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MCL coexpression mm9:329: Difference between revisions

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{{MCL_coexpression_mm9
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sleep/wake cycle process;0.00953111277264864;19215!GO:0042749;regulation of circadian sleep/wake cycle;0.00953111277264864;19215!GO:0045187;regulation of circadian sleep/wake cycle, sleep;0.00953111277264864;19215!GO:0050802;circadian sleep/wake cycle, sleep;0.00953111277264864;19215!GO:0042745;circadian sleep/wake cycle;0.00953111277264864;19215!GO:0042752;regulation of circadian rhythm;0.00953111277264864;19215!GO:0048512;circadian behavior;0.01191193276837;19215!GO:0030431;sleep;0.01191193276837;19215!GO:0007622;rhythmic behavior;0.0138577408101196;19215!GO:0046457;prostanoid biosynthetic process;0.0138577408101196;19215!GO:0001516;prostaglandin biosynthetic process;0.0138577408101196;19215!GO:0006693;prostaglandin metabolic process;0.0190465645434848;19215!GO:0006692;prostanoid metabolic process;0.0190465645434848;19215!GO:0046456;icosanoid biosynthetic process;0.0326217439820534;19215!GO:0007623;circadian rhythm;0.034024540262353;19215!GO:0006690;icosanoid metabolic process;0.034024540262353;19215!GO:0003018;vascular process in circulatory system;0.034024540262353;18158!GO:0035150;regulation of tube size;0.034024540262353;18158!GO:0050880;regulation of blood vessel size;0.034024540262353;18158!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0007100!3.12e-48!18;UBERON:0000948!3.12e-48!18;UBERON:0005498!3.12e-48!18;UBERON:0004140!3.12e-48!18;UBERON:0009881!3.12e-48!18;UBERON:0004141!3.12e-48!18;UBERON:0003084!3.12e-48!18;UBERON:0007005!3.12e-48!18;UBERON:0004139!3.12e-48!18;UBERON:0004291!3.12e-48!18;UBERON:0004535!3.52e-37!23;UBERON:0001009!3.52e-37!23;UBERON:0004872!4.18e-25!33;UBERON:0003103!1.23e-18!43;UBERON:0003914!8.14e-17!47;UBERON:0010314!2.27e-08!92;UBERON:0003081!8.36e-08!87|tfbs_overrepresentation_for_novel_motifs=0.10298,0.0011122,0.0894988,0.397943,0.161423,1.34493,0.192737,0.188652,0.204405,0.0377332,0.163789,0.184641,0.0729759,0.20111,0.179964,0,0.346366,0.152896,0.0129779,0.12838,0.0719762,0.00734973,0.200489,0.653803,0.310745,0.220337,0.0565047,0.147544,0.213668,0.205066,0.138971,0.430274,0.150515,0.258731,0.180514,0.663832,0.0352642,0.182233,0.285595,0.23234,1.91525,0.142092,0.216218,0.408412,0.0388978,0.119992,0.283619,0.157367,0.778367,0.217247,0.332337,0.239655,0.0872144,0.553844,0.569458,0.206047,0.494057,0.522443,0.74616,0.204634,1.06273,0.246553,0.224761,0.323367,0.612775,0.355898,0.693798,1.02539,0.409398,0.883956,0.0802912,0.198432,0.00863608,0.599674,0.00922001,0.115106,0.0444925,0.274952,0.398928,0.0738984,0.200441,0.360462,0.687016,0.35158,0.496926,0.000774753,3.93521,1.49793,0.287376,1.18318,0.758722,0.501285,1.12313,0.3811,0.0276224,0.245164,0.18465,1.12831,0.283814,1.65179,0.0352891,0.430036,0.538321,0.332812,0.33197,0.141825,0.38053,0.154838,0.557908,0.0727888,0.0992584,0.539906,0.549141,0.167109,0.765328,0.356538,0.000218082,0.128566,1.64234,0.137053,0.604565,0.306855,0.22163,0.753281,0.816304,0.40202,0.575824,0.4354,0.692394,0.0448279,0.523273,2.48637,0.665113,0.215582,0.785621,2.79386,0.107493,0.44012,0.739526,1.5459,1.15207,0.698162,0.230233,0.439187,0.326804,0.142367,0.286009,1.50665,1.17696,0