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MCL coexpression mm9:215: Difference between revisions

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{{MCL_coexpression_mm9
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6884105045233,0.0352312196570757,0,0,0,0,0,0.0845301845292944,0.0760168881589905,0.0207590566857457,0.0905641158318875|gostat_on_MCL_coexpression=GO:0004631;phosphomevalonate kinase activity;0.0087108968388758;68603!GO:0008610;lipid biosynthetic process;0.0131212195495776;20249,68603!GO:0004768;stearoyl-CoA 9-desaturase activity;0.0145149798583661;20249!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;0.0195909283577094;20249!GO:0044255;cellular lipid metabolic process;0.0239416704430533;20249,68603!GO:0006629;lipid metabolic process;0.0263269425472135;20249,68603!GO:0006695;cholesterol biosynthetic process;0.0273456168870923;68603!GO:0016776;phosphotransferase activity, phosphate group as acceptor;0.0280254074058527;68603!GO:0016126;sterol biosynthetic process;0.0280254074058527;68603!GO:0008203;cholesterol metabolic process;0.0395868911659179;68603!GO:0009058;biosynthetic process;0.0395868911659179;20249,68603!GO:0006694;steroid biosynthetic process;0.0395868911659179;68603!GO:0006633;fatty acid biosynthetic process;0.0395868911659179;20249!GO:0016125;sterol metabolic process;0.0395868911659179;68603!GO:0046394;carboxylic acid biosynthetic process;0.0395868911659179;20249!GO:0016053;organic acid biosynthetic 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|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.121882,0.0116143,0.10132,0.651496,0.612157,0.692606,0.966517,3.41955,0.178125,0.0181521,0.0614022,0.256872,0.00127524,0.285575,0.252545,0,0.187606,0.580747,0.132544,0.180415,0.379753,0.743803,0.0837172,1.1917,2.02522,0.096558,1.52751,0.052199,1.50296,0.00866475,0.179557,0.708648,0.20218,0.275917,0.043293,0.0287074,0.00502758,0.0723691,1.59474,0.00213066,0.213269,0.0492143,0.363675,4.18968,0.000356343,0.343994,0.14047,0.460867,1.36887,0.0122646,0.176803,0.717985,0.105392,0.360169,0.373892,0.0872623,1.19428,0.242289,1.14278,0.608688,0.240935,0.366455,0.202722,0.169971,0.0922836,0.195024,3.1271,0.798123,0.237731,0.662985,0.0197467,0.00143883,1.5487e-05,0.400668,0.0156882,0.554024,1.32326,0.134218,0.229239,0.389635,0.00147538,0.198598,0.113512,0.072236,0.310872,0.0309445,0.076482,1.09199,0.866484,0.951017,4.57379,0.314605,0.263866,0.407415,0.269521,0.119077,0.154889,0.26586,0.140611,0.0396104,0.186094,0.254643,0.346608,0.524831,1.00478,0.726163,0.214471,0.0562752,0.0181085,0.0168212,0.279373,0.9192,1.33003,0.0633371,1.3592,0.09786,0.00386098,0.162529,0.188421,0.0815815,2.75627,0.157558,0.32182,4.96686,0.599219,2.66527,0.588867,0.259075,0.484401,0.00752912,0.333543,0.152217,0.459541,0.0934369,0.570528,8.52843,0.558853,1.12376,0.527732,1.30753,0.920727,0.489678,0.688603,0.72564,0.172583,0.0493636,0.142206,1.26872,1.28539,0.00683283,0.0631547,6.24355e-06,0.948889,0.127315,1.06903,0.426918,0.110013,0.134935,0.286891,0.0315646,0.535953,0.310232,0.655668,0.512051,1.55931,0.624649,0.0839021,0.073192,0.00237802
|tfbs_overrepresentation_jaspar=MA0003.1;2.80362e-08,MA0004.1;0.0410687,MA0006.1;0.116521,MA0007.1;0.0367599,MA0009.1;0.2736,MA0014.1;0.000297913,MA0017.1;0.146941,MA0019.1;0.154706,MA0024.1;0.242791,MA0025.1;0.455779,MA0027.1;1.80018,MA0028.1;0.128024,MA0029.1;0.646159,MA0030.1;0.232422,MA0031.1;0.208749,MA0038.1;2.85444,MA0040.1;0.282638,MA0041.1;0.022104,MA0042.1;0.419367,MA0043.1;0.345831,MA0046.1;0.299802,MA0048.1;0.00012069,MA0050.1;0.0534976,MA0051.1;2.25107,MA0052.1;0.28851,MA0055.1;0.000138081,MA0056.1;0,MA0057.1;0.00368796,MA0058.1;0.0182548,MA0059.1;0.226919,MA0060.1;0.0140945,MA0061.1;0.00375262,MA0063.1;0,MA0066.1;0.0914583,MA0067.1;0.55053,MA0068.1;0.325938,MA0069.1;0.786305,MA0070.1;0.281697,MA0071.1;0.0532101,MA0072.1;0.275571,MA0073.1;1.68613e-13,MA0074.1;0.55652,MA0076.1;0.170984,MA0077.1;0.260121,MA0078.1;0.117056,MA0081.1;0.0254095,MA0083.1;0.345218,MA0084.1;0.848546,MA0087.1;0.31239,MA0088.1;0.454096,MA0089.1;0,MA0090.1;0.558812,MA0091.1;0.38887,MA0092.1;0.885313,MA0093.1;0.00998636,MA0095.1;0,MA0098.1;0,MA0100.1;0.0711575,MA0101.1;0.0223693,MA0103.1;0.541743,MA0105.1;0.0131827,MA0106.1;0.121061,MA0107.1;0.0115922,MA0108.2;0.16815,MA0109.1;0,MA0111.1;0.329199,MA0113.