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MCL coexpression mm9:381: Difference between revisions

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{{MCL_coexpression_mm9
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division;0.0249238319822111;22196,71963,68298!GO:0007059;chromosome segregation;0.0249238319822111;22196,68298!GO:0005634;nucleus;0.0249238319822111;71810,56427,68298,74203,93696,76793,22196,71963!GO:0043398;HLH domain binding;0.0278721306086671;22196!GO:0016149;translation release factor activity, codon specific;0.0371323093972729;225363!GO:0042910;xenobiotic transporter activity;0.0371323093972729;18671!GO:0008559;xenobiotic-transporting ATPase activity;0.0371323093972729;18671!GO:0008135;translation factor activity, nucleic acid binding;0.0371323093972729;74203,225363!GO:0003747;translation release factor activity;0.0371323093972729;225363!GO:0015239;multidrug transporter activity;0.0371323093972729;18671!GO:0008079;translation termination factor activity;0.0371323093972729;225363!GO:0006415;translational termination;0.0371323093972729;225363!GO:0046581;intercellular canaliculus;0.0456002105207138;18671!GO:0005814;centriole;0.0456002105207138;56427!GO:0043229;intracellular organelle;0.0456002105207138;71810,56427,66196,68298,74203,93696,22196,76793,71963!GO:0007067;mitosis;0.0456002105207138;22196,68298!GO:0043226;organelle;0.0456002105207138;71810,56427,66196,68298,74203,93696,22196,76793,71963!GO:0000087;M phase of mitotic cell 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|gostat_on_MCL_coexpression=GO:0051301;cell division;0.0249238319822111;22196,71963,68298!GO:0007059;chromosome segregation;0.0249238319822111;22196,68298!GO:0005634;nucleus;0.0249238319822111;71810,56427,68298,74203,93696,76793,22196,71963!GO:0043398;HLH domain binding;0.0278721306086671;22196!GO:0016149;translation release factor activity, codon specific;0.0371323093972729;225363!GO:0042910;xenobiotic transporter activity;0.0371323093972729;18671!GO:0008559;xenobiotic-transporting ATPase activity;0.0371323093972729;18671!GO:0008135;translation factor activity, nucleic acid binding;0.0371323093972729;74203,225363!GO:0003747;translation release factor activity;0.0371323093972729;225363!GO:0015239;multidrug transporter activity;0.0371323093972729;18671!GO:0008079;translation termination factor activity;0.0371323093972729;225363!GO:0006415;translational termination;0.0371323093972729;225363!GO:0046581;intercellular canaliculus;0.0456002105207138;18671!GO:0005814;centriole;0.0456002105207138;56427!GO:0043229;intracellular organelle;0.0456002105207138;71810,56427,66196,68298,74203,93696,22196,76793,71963!GO:0007067;mitosis;0.0456002105207138;22196,68298!GO:0043226;organelle;0.0456002105207138;71810,56427,66196,68298,74203,93696,22196,76793,71963!GO:0000087;M phase of mitotic cell cycle;0.0456002105207138;22196,68298!
|ontology_enrichment_celltype=CL:0002242!7.72e-10!16;CL:0002031!6.71e-08!25;CL:0000542!7.28e-08!13;CL:0000051!7.28e-08!13;CL:0000838!2.26e-07!12;CL:0000988!2.42e-07!32;CL:0002032!2.42e-07!32;CL:0000037!2.42e-07!32;CL:0000566!2.42e-07!32;CL:0000837!2.42e-07!32;CL:0000084!8.35e-07!11;CL:0000827!8.35e-07!11
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!5.63e-09!29;UBERON:0005057!5.63e-09!29;UBERON:0000077!6.38e-08!35;UBERON:0002390!1.91e-07!45;UBERON:0003061!1.91e-07!45;UBERON:0002193!2.09e-07!48;UBERON:0002405!2.09e-07!48;UBERON:0003135!2.40e-07!15;UBERON:0002370!5.04e-07!23;UBERON:0000974!5.04e-07!23;UBERON:0004807!5.04e-07!23;UBERON:0005058!5.04e-07!23;UBERON:0003351!5.04e-07!23;UBERON:0009113!5.04e-07!23;UBERON:0003295!5.04e-07!23;UBERON:0009722!5.04e-07!23;UBERON:0005562!5.04e-07!23;UBERON:0007690!5.04e-07!23;UBERON:0000473!5.86e-07!14;UBERON:0003408!6.16e-07!24
|tfbs_overrepresentation_for_novel_motifs=0.429668,0.170065,0.388927,0.497379,0.0636711,0.521151,0.240519,0.279284,0.548929,1.14578,1.13108,0.231566,0.116335,0.696866,0.0713901,0,1.04644,0.0601435,0.470006,0.215699,0.101766,0.615144,0.249061,0.0629783,0.127411,0.270807,0.0939148,0.556066,0.604889,0.316933,1.61542,1.23631,0.214529,0.197789,0.25058,0.13446,3.43384,0.228897,0.396493,0.945759,0.0618698,0.541149,0.215922,0.0723454,0.265696,0.931275,0.899594,0.582632,0.0320039,0.293801,0.39102,1.44407,0.147062,0.621761,0.63782,0.709407,0.0917696,0.222181,0.416036,1.30357,0.476165,0.299289,0.323654,0.381514,0.729015,0.41591,0.765078,1.10104,0.472057,0.958179,1.75038,0.122106,1.5594,0.66884,1.76027,0.603659,0.0769515,0.878887,0.461106,0.104109,0.123342,1.07879,0.298144,0.109746,2.36789,4.69874,2.3691,0.158281,0.343187,1.25993,0.831175,0.56755,0.505205,0.235518,0.171179,0.150921,0.113637,2.18644,0.900059,0.69381,0.447055,0.493598,0.605777,0.391523,0.390631,4.79537,1.96668,0.575829,0.705696,1.13643,0.828821,1.47672,0.34141,0.608615,0.837889,0.220154,2.63462,0.168461,0.406964,0.198077,0.673855,0.363969,0.272218,0.329142,0.889642,0.464341,0.246642,2.15828,0.763646,0.067738,0.590261,0.161127,0.735806,0.265613,0.858504,0.127797,0.144091,0.184858,0.811653,1.62404,1.22863,0.769526,0.281588,0.50313,1.00119,0.541905,0.341725,1.58469,0.145585,1.79906,0.324067,4.92194,0.623204,0.157644,0.264901,0.698893,0.292614,0.266327,0.425787,1.40075,0.820693,0.562267,0.464731,0.822791,0.382373,0.259222,0.201311,0.230394,1.45994
}}