.0423084,0.0335138,0.000743183,0.555246,0.0245192,1.80788,0.629009,0.240389,0.0522118,0.333249,0.107341,0.748413,0.496177,0.402392,0.323614,1.56025,0.209743,1.33528,0.183582,0.140368|tfbs_overrepresentation_jaspar=MA0003.1;7.56031e-05,MA0004.1;0.398663,MA0006.1;0.0460466,MA0007.1;0.118104,MA0009.1;0.452863,MA0014.1;0.000122002,MA0017.1;0.78773,MA0019.1;0.30302,MA0024.1;0.415603,MA0025.1;0.660968,MA0027.1;2.04174,MA0028.1;0.0499059,MA0029.1;0.397373,MA0030.1;1.83439,MA0031.1;0.373333,MA0038.1;0.62805,MA0040.1;4.10766,MA0041.1;0.290933,MA0042.1;0.273359,MA0043.1;0.53743,MA0046.1;0.483941,MA0048.1;0.00405237,MA0050.1;0.149886,MA0051.1;0.643016,MA0052.1;0.47061,MA0055.1;0.0383365,MA0056.1;0,MA0057.1;0.0610626,MA0058.1;0.949115,MA0059.1;0.280668,MA0060.1;0.0217699,MA0061.1;0.0296722,MA0063.1;0,MA0066.1;0.212546,MA0067.1;0.764133,MA0068.1;0.00345678,MA0069.1;0.470904,MA0070.1;0.462521,MA0071.1;1.43385,MA0072.1;0.455219,MA0073.1;6.4181e-05,MA0074.1;0.187944,MA0076.1;0.064121,MA0077.1;1.94929,MA0078.1;1.29239,MA0081.1;1.58707,MA0083.1;0.536725,MA0084.1;1.07765,MA0087.1;1.24668,MA0088.1;0.0287813,MA0089.1;0,MA0090.1;0.708683,MA0091.1;0.134352,MA0092.1;0.709465,MA0093.1;0.435152,MA0095.1;0,MA0098.1;0,MA0100.1;0.180237,MA0101.1;0.08669,MA0103.1;0.218786,MA0105.1;0.00808239,MA0106.1;0.256379,MA0107.1;0.0580742,MA0108.2;1.5488,MA0109.1;0,MA0111.1;0.115252,MA0113.1;0.2357,MA0114.1;0.287365,MA0115.1;0.539917,MA0116.1;0.0459718,MA0117.1;0.511373,MA0119.1;0.0869793,MA0122.1;0.528896,MA0124.1;0.714453,MA0125.1;0.646095,MA0130.1;0,MA0131.1;0.299487,MA0132.1;0,MA0133.1;0,MA0135.1;0.569948,MA0136.1;0.583392,MA0139.1;0.0149835,MA0140.1;0.532112,MA0141.1;1.86168,MA0142.1;0.361451,MA0143.1;0.247626,MA0144.1;0.858034,MA0145.1;0.29554,MA0146.1;2.41662e-05,MA0147.1;0.0335355,MA0148.1;0.136186,MA0149.1;0.0894222,MA0062.2;0.00879313,MA0035.2;1.03201,MA0039.2;0.000137254,MA0138.2;0.293335,MA0002.2;0.366396,MA0137.2;0.882038,MA0104.2;0.0832154,MA0047.2;0.219739,MA0112.2;0.663722,MA0065.2;0.0863447,MA0150.1;0.376372,MA0151.1;0,MA0152.1;0.219814,MA0153.1;0.584906,MA0154.1;0.158528,MA0155.1;0.0134977,MA0156.1;0.0637507,MA0157.1;1.60048,MA0158.1;0,MA0159.1;0.036714,MA0160.1;2.64951,MA0161.1;0,MA0162.1;0.00241438,MA0163.1;3.22249e-05,MA0164.1;0.201705,MA0080.2;0.464846,MA0018.2;0.208409,MA0099.2;0.288477,MA0079.2;6.479e-11,MA0102.2;1.12863,MA0258.1;0.786297,MA0259.1;0.0303419,MA0442.1;0}}
|coexpression_dpi_cluster_scores_mean=0.0233660521958484,-0.00114040229192075,0.000228711620976084,-0.00655723697451042,-0.00655723697451042,-0.00374898903963578,-0.00275811985521297,-0.00655723697451042,-0.00417368617911179,-0.00275149245265399,-0.003697331704149,-0.0038785973035193,-0.00369759804196247,-0.00504067542992631,-0.00655723697451042,-0.00322073061896385,-0.00655723697451042,-0.00390691641809572,-0.00423206313499444,-0.00655723697451042,0.0740431414872234,0.0310165054935031,0.028674804833367,-0.00655723697451042,-0.00655723697451042,0.00165395995531158,-0.00655723697451042,-0.00655723697451042,-0.00340909079461889,-0.00248995446712908,-0.00655723697451042,-0.00655723697451042,0.00211734421469289,-0.00655723697451042,-0.00655723697451042,-0.0037744895214906,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00480990465080865,-0.00655723697451042,0.0558799866130162,0.0547555130142421,0.0102951777841075,0.0214243