637,MA0088.1;0.00828903,MA0089.1;0,MA0090.1;0.196267,MA0091.1;0.231874,MA0092.1;0.571528,MA0093.1;0.11723,MA0095.1;0,MA0098.1;0,MA0100.1;0.289731,MA0101.1;0.501038,MA0103.1;1.30811,MA0105.1;0.0314205,MA0106.1;0.380511,MA0107.1;0.394565,MA0108.2;1.15138,MA0109.1;0,MA0111.1;0.206727,MA0113.1;0.937714,MA0114.1;0.558421,MA0115.1;0.692537,MA0116.1;0.105729,MA0117.1;0.662171,MA0119.1;0.16785,MA0122.1;0.680832,MA0124.1;0.875485,MA0125.1;0.804312,MA0130.1;0,MA0131.1;0.43,MA0132.1;0,MA0133.1;0,MA0135.1;0.724328,MA0136.1;0.84684,MA0139.1;0.181201,MA0140.1;0.788302,MA0141.1;0.141822,MA0142.1;0.499475,MA0143.1;0.96857,MA0144.1;3.94708,MA0145.1;0.00977282,MA0146.1;0.00479338,MA0147.1;0.286569,MA0148.1;1.23068,MA0149.1;0.171305,MA0062.2;0.134374,MA0035.2;0.796986,MA0039.2;0.0201111,MA0138.2;0.423003,MA0002.2;0.413675,MA0137.2;2.66892,MA0104.2;0.204256,MA0047.2;0.337465,MA0112.2;0.135501,MA0065.2;0.136177,MA0150.1;0.210447,MA0151.1;0,MA0152.1;0.337555,MA0153.1;0.740107,MA0154.1;0.0850581,MA0155.1;0.0605786,MA0156.1;1.3383,MA0157.1;0.47062,MA0158.1;0,MA0159.1;0.0900717,MA0160.1;0.23657,MA0161.1;0,MA0162.1;0.0258446,MA0163.1;0.00566486,MA0164.1;0.315868,MA0080.2;1.2868,MA0018.2;0.323932,MA0099.2;0.417463,MA0079.2;5.98769e-06,MA0102.2;1.29919,MA0258.1;0.0692929,MA0259.1;0.0787033,MA0442.1;0}}
|coexpression_dpi_cluster_scores_mean=-0.00215942642863434,0.135493900688645,0.199212444080639,0.252617128684127,0.255831099948284,0.1026657321559,0.172071625032588,0.0322769462611798,0.105839011022399,0.094521830669957,0.0337820966684133,0.040575123858396,0.0271307182378376,0.0182669161389559,0.0149174166289412,0.00475368357496267,0.014940893418254,1.24434327497536e-05,-0.000361172853749342,-0.00448965021496393,0.0203592695899293,0.00344136616069366,-0.007192677843616,0.28048819697957,0.283926179512718,0.201100274251227,0.204596723099169,0.20138552066303,0.230343410021785,0.191391496089017,0.159708553114867,0.0116097991424353,0.00958415279567713,0.00305074787926546,0.0470858776519703,0.0711698848813372,0.0279013867811502,-0.0274567509023077,-0.0166115435779786,-0.0115824700733499,-0.0370209224156211,-0.0174843626855534,-0.0177600629326829,0.00113434701852254,0.00161128946567245,0.000880544524456419,-0.000788635094486106,-0.00673152263072494,0.00442338082880727,0.000510860176230948,-0.00685634593461881,-0.00534177863037882,0.00703181566268218,0.00960111704822206,0.0360532553861419,-0.00403688941970696,-0.00478728273783891,-0.00236363119576367,0.00225533483652493,0.00394979316104871,-0.00280330257269543,0.0107098588128406,0.00800239318877837,0.00505053249927123,0.00381707426517019,-0.00115977028774157,-0.00178091822503786,0.00414611378808598,0.00400768964928189,0.00273767124316092,0.00111474432880601,0.00444615268841122,0.00163801909373175,-0.00292733954808259,0.00143597227696531,-0.0168487524842292,0.00136835227998307,0.0123603318276822,0.00825484377541594,0.00419445600033316,0.00435162603269687,-0.00158151281050691,0.00494555150742772,-0.00936163757700731,0.00248172980150064,0.00290835215564132,0.0032120837635837,0.00912027988656769,0.0173869981724689,0.00808528126951632,-0.00883030879725363,0.00773753692514963,0.0225068928404062,0.0300765463294226,0.0470147318177265,0.0295659061643681,0.0733426947074603,-0.0172332297733328,-0.0185216302231396,-0.0172326248587735,-0.00467181839368554,-0.0117323806970954,-0.00847435409226381,0.00607749276072934,-0.0104066631976729,-0.0079824255980505,-0.00868260833033494,0.129016573564272,-0.0303695912059685,0.00197912996233954,0.00352144395764385,-0.00659023849912312,0.00296592764271948,-0.00757949159585956,0.00240344200729353,0.00780218440516213,0.000418624198245218,-0.0119912036613689,-0.00852310941218563,0.0122042277811368,0.0108764100913764,0.0284852910004031,0.108029983423821,-0.000380057753116239,-0.00529801