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MCL coexpression mm9:380: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!1.07e-09!31;UBERON:0005409!1.42e-09!47;UBERON:0000344!6.36e-09!15;UBERON:0004923!1.77e-08!24;UBERON:0002204!6.44e-08!32;UBERON:0001242!8.83e-08!13;UBERON:0000060!8.83e-08!13;UBERON:0001262!8.83e-08!13;UBERON:0004786!8.83e-08!13
|tfbs_overrepresentation_for_novel_motifs=0.847691,0.818382,0.388927,0.165951,0.227727,0.175657,0.675449,0.279284,0.298763,0.439781,0.5998,0.654555,0.279769,0.696866,0.249925,0,0.405853,0.217419,0.101621,0.601422,0.101766,0.247808,1.28653,0.843635,0.400596,0.270807,0.0939148,0.556066,0.289627,0.316933,0.532548,0.493846,0.214529,0.197789,0.911799,0.220243,1.18886,1.2103,0.701925,0.332849,0.0618698,0.541149,0.111877,0.538539,0.742748,0.479224,0.899594,1.73225,0.0320039,0.612305,0.39102,0.291819,0.0541297,0.621761,0.63782,0.709407,0.0917696,1.1846,0.416036,1.30357,0.476165,1.4711,0.323654,0.993188,1.34097,1.06834,0.765078,1.10104,0.472057,0.958179,1.19741,0.291401,0.917807,0.66884,0.968192,1.66089,0.19766,0.329879,0.461106,0.104109,0.123342,1.07879,0.298144,0.497032,0.563042,2.52543,0.0941065,0.0590753,0.343187,1.25993,0.831175,0.56755,0.505205,0.0663617,0.171179,0.150921,0.274301,0.507703,1.61405,0.989538,0.447055,0.493598,0.605777,0.391523,0.390631,1.03324,0.44182,0.198293,1.16398,0.686819,0.418563,0.607409,0.34141,1.14552,0.837889,0.220154,0.519035,0.503545,0.406964,0.198077,0.673855,0.363969,0.272218,0.329142,0.889642,0.464341,0.246642,1.24772,1.8018,0.514635,1.44068,0.485482,0.735806,0.733457,0.858504,0.0168417,0.144091,0.184858,0.811653,1.62404,1.22863,0.769526,0.281588,0.50313,0.385159,1.0357,0.341725,1.58469,0.145585,0.230037,0.0608166,0.546184,1.50984,0.0405022,0.264901,0.698893,0.292614,0.266327,0.137279,0.442553,0.820693,0.562267,0.464731,0.415022,0.382373,0.259222,0.444245,0.230394,1.45994
|tfbs_overrepresentation_jaspar=MA0003.1;3.15741,MA0004.1;0.166273,MA0006.1;0.243994,MA0007.1;0.156418,MA0009.1;0.517357,MA0014.1;2.68884,MA0017.1;0.280372,MA0019.1;0.359884,MA0024.1;0.47854,MA0025.1;0.731571,MA0027.1;2.12059,MA0028.1;4.61211,MA0029.1;0.459477,MA0030.1;0.465221,MA0031.1;0.434261,MA0038.1;1.36706,MA0040.1;0.528552,MA0041.1;0.118772,MA0042.1;0.11115,MA0043.1;0.604858,MA0046.1;0.549602,MA0048.1;0.454093,MA0050.1;0.19271,MA0051.1;0.277682,MA0052.1;0.535783,MA0055.1;0.00346148,MA0056.1;0,MA0057.1;1.23997,MA0058.1;0.107291,MA0059.1;0.114315,MA0060.1;4.18732,MA0061.1;0.179869,MA0063.1;0,MA0066.1;0.262291,MA0067.1;0.836675,MA0068.1;0.423376,MA0069.1;0.536088,MA0070.1;0.52739,MA0071.1;0.192126,MA0072.1;0.519805,MA0073.1;1.52738,MA0074.1;0.663102,MA0076.1;1.57132,MA0077.1;0.500504,MA0078.1;0.303693,MA0081.1;0.12798,MA0083.1;0.604132,MA0084.1;1.15371,MA0087.1;0.564877,MA0088.1;0.137052,MA0089.1;0,MA0090.1;0.144081,MA0091.1;0.175078,MA0092.1;0.14428,MA0093.1;0.0783063,MA0095.1;0,MA0098.1;0,MA0100.1;0.226682,MA0101.1;0.380246,MA0103.1;0.295593,MA0105.1;0.370806,MA0106.1;0.309901,MA0107.1;0.286884,MA0108.2;0.378962,MA0109.1;0,MA0111.1;0.153116,MA0113.1;0.287528,MA0114.1;0.177066,MA0115.1;0.60742,MA0116.1;0.243718,MA0117.1;0.577975,MA0119.1;0.119877,MA0122.1;0.596061,MA0124.1;0.786128,MA0125.1;0.716372,MA0130.1;0,MA0131.1;0.356119,MA0132.1;0,MA0133.1;0,MA0135.1;0.638323,MA0136.1;0.697748,MA0139.1;0.505135,MA0140.1;0.226598,MA0141.1;0.0982176,MA0142.1;0.421761,MA0143.1;0.300449,MA0144.1;0.0479235,MA0145.1;0.961686,MA0146.1;0.517276,MA0147.1;0.0528647,MA0148.1;0.17717,MA0149.1;0.12279,MA0062.2;5.06931,MA0035.2;0.230058,MA0039.2;5.90567,MA0138.2;0.349554,MA0002.2;0.0275408,MA0137.2;0.319762,MA0104.2;0.0319344,MA0047.2;0.270154,MA0112.2;0.466674,MA0065.2;0.288842,MA0150.1;0.156344,MA0151.1;0,MA0152.1;0.270237,MA0153.1;0.653688,MA0154.1;0.256358,MA0155.1;1.42362,MA0156.1;1.05945,MA0157.1;0.394402,MA0158.1;0,MA0159.1;0.457562,MA0160.1;0.179214,MA0161.1;0,MA0162.1;1.61543,MA0163.1;1.22035,MA0164.1;0.250399,MA0080.2;1.01207,MA0018.2;0.715385,MA0099.2;0.344363,MA0079.2;8.5189,MA0102.2;1.20505,MA0258.1;0.161183,MA0259.1;1.10996,MA0442.1;0
}}