728658832,0.0283553241890401,0.0179543236454655,-0.00375048688226258,-0.00655723697451042,-0.00655723697451042,0.0244939355644141,0.0706395349109554,0.133079841905744,-0.00322312059723992,0.00650282815746363,0.0127186675394132,0.00808616397851738,0.0119354465522166,0.000165804024010667,-0.00655723697451042,-0.00655723697451042,0.0385259125605333,0.03391616334789,0.000129115098696425,0.00354799440893637,0.0112992576169942,0.0260453951209887,0.0317129472876596,0.0191618538430215,0.0109366047016512,0.00523961661500458,0.0301598765652703,0.0563874455866897,0.0445013665391485,-0.00232103169500625,0.0106679396779234,0.0138204950827842,0.0546710279826729,0.0694325696003898,0.0615877457844762,0.0118648561529648,0.00720132107523725,0.00148031981862623,0.0951149749915927,0.0483618500631492,0.00265477022094175,-0.00655723697451042,0.00898032353894158,-0.00655723697451042,0.00851123771067596,-0.00655723697451042,0.0560378495823503,-0.000861773256253424,-0.00237820450311467,-0.00108195440401542,0.0536819328780156,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,0.0102629539877332,0.019320414276273,0.000846421837655459,0.0120784797806273,-0.00239039104020346,0.0113450835626405,0.022125494062721,0.0323228250883715,0.0315558638987087,0.0362256381305362,0.0551414090137538,-0.000357956219433191,0.0442880811739165,0.00292721547164406,-0.00655723697451042,0.0805953999545292,0.0685804306643132,0.0200173946724972,-0.00655723697451042,0.0468687387309454,0.0501750522553717,0.0050278313046455,-0.00267006342474303,-0.00655723697451042,-0.00655723697451042,0.058276918629778,0.0542486495648245,0.00137306899107324,0.050345940254516,0.049373530534773,0.0506365928486726,0.0533309096356546,0.0486947195133673,0.0285588334340288,0.0695142509735815,0.0567778409213796,0.0107796259149171,0.0291834306719603,0.0364044161823675,0.0706331838233347,0.0801788037853227,0.0636325674682073,0.0626402849774454,0.0792818723865623,-0.00655723697451042,0.00551598290124695,-0.00110118321143654,0.00617400542317403,0.0316430331993079,0.0321723443192893,0.0110825539481718,0.0445936629195202,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,0.279263253243072,0.295824317200538,0.336085061007054,0.432677959080758,0.537690408735739,0.583899759239005,0.661955129212912,0.633627459368632,0.984679066015725,0.561534560063297,0.552639949543373,0.349483763459778,0.381222939167291,0.365099326751506,0.380120302176637,0.048588761504648,0.0306111649219465,-0.00655723697451042,-0.00231132633315017,0.0132976845132019,0.0262348562111113,0.0183440026144405,0.005707035956528,0.0166167695771428,0.0105984806187951,0.0195732406692982,-0.00103942983221624,0.00561447108484291,-0.00327376129199602,-0.00655723697451042,0.016649734873881,0.00702578378695741,0.0060817479933191,-0.00341449764872144,0.0131738295421624,0.00710039987734521,0.0667166990091484,0.0157080708494052,0.0257748971010769,0.0455318144821991,0.0409997824214279,0.0367617503852866,0.0146098800125655,-0.00655723697451042,0.0247606200970138,-0.00330998214446715,0.00750358795764496,-0.00321494002075974,-0.00655723697451042,-0.00245247730759406,-0.00655723697451042,0.0102899748347016,-0.00216720504702375,0.0256908515346885,-0.00655723697451042,0.00539820908263458,0.00566839852339423,-0.0035713965156312,0.00566516255639421,0.0185146118537575,0.0573355584386511,0.0509180595354282,0.0477