1;1.706,MA0114.1;0.151899,MA0115.1;0.347998,MA0116.1;0.0409567,MA0117.1;0.32327,MA0119.1;0.097555,MA0122.1;0.338415,MA0124.1;0.504623,MA0125.1;0.442316,MA0130.1;0,MA0131.1;0.15209,MA0132.1;0,MA0133.1;0,MA0135.1;1.73615,MA0136.1;0.0843314,MA0139.1;0.0294406,MA0140.1;6.9582,MA0141.1;0.0154363,MA0142.1;0.578416,MA0143.1;0.11498,MA0144.1;0.00379866,MA0145.1;0.00454879,MA0146.1;0.0204106,MA0147.1;0.00461792,MA0148.1;0.69901,MA0149.1;12.8529,MA0062.2;0.168327,MA0035.2;0.541936,MA0039.2;2.75838e-07,MA0138.2;0.147559,MA0002.2;1.43138,MA0137.2;0.0149693,MA0104.2;0.0016784,MA0047.2;0.0961637,MA0112.2;1.99305e-05,MA0065.2;0.0131436,MA0150.1;0.0367285,MA0151.1;0,MA0152.1;1.09142,MA0153.1;2.6741,MA0154.1;0.351808,MA0155.1;0.0198844,MA0156.1;0.0642495,MA0157.1;0.529902,MA0158.1;0,MA0159.1;0.0891123,MA0160.1;0.0469996,MA0161.1;0,MA0162.1;0.00173767,MA0163.1;4.54441e-07,MA0164.1;1.00809,MA0080.2;0.0570509,MA0018.2;0.29841,MA0099.2;0.144004,MA0079.2;6.7058e-10,MA0102.2;0.897953,MA0258.1;0.00286485,MA0259.1;0.0227726,MA0442.1;0
}}

Latest revision as of 14:54, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr19:44469722..44469735,-p@chr19:44469722..44469735
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Mm9::chr19:44470228..44470248,-p@chr19:44470228..44470248
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Mm9::chr19:44470392..44470403,-p@chr19:44470392..44470403
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Mm9::chr19:44470429..44470439,-p@chr19:44470429..44470439
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Mm9::chr19:44470488..44470500,-p@chr19:44470488..44470500
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Mm9::chr19:44470516..44470532,-p@chr19:44470516..44470532
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Mm9::chr19:44470585..44470601,-p@chr19:44470585..44470601
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Mm9::chr19:44470609..44470621,-p@chr19:44470609..44470621
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Mm9::chr19:44470630..44470639,-p@chr19:44470630..44470639
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Mm9::chr19:44470683..44470703,-p@chr19:44470683..44470703
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Mm9::chr19:44470931..44470949,-p@chr19:44470931..44470949
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Mm9::chr19:44471001..44471014,-p@chr19:44471001..44471014
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Mm9::chr19:44471115..44471128,-p@chr19:44471115..44471128
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Mm9::chr19:44471178..44471193,-p@chr19:44471178..44471193
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Mm9::chr19:44471208..44471223,-p@chr19:44471208..44471223
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Mm9::chr19:44471232..44471241,-p@chr19:44471232..44471241
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Mm9::chr19:44471260..44471273,-p@chr19:44471260..44471273
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Mm9::chr19:44471309..44471332,-p@chr19:44471309..44471332
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Mm9::chr19:44471500..44471518,-p@chr19:44471500..44471518
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Mm9::chr19:44471534..44471545,-p@chr19:44471534..44471545
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Mm9::chr19:44471631..44471652,+p@chr19:44471631..44471652
+
Mm9::chr19:44471667..44471677,-p@chr19:44471667..44471677
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Mm9::chr19:44471748..44471759,-p@chr19:44471748..44471759
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Mm9::chr19:44471819..44471862,-p@chr19:44471819..44471862
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Mm9::chr19:44471956..44471977,-p@chr19:44471956..44471977
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Mm9::chr19:44472053..44472082,-p@chr19:44472053..44472082
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Mm9::chr19:44472296..44472324,-p@chr19:44472296..44472324
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Mm9::chr19:44472391..44472437,-p@chr19:44472391..44472437
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Mm9::chr19:44472470..44472502,-p@chr19:44472470..44472502
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Mm9::chr19:44474676..44474725,-p@chr19:44474676..44474725