Latest revision as of 15:12, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:102742578..102742592,+p2@Ccdc103
Mm9::chr11:3102879..3102907,+p4@Eif4enif1
Mm9::chr11:60231109..60231127,+p4@4933439F18Rik
Mm9::chr11:6315652..6315694,-p@chr11:6315652..6315694
-
Mm9::chr11:84693382..84693424,+p2@Myo19
Mm9::chr11:86358484..86358501,+p3@Tubd1
Mm9::chr12:114067697..114067715,-p3@Cdca4
Mm9::chr15:72921277..72921316,+p@chr15:72921277..72921316
+
Mm9::chr17:24607766..24607780,+p7@Pgp
Mm9::chr17:25410199..25410210,-p10@Gm14176
p10@LOC100044900
p10@LOC100505174
p11@Ube2i
Mm9::chr17:56812744..56812751,+p3@Ranbp3
Mm9::chr18:35091647..35091658,-p3@Etf1
Mm9::chr19:6061267..6061288,+p@chr19:6061267..6061288
+
Mm9::chr2:166731949..166731986,+p@chr2:166731949..166731986
+
Mm9::chr4:116229726..116229746,+p@chr4:116229726..116229746
+
Mm9::chr4:124743967..124743976,+p2@Snip1
Mm9::chr4:133229131..133229157,-p@chr4:133229131..133229157
-
Mm9::chr6:125142114..125142135,-p@chr6:125142114..125142135
-
Mm9::chr7:19722877..19722881,+p@chr7:19722877..19722881
+
Mm9::chr8:127421746..127421769,+p2@Gm505