994962629961,0.0458562284244254,0.0757437199709795,0.0399561876277041,0.0615793604587223,0.00634818461440062,0.0145581273332,0.0135576759553343,0.0246667911466273,0.0276932368679557,0.0201842907127035,-0.00655723697451042,-0.00655723697451042,-0.00655723697451042,-0.00214768926344333,0.0791563151699027,0.0807819398685572,-0.00381020749885633,0.0741693085712035,0.0126659228976496,0.0281817893841987,0.0224861350839963,0.0326292677510707,0.0263394646910153,0.0298887295986241,0.0308021136390356,0.0458583196719956,0.0445775231303312,0.046718441778325,0.00276822667125985,0.0534449557124188,0.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|gostat_on_MCL_coexpression=GO:0022410;circadian sleep/wake cycle process;0.00953111277264864;19215!GO:0042749;regulation of circadian sleep/wake cycle;0.00953111277264864;19215!GO:0045187;regulation of circadian sleep/wake cycle, sleep;0.00953111277264864;19215!GO:0050802;circadian sleep/wake cycle, sleep;0.00953111277264864;19215!GO:0042745;circadian sleep/wake cycle;0.00953111277264864;19215!GO:0042752;regulation of circadian rhythm;0.00953111277264864;19215!GO:0048512;circadian behavior;0.01191193276837;19215!GO:0030431;sleep;0.01191193276837;19215!GO:0007622;rhythmic behavior;0.0138577408101196;19215!GO:0046457;prostanoid biosynthetic process;0.0138577408101196;19215!GO:0001516;prostaglandin biosynthetic process;0.0138577408101196;19215!GO:0006693;prostaglandin metabolic process;0.0190465645434848;19215!GO:0006692;prostanoid metabolic process;0.0190465645434848;19215!GO:0046456;icosanoid biosynthetic process;0.0326217439820534;19215!GO:0007623;circadian rhythm;0.034024540262353;19215!GO:0006690;icosanoid metabolic process;0.034024540262353;19215!GO:0003018;vascular process in circulatory system;0.034024540262353;18158!GO:0035150;regulation of tube size;0.034024540262353;18158!GO:0050880;regulation of blood vessel size;0.034024540262353;18158!
}}

Latest revision as of 15:06, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:45008974..45009008,+p2@Popdc3
Mm9::chr10:45009496..45009506,-p3@ENSMUST00000162062
Mm9::chr13:12336352..12336379,-p@chr13:12336352..12336379
-
Mm9::chr13:97205911..97205922,-p1@Ankdd1b
Mm9::chr14:55608155..55608160,-p@chr14:55608155..55608160
-
Mm9::chr17:71419994..71419996,+p@chr17:71419994..71419996
+
Mm9::chr17:82130615..82130624,-p@chr17:82130615..82130624
-
Mm9::chr18:42376580..42376599,-p@chr18:42376580..42376599
-
Mm9::chr19:36188772..36188806,-p@chr19:36188772..36188806
-
Mm9::chr2:25324643..25324713,-p2@Ptgds
Mm9::chr3:142047969..142047976,-p@chr3:142047969..142047976
-
Mm9::chr4:147360001..147360012,+p1@Nppb
Mm9::chr4:147360152..147360158,+p@chr4:147360152..147360158
+
Mm9::chr7:51734602..51734605,+p@chr7:51734602..51734605
+
Mm9::chr8:15077718..15077725,+p@chr8:15077718..15077725
+
Mm9::chr8:59801830..59801837,-p@chr8:59801830..59801837
-
Mm9::chrX:139260164..139260200,+p8@Tmem164
Mm9::chrX:139260210..139260233,+p5@Tmem164
Mm9::chrX:139260241..139260259,+p9@Tmem164
Mm9::chrX:154149104..154149128,+p@chrX:154149104..154149128
+
Mm9::chrX:154149298..154149310,+p@chrX:154149298..154149310
+
Mm9::chrX:154149464..154149473,+p@chrX:154149464..154149473
+
Mm9::chrX:154149475..154149493,+p@chrX:154149475..154149493
+
Mm9::chrX:154149497..154149508,+p@chrX:154149497..154149508
+


