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MCL coexpression mm9:892: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000014!2.05e-12!5;UBERON:0001003!2.05e-12!5;UBERON:0002097!2.05e-12!5;UBERON:0002199!2.05e-12!5;UBERON:0007029!2.05e-12!5;UBERON:0007376!2.05e-12!5;UBERON:0002416!2.05e-12!5;UBERON:0007383!2.05e-12!5;UBERON:0003126!5.20e-08!3;UBERON:0001005!5.20e-08!3;UBERON:0007196!5.20e-08!3;UBERON:0001558!5.20e-08!3;UBERON:0003102!3.51e-07!22
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.84953,0.367606,1.10802,0.260188,0.448401,0.538088,0.173246,0.181564,0.386846,0.494602,0.526159,0.515774,0.550255,0.275867,0,0.742571,1.30041,0.938682,0.620214,0.883862,0.485665,0.549359,0.258745,0.978733,0.577606,0.153291,0.469052,0.303071,0.757024,0.455168,0.843667,0.250677,0.425071,0.757987,0.185086,0.242032,0.522578,1.1836,0.570041,0.256422,0.460258,0.450632,0.27776,0.209497,0.423266,0.662995,0.484612,0.687215,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.145699,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.178433,0.236196,1.03623,0.433216,0.813951,0.136938,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.789543,0.0299392,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.733735,0.218233,0.202284,0.1711,0.859272,0.663249,1.12826,1.26039,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.340849,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.603195,0.437894,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.740166,0.950857,1.09252,1.10792,0.570914,1.23736,0.061199,0.401212,2.0333,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,0.261837,0.120154,0.203102,0.986833,1.12835,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,2.65704,0.714896,0.562634,0.240994,0.524587,0.558175
|tfbs_overrepresentation_jaspar=MA0003.1;0.602903,MA0004.1;0.434673,MA0006.1;0.271714,MA0007.1;0.419994,MA0009.1;0.870101,MA0014.1;0.162935,MA0017.1;0.804572,MA0019.1;0.688051,MA0024.1;0.826339,MA0025.1;1.10341,MA0027.1;2.51754,MA0028.1;0.769859,MA0029.1;0.804619,MA0030.1;0.811181,MA0031.1;0.775627,MA0038.1;0.577528,MA0040.1;0.882616,MA0041.1;0.947733,MA0042.1;0.348174,MA0043.1;0.966833,MA0046.1;0.906029,MA0048.1;1.13456,MA0050.1;0.472794,MA0051.1;0.586414,MA0052.1;0.890676,MA0055.1;2.12384,MA0056.1;0,MA0057.1;0.0935008,MA0058.1;0.341628,MA0059.1;0.931383,MA0060.1;0.197678,MA0061.1;0.224905,MA0063.1;0,MA0066.1;0.566617,MA0067.1;1.21448,MA0068.1;0.0965831,MA0069.1;0.891016,MA0070.1;0.881319,MA0071.1;0.471969,MA0072.1;0.872842,MA0073.1;0.000129679,MA0074.1;0.531046,MA0076.1;0.845594,MA0077.1;0.851175,MA0078.1;0.61926,MA0081.1;0.980744,MA0083.1;0.96604,MA0084.1;1.54225,MA0087.1;0.922929,MA0088.1;0.229377,MA0089.1;0,MA0090.1;1.03628,MA0091.1;0.447561,MA0092.1;0.401504,MA0093.1;0.289361,MA0095.1;0,MA0098.1;0,MA0100.1;0.519598,MA0101.1;0.362124,MA0103.1;0.827743,MA0105.1;0.41549,MA0106.1;0.626997,MA0107.1;0.301222,MA0108.2;0.710846,MA0109.1;0,MA0111.1;1.06639,MA0113.1;0.598933,MA0114.1;1.18683,MA0115.1;0.969632,MA0116.1;0.27152,MA0117.1;0.937363,MA0119.1;0.362692,MA0122.1;0.957212,MA0124.1;1.16127,MA0125.1;1.0872,MA0130.1;0,MA0131.1;0.683521,MA0132.1;0,MA0133.1;0,MA0135.1;1.00325,MA0136.1;0.550755,MA0139.1;0.506952,MA0140.1;0.519484,MA0141.1;0.325895,MA0142.1;0.761136,MA0143.1;0.615203,MA0144.1;0.225588,MA0145.1;0.900473,MA0146.1;0.385068,MA0147.1;0.666991,MA0148.1;0.450593,MA0149.1;0.367458,MA0062.2;0.84271,MA0035.2;0.524137,MA0039.2;0.0706842,MA0138.2;0.675599,MA0002.2;0.513194,MA0137.2;0.32312,MA0104.2;0.54394,MA0047.2;1.41226,MA0112.2;1.35357,MA0065.2;0.902537,MA0150.1;1.07698,MA0151.1;0,MA0152.1;0.576873,MA0153.1;1.01988,MA0154.1;0.100744,MA0155.1;0.0804339,MA0156.1;0.314185,MA0157.1;0.729116,MA0158.1;0,MA0159.1;1.276,MA0160.1;0.453546,MA0161.1;0,MA0162.1;0.0925951,MA0163.1;0.0836563,MA0164.1;0.551114,MA0080.2;0.302064,MA0018.2;0.560731,MA0099.2;2.71027,MA0079.2;6.8848e-05,MA0102.2;1.59466,MA0258.1;0.60477,MA0259.1;0.227035,MA0442.1;0
}}