Latest revision as of 15:12, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:102146246..102146347,+p1@Tmub2
Mm9::chr11:55274633..55274658,-p1@Atox1
Mm9::chr11:69805085..69805132,+p1@Gabarap
Mm9::chr19:4097369..4097386,+p4@Cdk2ap2
Mm9::chr19:4097392..4097415,+p2@Cdk2ap2
Mm9::chr2:24790668..24790735,-p1@Arrdc1
Mm9::chr3:146162669..146162728,+p3@Gm13342
p3@Gm15776
p3@Gm4356
p3@Gng5
p3@LOC100048410
Mm9::chr3:146162792..146162807,+p2@Gm13342
p2@Gm15776
p2@Gm4356
p2@Gng5
p2@LOC100048410
Mm9::chr4:43676803..43676819,+p1@ENSMUST00000056074
Mm9::chr4:63205833..63205887,+p1@Atp6v1g1
Mm9::chr5:137437951..137437999,+p1@Fis1
Mm9::chr5:8056536..8056551,+p2@Sri
Mm9::chr6:72340479..72340577,-p1@Vamp8
Mm9::chr7:148578063..148578112,+p1@Taldo1
Mm9::chr7:27963854..27963907,-p1@Rab4b
Mm9::chr7:31347956..31347972,-p@chr7:31347956..31347972
-
Mm9::chr7:3293028..3293062,+p5@Myadm
Mm9::chr7:3644508..3644634,-p1@Mboat7
Mm9::chr8:3621529..3621583,+p1@2900053A13Rik
Mm9::chr9:72887520..72887550,+p1@2310009A05Rik


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

no results for this coexpression

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>

Cell Type
Ontology termp-valuen
epithelial cell5.38e-0825

Uber Anatomy
Ontology termp-valuen
intestine1.07e-0931
gastrointestinal system1.42e-0947
mucosa6.36e-0915
organ component layer1.77e-0824
musculoskeletal system6.44e-0832
intestinal mucosa8.83e-0813
anatomical wall8.83e-0813
wall of intestine8.83e-0813
gastrointestinal system mucosa8.83e-0813


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)
MA0003.13.15741
MA0004.10.166273
MA0006.10.243994
MA0007.10.156418
MA0009.10.517357
MA0014.12.68884
MA0017.10.280372
MA0019.10.359884
MA0024.10.47854
MA0025.10.731571
MA0027.12.12059
MA0028.14.61211
MA0029.10.459477
MA0030.10.465221
MA0031.10.434261
MA0038.11.36706
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
MA0055.10.00346148
MA0056.10
MA0057.11.23997
MA0058.10.107291
MA0059.10.114315
MA0060.14.18732
MA0061.10.179869
MA0063.10
MA0066.10.262291
MA0067.10.836675
MA0068.10.423376
MA0069.10.536088
MA0070.10.52739
MA0071.10.192126
MA0072.10.519805
MA0073.11.52738
MA0074.10.663102
MA0076.11.57132
MA0077.10.500504
MA0078.10.303693
MA0081.10.12798
MA0083.10.604132
MA0084.11.15371
MA0087.10.564877
MA0088.10.137052
MA0089.10
MA0090.10.144081
MA0091.10.175078
MA0092.10.14428
MA0093.10.0783063
MA0095.10
MA0098.10
MA0100.10.226682
MA0101.10.380246
MA0103.10.295593
MA0105.10.370806
MA0106.10.309901
MA0107.10.286884
MA0108.20.378962
MA0109.10
MA0111.10.153116
MA0113.10.287528
MA0114.10.177066
MA0115.10.60742
MA0116.10.243718
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
MA0139.10.505135
MA0140.10.226598
MA0141.10.0982176
MA0142.10.421761
MA0143.10.300449
MA0144.10.0479235
MA0145.10.961686
MA0146.10.517276
MA0147.10.0528647
MA0148.10.17717
MA0149.10.12279
MA0062.25.06931
MA0035.20.230058
MA0039.25.90567
MA0138.20.349554
MA0002.20.0275408
MA0137.20.319762
MA0104.20.0319344
MA0047.20.270154
MA0112.20.466674
MA0065.20.288842
MA0150.10.156344
MA0151.10
MA0152.10.270237
MA0153.10.653688
MA0154.10.256358
MA0155.11.42362
MA0156.11.05945
MA0157.10.394402
MA0158.10
MA0159.10.457562
MA0160.10.179214
MA0161.10
MA0162.11.61543
MA0163.11.22035
MA0164.10.250399
MA0080.21.01207
MA0018.20.715385
MA0099.20.344363
MA0079.28.5189
MA0102.21.20505
MA0258.10.161183
MA0259.11.10996
MA0442.10
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