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:0022410circadian sleep/wake cycle process0.00953111277264864
GO:0042749regulation of circadian sleep/wake cycle0.00953111277264864
GO:0045187regulation of circadian sleep/wake cycle, sleep0.00953111277264864
GO:0050802circadian sleep/wake cycle, sleep0.00953111277264864
GO:0042745circadian sleep/wake cycle0.00953111277264864
GO:0042752regulation of circadian rhythm0.00953111277264864
GO:0048512circadian behavior0.01191193276837
GO:0030431sleep0.01191193276837
GO:0007622rhythmic behavior0.0138577408101196
GO:0046457prostanoid biosynthetic process0.0138577408101196
GO:0001516prostaglandin biosynthetic process0.0138577408101196
GO:0006693prostaglandin metabolic process0.0190465645434848
GO:0006692prostanoid metabolic process0.0190465645434848
GO:0046456icosanoid biosynthetic process0.0326217439820534
GO:0007623circadian rhythm0.034024540262353
GO:0006690icosanoid metabolic process0.034024540262353
GO:0003018vascular process in circulatory system0.034024540262353
GO:0035150regulation of tube size0.034024540262353
GO:0050880regulation of blood vessel size0.034024540262353



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>


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)
MA0003.17.56031e-05
MA0004.10.398663
MA0006.10.0460466
MA0007.10.118104
MA0009.10.452863
MA0014.10.000122002
MA0017.10.78773
MA0019.10.30302
MA0024.10.415603
MA0025.10.660968
MA0027.12.04174
MA0028.10.0499059
MA0029.10.397373
MA0030.11.83439
MA0031.10.373333
MA0038.10.62805
MA0040.14.10766
MA0041.10.290933
MA0042.10.273359
MA0043.10.53743
MA0046.10.483941
MA0048.10.00405237
MA0050.10.149886
MA0051.10.643016
MA0052.10.47061
MA0055.10.0383365
MA0056.10
MA0057.10.0610626
MA0058.10.949115
MA0059.10.280668
MA0060.10.0217699
MA0061.10.0296722
MA0063.10
MA0066.10.212546
MA0067.10.764133
MA0068.10.00345678
MA0069.10.470904
MA0070.10.462521
MA0071.11.43385
MA0072.10.455219
MA0073.16.4181e-05
MA0074.10.187944
MA0076.10.064121
MA0077.11.94929
MA0078.11.29239
MA0081.11.58707
MA0083.10.536725
MA0084.11.07765
MA0087.11.24668
MA0088.10.0287813
MA0089.10
MA0090.10.708683
MA0091.10.134352
MA0092.10.709465
MA0093.10.435152
MA0095.10
MA0098.10
MA0100.10.180237
MA0101.10.08669
MA0103.10.218786
MA0105.10.00808239
MA0106.10.256379
MA0107.10.0580742
MA0108.21.5488
MA0109.10
MA0111.10.115252
MA0113.10.2357
MA0114.10.287365
MA0115.10.539917
MA0116.10.0459718
MA0117.10.511373
MA0119.10.0869793
MA0122.10.528896
MA0124.10.714453
MA0125.10.646095
MA0130.10
MA0131.10.299487
MA0132.10
MA0133.10
MA0135.10.569948
MA0136.10.583392
MA0139.10.0149835
MA0140.10.532112
MA0141.11.86168
MA0142.10.361451
MA0143.10.247626
MA0144.10.858034
MA0145.10.29554
MA0146.12.41662e-05
MA0147.10.0335355
MA0148.10.136186
MA0149.10.0894222
MA0062.20.00879313
MA0035.21.03201
MA0039.20.000137254
MA0138.20.293335
MA0002.20.366396
MA0137.20.882038
MA0104.20.0832154
MA0047.20.219739
MA0112.20.663722
MA0065.20.0863447
MA0150.10.376372
MA0151.10
MA0152.10.219814
MA0153.10.584906
MA0154.10.158528
MA0155.10.0134977
MA0156.10.0637507
MA0157.11.60048
MA0158.10
MA0159.10.036714
MA0160.12.64951
MA0161.10
MA0162.10.00241438
MA0163.13.22249e-05
MA0164.10.201705
MA0080.20.464846
MA0018.20.208409
MA0099.20.288477
MA0079.26.479e-11
MA0102.21.12863
MA0258.10.786297
MA0259.10.0303419
MA0442.10
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