Latest revision as of 16:03, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:16491514..16491533,-p@chr11:16491514..16491533
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Mm9::chr12:81928700..81928711,+p@chr12:81928700..81928711
+
Mm9::chr14:64070294..64070306,+p@chr14:64070294..64070306
+
Mm9::chr14:64070309..64070338,+p@chr14:64070309..64070338
+
Mm9::chr17:46296217..46296226,+p@chr17:46296217..46296226
+
Mm9::chr5:23898308..23898312,-p5@Atg9b
Mm9::chr5:23898497..23898516,-p@chr5:23898497..23898516
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Mm9::chr6:86145436..86145453,+p1@Tgfa


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:0001948glycoprotein binding0.0221784094615578
GO:0005776autophagic vacuole0.0221784094615578
GO:0000045autophagic vacuole formation0.0221784094615578
GO:0016236macroautophagy0.0240213442400761
GO:0006914autophagy0.0339808122707526



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>

Uber Anatomy
Ontology termp-valuen
zone of skin2.05e-125
skin epidermis2.05e-125
skin of body2.05e-125
integument2.05e-125
surface2.05e-125
outer epithelium2.05e-125
integumental system2.05e-125
enveloping layer of ectoderm2.05e-125
trachea5.20e-083
respiratory airway5.20e-083
tracheobronchial tree5.20e-083
lower respiratory tract5.20e-083
surface structure3.51e-0722


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)
MA0003.10.602903
MA0004.10.434673
MA0006.10.271714
MA0007.10.419994
MA0009.10.870101
MA0014.10.162935
MA0017.10.804572
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.769859
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.947733
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.11.13456
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.12.12384
MA0056.10
MA0057.10.0935008
MA0058.10.341628
MA0059.10.931383
MA0060.10.197678
MA0061.10.224905
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.000129679
MA0074.10.531046
MA0076.10.845594
MA0077.10.851175
MA0078.10.61926
MA0081.10.980744
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.229377
MA0089.10
MA0090.11.03628
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.827743
MA0105.10.41549
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.11.06639
MA0113.10.598933
MA0114.11.18683
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.362692
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.506952
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.900473
MA0146.10.385068
MA0147.10.666991
MA0148.10.450593
MA0149.10.367458
MA0062.20.84271
MA0035.20.524137
MA0039.20.0706842
MA0138.20.675599
MA0002.20.513194
MA0137.20.32312
MA0104.20.54394
MA0047.21.41226
MA0112.21.35357
MA0065.20.902537
MA0150.11.07698
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.100744
MA0155.10.0804339
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.11.276
MA0160.10.453546
MA0161.10
MA0162.10.0925951
MA0163.10.0836563
MA0164.10.551114
MA0080.20.302064
MA0018.20.560731
MA0099.22.71027
MA0079.26.8848e-05
MA0102.21.59466
MA0258.10.60477
MA0259.10.227035
MA0442.10
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