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:0051301cell division0.0249238319822111
GO:0007059chromosome segregation0.0249238319822111
GO:0005634nucleus0.0249238319822111
GO:0043398HLH domain binding0.0278721306086671
GO:0016149translation release factor activity, codon specific0.0371323093972729
GO:0042910xenobiotic transporter activity0.0371323093972729
GO:0008559xenobiotic-transporting ATPase activity0.0371323093972729
GO:0008135translation factor activity, nucleic acid binding0.0371323093972729
GO:0003747translation release factor activity0.0371323093972729
GO:0015239multidrug transporter activity0.0371323093972729
GO:0008079translation termination factor activity0.0371323093972729
GO:0006415translational termination0.0371323093972729
GO:0046581intercellular canaliculus0.0456002105207138
GO:0005814centriole0.0456002105207138
GO:0043229intracellular organelle0.0456002105207138
GO:0007067mitosis0.0456002105207138
GO:0043226organelle0.0456002105207138
GO:0000087M phase of mitotic cell cycle0.0456002105207138



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>


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)
MA0003.15.40858
MA0004.10.166273
MA0006.13.08047
MA0007.10.473814
MA0009.10.517357
MA0014.13.05665
MA0017.10.0822314
MA0019.10.945544
MA0024.10.47854
MA0025.10.731571
MA0027.12.12059
MA0028.11.92997
MA0029.10.459477
MA0030.10.465221
MA0031.10.434261
MA0038.10.270746
MA0040.10.528552
MA0041.10.118772
MA0042.10.11115
MA0043.10.604858
MA0046.10.549602
MA0048.10.454093
MA0050.10.19271
MA0051.10.277682
MA0052.10.535783
MA0055.10.163189
MA0056.10
MA0057.10.40737
MA0058.10.348173
MA0059.10.366652
MA0060.11.36613
MA0061.10.179869
MA0063.10
MA0066.10.725822
MA0067.10.836675
MA0068.10.423376
MA0069.10.536088
MA0070.10.52739
MA0071.10.192126
MA0072.10.519805
MA0073.11.20355
MA0074.10.663102
MA0076.12.15081
MA0077.10.500504
MA0078.10.303693
MA0081.10.12798
MA0083.10.604132
MA0084.11.15371
MA0087.10.564877
MA0088.10.423554
MA0089.10
MA0090.10.144081
MA0091.10.175078
MA0092.10.14428
MA0093.10.269439
MA0095.10
MA0098.10
MA0100.10.226682
MA0101.10.119531
MA0103.10.295593
MA0105.10.615314
MA0106.10.834101
MA0107.10.286884
MA0108.20.378962
MA0109.10
MA0111.10.153116
MA0113.10.287528
MA0114.10.398583
MA0115.10.60742
MA0116.10.893143
MA0117.10.577975
MA0119.10.119877
MA0122.10.596061
MA0124.10.786128
MA0125.10.716372
MA0130.10
MA0131.10.356119
MA0132.10
MA0133.10
MA0135.10.638323
MA0136.10.697748
MA0139.10.808412
MA0140.10.226598
MA0141.10.0982176
MA0142.10.421761
MA0143.10.300449
MA0144.11.10234
MA0145.10.466696
MA0146.16.28826
MA0147.10.433894
MA0148.10.17717
MA0149.10.12279
MA0062.22.69801
MA0035.20.230058
MA0039.21.94308
MA0138.20.349554
MA0002.20.514636
MA0137.20.319762
MA0104.20.888584
MA0047.20.270154
MA0112.20.961648
MA0065.20.288842
MA0150.10.156344
MA0151.10
MA0152.10.270237
MA0153.10.653688
MA0154.10.445028
MA0155.10.188353
MA0156.10.306246
MA0157.10.394402
MA0158.10
MA0159.10.457562
MA0160.10.179214
MA0161.10
MA0162.13.02535
MA0163.10.270529
MA0164.10.250399
MA0080.21.01207
MA0018.20.257759
MA0099.20.344363
MA0079.22.72475
MA0102.21.20505
MA0258.10.658099
MA0259.11.10996
MA0442.10
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