489135753,0.562797737720475,0.00124711900911644,-0.0134583485867133,0.00181635184493836,-0.00299807811245056,-0.00347931038426592,0.00883063061393425,-0.0036868618305779,0.000620233326552311,0.00347152744596996,0.00286621425644499,0.00164194606704161,0.000927000879053687,-0.000156731726786124,-0.00517469324220702,0.00756603035390806,0.00493348763105008,0.00568149922721027,-0.00215097145072056,0.000190103729112863,0.00326314801987307,-0.000365708545392293,-0.00502370993036761,-0.00316346563681057,-0.00866550881706006,-0.00568631365038547,-0.011720442643122,-0.00373059937538271,0.000628478953009656,-0.00746381353033419,-0.00592424894455472,-0.00940721334792294,-0.00897258886145698,0.00171068983979006,-0.00246517318963711,-0.00616903760687415,-0.00402782266834879,-0.00116883100552005,-0.00599337695386051,-0.00350286261900354,0.00228379443654437,-0.00132596423734603,-0.00430279652929732,0.00170468997167392,-0.00610623208759176,0.0033864681831957,0.00128698089593678,-0.0040712676218253,-0.000285306402408467,-0.00766827767549462,0.00128452665853221,0.568903347498237,0.302776535538459,-0.00277443136650825,-0.00406900002952076,0.0104310934111453,0.0155299187115079,0.00103296251679386,0.0164733695279852,0.588172433476148,0.0218413929226135,0.11659902884549,0.0867192274228332,0.156312233006957,0.506805166181298,0.253005956987079,0.284198778686426,-0.0170274537661554,-0.00577406665504079,0.00293580053954572,-0.0136080226308619,-0.00801060243732331,0.00603490367923993,0.000136599845168556,0.000511224650299019,0.000326221508208171,-0.00298957896271166,0.0652315798404327,0.0442882530925444,0.0327987785956222,0.0313447609269458,0.0326291146786194,0.0202148985761208,0.0187883096003564,0.0140748215168747,0.00378201780590151,0.00638334296091919,0.016036831169516,0.0154410356683741,0.0312786013433685,0.0450662830944439,0.0275889564406372,0.050745881689511,-0.00717695776095087,-0.00885569223368994,0.000573847539678762,-0.008493411670369,-0.00755377090485656,-0.00757381968863881,-0.0115532026304273,0.00945226658986075,-0.00623139494039681,-0.00456548842969986,0.0032118339045131,-0.00361662864193295,-0.0022431557734071,-0.00240021260128921,-0.0188869588435607,-0.000450787664410187,0.0138657471125798,0.0104499400865222,-0.00295494077060086,0.00525340597398698,0.00300347711682261,0.0128716111354859,-0.00639665133986325,-0.00908023414702912,0,-0.00233828128821752,-0.00119819306410478,0.00465427732479348,0.000846744269085819,0.00169413293155088,-0.000144396160331142,-0.00705964402194075,-0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|coexpression_dpi_cluster_scores_median=0,0,0,0.0740313470665517,0,0.0673979504369913,0.0455894054315693,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0602844726045145,0.0820006403388415,0,0,0.0423723422916016,0,0,0,0,0,0,0,0.0333929694362378,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.394569941620689,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.394695174317914,0,0,0,0,0,0,0,0.52797066997704,0,0.0973736644748266,0,0.142992358284344,0.423134732368693,0.0556310402006045,0.200018946967332,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.10698121897268,0,0,0,0,0.200121275907959,0.215106287879314,0.32027119294089,0.564595470135685,1.23982999951156,1.83666519528061,0.852099101138033,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.335643082588139,0,0,0,0,0,0,0,0,0,0,0.291073584836546,0,0,0,0,0,0.0518566074894816,0.034489466458534,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0005529;sugar binding;3.08264671866295e-06;19692,30053,19694,19693!GO:0030246;carbohydrate binding;6.36811064614988e-06;19692,30053,19694,19693!GO:0005615;extracellular space;0.0105805068748342;19692,30053,19694,19693!GO:0044421;extracellular region part;0.0105805068748342;19692,30053,19694,19693!GO:0006953;acute-phase response;0.0252677257855688;19694!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001264!5.43e-17!12;UBERON:0000160!1.97e-14!31;UBERON:0005409!1.50e-13!47;UBERON:0002075!3.05e-10!19;UBERON:0000344!6.15e-09!15;UBERON:0001962!6.09e-07!2;UBERON:0001961!6.09e-07!2;UBERON:0001744!6.09e-07!2