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Mm9::chr19:44474762..44474798,-p@chr19:44474762..44474798
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Mm9::chr19:44477731..44477749,-p@chr19:44477731..44477749
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Mm9::chr19:44477767..44477789,-p@chr19:44477767..44477789
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Mm9::chr19:44481092..44481122,+p@chr19:44481092..44481122
+
Mm9::chr19:44481121..44481142,-p@chr19:44481121..44481142
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Mm9::chr19:44481173..44481221,+p@chr19:44481173..44481221
+
Mm9::chr19:44481208..44481258,-p@chr19:44481208..44481258
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Mm9::chr19:44482043..44482059,-p1@Scd1
Mm9::chr19:44482100..44482113,-p2@Scd1
Mm9::chr3:89263108..89263136,+p1@Pmvk
Mm9::chr5:114605480..114605524,+p@chr5:114605480..114605524
+
Mm9::chr7:104566021..104566049,-p1@Thrsp


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:0004631phosphomevalonate kinase activity0.0087108968388758
GO:0008610lipid biosynthetic process0.0131212195495776
GO:0004768stearoyl-CoA 9-desaturase activity0.0145149798583661
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 water0.0195909283577094
GO:0044255cellular lipid metabolic process0.0239416704430533
GO:0006629lipid metabolic process0.0263269425472135
GO:0006695cholesterol biosynthetic process0.0273456168870923
GO:0016776phosphotransferase activity, phosphate group as acceptor0.0280254074058527
GO:0016126sterol biosynthetic process0.0280254074058527
GO:0008203cholesterol metabolic process0.0395868911659179
GO:0009058biosynthetic process0.0395868911659179
GO:0006694steroid biosynthetic process0.0395868911659179
GO:0006633fatty acid biosynthetic process0.0395868911659179
GO:0016125sterol metabolic process0.0395868911659179
GO:0046394carboxylic acid biosynthetic process0.0395868911659179
GO:0016053organic acid biosynthetic process0.0395868911659179
GO:0042579microbody0.042383932248497
GO:0005777peroxisome0.042383932248497



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><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)
MA0003.12.80362e-08
MA0004.10.0410687
MA0006.10.116521
MA0007.10.0367599
MA0009.10.2736
MA0014.10.000297913
MA0017.10.146941
MA0019.10.154706
MA0024.10.242791
MA0025.10.455779
MA0027.11.80018
MA0028.10.128024
MA0029.10.646159
MA0030.10.232422
MA0031.10.208749
MA0038.12.85444
MA0040.10.282638
MA0041.10.022104
MA0042.10.419367
MA0043.10.345831
MA0046.10.299802
MA0048.10.00012069
MA0050.10.0534976
MA0051.12.25107
MA0052.10.28851
MA0055.10.000138081
MA0056.10
MA0057.10.00368796
MA0058.10.0182548
MA0059.10.226919
MA0060.10.0140945
MA0061.10.00375262
MA0063.10
MA0066.10.0914583
MA0067.10.55053
MA0068.10.325938
MA0069.10.786305
MA0070.10.281697
MA0071.10.0532101
MA0072.10.275571
MA0073.11.68613e-13
MA0074.10.55652
MA0076.10.170984
MA0077.10.260121
MA0078.10.117056
MA0081.10.0254095
MA0083.10.345218
MA0084.10.848546
MA0087.10.31239
MA0088.10.454096
MA0089.10
MA0090.10.558812
MA0091.10.38887
MA0092.10.885313
MA0093.10.00998636
MA0095.10
MA0098.10
MA0100.10.0711575
MA0101.10.0223693
MA0103.10.541743
MA0105.10.0131827
MA0106.10.121061
MA0107.10.0115922
MA0108.20.16815
MA0109.10
MA0111.10.329199
MA0113.11.706
MA0114.10.151899
MA0115.10.347998
MA0116.10.0409567
MA0117.10.32327
MA0119.10.097555
MA0122.10.338415
MA0124.10.504623
MA0125.10.442316
MA0130.10
MA0131.10.15209
MA0132.10
MA0133.10
MA0135.11.73615
MA0136.10.0843314
MA0139.10.0294406
MA0140.16.9582
MA0141.10.0154363
MA0142.10.578416
MA0143.10.11498
MA0144.10.00379866
MA0145.10.00454879
MA0146.10.0204106
MA0147.10.00461792
MA0148.10.69901
MA0149.112.8529
MA0062.20.168327
MA0035.20.541936
MA0039.22.75838e-07
MA0138.20.147559
MA0002.21.43138
MA0137.20.0149693
MA0104.20.0016784
MA0047.20.0961637
MA0112.21.99305e-05
MA0065.20.0131436
MA0150.10.0367285
MA0151.10
MA0152.11.09142
MA0153.12.6741
MA0154.10.351808
MA0155.10.0198844
MA0156.10.0642495
MA0157.10.529902
MA0158.10
MA0159.10.0891123
MA0160.10.0469996
MA0161.10
MA0162.10.00173767
MA0163.14.54441e-07
MA0164.11.00809
MA0080.20.0570509
MA0018.20.29841
MA0099.20.144004
MA0079.26.7058e-10
MA0102.20.897953
MA0258.10.00286485
MA0259.10.0227726
MA0442.10
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