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MCL coexpression mm9:676: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.29262,0.0513547,0.269904,0.878892,1.00549,0.907763,0.425757,0.106126,0.362206,0.0181537,0.385334,0.414631,0.106288,0.437133,0.189961,0,0.619876,0.170475,0.318616,0.171249,1.24695,0.281622,0.436294,0.175485,0.276437,0.4628,0.304017,0.361771,0.213277,0.0650265,0.349031,2.86368,0.168723,0.0786762,0.19035,0.075793,0.161521,0.411296,0.144953,0.123934,2.24785,0.353696,0.255102,0.559697,0.00546478,0.319944,0.543674,0.376103,0.081888,0.215702,0.603113,0.488021,0.220536,0.855661,0.87275,0.443782,0.223087,0.40287,0.0851299,0.441884,0.698157,0.496904,0.383763,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,0.355763,0.126035,0.905636,0.0810502,0.0742951,0.0786324,0.532872,0.681539,0.242107,0.110993,0.636582,0.495545,0.101814,0.792744,0.00855221,0.0106044,0.0651072,0.548334,1.51408,1.07554,0.797601,0.730003,0.535058,0.141946,0.129056,0.340672,0.732731,0.543917,0.0534645,0.486605,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,0.243062,0.390066,2.45372,0.512539,0.0135638,0.333247,0.621127,0.931584,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,1.10612,0.723425,1.00525,0.183744,0.821997,0.323373,0.976125,0.456508,1.10385,0.0275241,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,1.19763,0.727736,0.596462,0.354106,0.546641,1.84176,1.48116,0.178088,0.0664621,0.0240729,0.857198,0.133365,0.455644,0.93735,0.488969,0.199652,0.290467,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,1.13944,0.484323,0.413167,0.451293
}}

Latest revision as of 15:42, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:45094119..45094134,+p1@Ccdc80
Mm9::chr1:45388975..45388987,+p@chr1:45388975..45388987
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Mm9::chr1:45395551..45395585,+p@chr1:45395551..45395585
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Mm9::chr1:45402686..45402700,+p@chr1:45402686..45402700
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Mm9::chr1:45402701..45402773,+p@chr1:45402701..45402773
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Mm9::chr1:45402788..45402830,+p@chr1:45402788..45402830
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Mm9::chr1:45404033..45404072,+p@chr1:45404033..45404072
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Mm9::chr1:45404477..45404539,+p@chr1:45404477..45404539
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Mm9::chr1:45404547..45404609,+p@chr1:45404547..45404609
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Mm9::chr1:45405452..45405469,+p@chr1:45405452..45405469
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Mm9::chr1:45405475..45405510,+p@chr1:45405475..45405510
+


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:0030020extracellular matrix structural constituent conferring tensile strength0.0183531474278201
GO:0005581collagen0.0183531474278201
GO:0005201extracellular matrix structural constituent0.0183531474278201
GO:0006817phosphate transport0.0183531474278201
GO:0044420extracellular matrix part0.0201610694132471
GO:0015698inorganic anion transport0.0255665735312917
GO:0006820anion transport0.0259839869767005
GO:0005578proteinaceous extracellular matrix0.0382128965101627



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)
MA0003.10.000402533
MA0004.10.330313
MA0006.10.547312
MA0007.10.316976
MA0009.10.743257
MA0014.10.0199707
MA0017.10.207884
MA0019.10.567591
MA0024.10.70077
MA0025.12.22837
MA0027.12.37948
MA0028.10.194782
MA0029.11.62787
MA0030.11.64109
MA0031.12.65407
MA0038.10.462726
MA0040.10.755433
MA0041.10.729572
MA0042.12.00855
MA0043.10.837621
MA0046.10.778239
MA0048.10.199479
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0494654
MA0056.10
MA0057.10.181039
MA0058.10.246908
MA0059.10.257372
MA0060.10.12537
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.11.78222
MA0071.10.955636
MA0072.10.745922
MA0073.12.13371e-07
MA0074.11.07546
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.11.86589
MA0088.10.0293443
MA0089.10
MA0090.10.811744
MA0091.10.342071
MA0092.10.812369
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.216742
MA0105.10.0759118
MA0106.10.509454
MA0107.10.211681
MA0108.21.4389
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.11.04399
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.12.34445
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.338099
MA0140.11.85338
MA0141.10.658164
MA0142.10.63775
MA0143.10.49828
MA0144.10.452699
MA0145.10.133285
MA0146.10.0276106
MA0147.10.157258
MA0148.12.47004
MA0149.10.269772
MA0062.20.0791588
MA0035.21.06146
MA0039.20.000111734
MA0138.20.555696
MA0002.20.343346
MA0137.20.230686
MA0104.20.11535
MA0047.24.09822
MA0112.20.57262
MA0065.20.574339
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.0529077
MA0155.10.154271
MA0156.10.222905
MA0157.12.5102
MA0158.10
MA0159.10.495113
MA0160.10.347545
MA0161.10
MA0162.10.00661648
MA0163.11.46795
MA0164.11.11611
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.27.22583e-08
MA0102.21.45844
MA0258.10.135621
MA0259.10.14914
MA0442.10
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