}}

Latest revision as of 15:20, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:28663468..28663472,+p1@Mir217
Mm9::chr11:57822363..57822437,+p1@Larp1
Mm9::chr11:57824130..57824139,-p@chr11:57824130..57824139
-
Mm9::chr3:141477669..141477671,-p@chr3:141477669..141477671
-
Mm9::chr3:75072253..75072264,-p@chr3:75072253..75072264
-
Mm9::chr6:78328830..78328844,-p3@Reg3d
Mm9::chr6:78328845..78328856,-p5@Reg3d
Mm9::chr6:78330694..78330709,+p1@Reg3a
Mm9::chr6:78330715..78330733,+p3@Reg3a
Mm9::chr6:78330735..78330759,+p2@Reg3a
Mm9::chr6:78355142..78355152,+p1@Reg2
Mm9::chr6:78376034..78376043,+p@chr6:78376034..78376043
+
Mm9::chr6:78376186..78376195,+p@chr6:78376186..78376195
+
Mm9::chr6:78376943..78376973,+p@chr6:78376943..78376973
+
Mm9::chr7:138187808..138187812,+p@chr7:138187808..138187812
+
Mm9::chr7:138249774..138249784,+p@chr7:138249774..138249784
+


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:0005529sugar binding3.08264671866295e-06
GO:0030246carbohydrate binding6.36811064614988e-06
GO:0005615extracellular space0.0105805068748342
GO:0044421extracellular region part0.0105805068748342
GO:0006953acute-phase response0.0252677257855688



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
pancreas5.43e-1712
intestine1.97e-1431
gastrointestinal system1.50e-1347
viscus3.05e-1019
mucosa6.15e-0915
gut-associated lymphoid tissue6.09e-072
mucosa-associated lymphoid tissue6.09e-072
lymphoid tissue6.09e-072


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)
MA0003.10.0040136
MA0004.10.221835
MA0006.10.105852
MA0007.10.210531
MA0009.10.599391
MA0014.10.0122179
MA0017.10.122138
MA0019.10.434009
MA0024.10.558971
MA0025.10.819843
MA0027.12.21717
MA0028.10.112137
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.498821
MA0042.11.48217
MA0043.10.689898
MA0046.10.632833
MA0048.10.0196258
MA0050.10.701661
MA0051.10.345658
MA0052.10.618515
MA0055.10.189769
MA0056.10
MA0057.10.0166073
MA0058.10.152805
MA0059.10.942177
MA0060.10.0623353
MA0061.10.267107
MA0063.10
MA0066.10.328887
MA0067.10.92691
MA0068.10.0798662
MA0069.10.618831
MA0070.10.609808
MA0071.10.251158
MA0072.10.601934
MA0073.10.000442205
MA0074.10.299171
MA0076.10.134359
MA0077.10.581866
MA0078.10.976277
MA0081.10.177433
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.00828903
MA0089.10
MA0090.10.196267
MA0091.10.231874
MA0092.10.571528
MA0093.10.11723
MA0095.10
MA0098.10
MA0100.10.289731
MA0101.10.501038
MA0103.11.30811
MA0105.10.0314205
MA0106.10.380511
MA0107.10.394565
MA0108.21.15138
MA0109.10
MA0111.10.206727
MA0113.10.937714
MA0114.10.558421
MA0115.10.692537
MA0116.10.105729
MA0117.10.662171
MA0119.10.16785
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.84684
MA0139.10.181201
MA0140.10.788302
MA0141.10.141822
MA0142.10.499475
MA0143.10.96857
MA0144.13.94708
MA0145.10.00977282
MA0146.10.00479338
MA0147.10.286569
MA0148.11.23068
MA0149.10.171305
MA0062.20.134374
MA0035.20.796986
MA0039.20.0201111
MA0138.20.423003
MA0002.20.413675
MA0137.22.66892
MA0104.20.204256
MA0047.20.337465
MA0112.20.135501
MA0065.20.136177
MA0150.10.210447
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.0850581
MA0155.10.0605786
MA0156.11.3383
MA0157.10.47062
MA0158.10
MA0159.10.0900717
MA0160.10.23657
MA0161.10
MA0162.10.0258446
MA0163.10.00566486
MA0164.10.315868
MA0080.21.2868
MA0018.20.323932
MA0099.20.417463
MA0079.25.98769e-06
MA0102.21.29919
MA0258.10.0692929
MA0259.10.0787033
MA0442.10
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