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MCL coexpression mm9:893: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!7.90e-13!48;UBERON:0002405!7.90e-13!48;UBERON:0004177!7.73e-12!29;UBERON:0005057!7.73e-12!29;UBERON:0002390!7.85e-12!45;UBERON:0003061!7.85e-12!45;UBERON:0000077!4.22e-10!35;UBERON:0006562!1.19e-09!24;UBERON:0001557!1.19e-09!24;UBERON:0001042!1.19e-09!24;UBERON:0008814!1.19e-09!24;UBERON:0009145!1.19e-09!24;UBERON:0002370!2.45e-09!23;UBERON:0000974!2.45e-09!23;UBERON:0004807!2.45e-09!23;UBERON:0005058!2.45e-09!23;UBERON:0003351!2.45e-09!23;UBERON:0009113!2.45e-09!23;UBERON:0003295!2.45e-09!23;UBERON:0009722!2.45e-09!23;UBERON:0005562!2.45e-09!23;UBERON:0007690!2.45e-09!23;UBERON:0003408!3.09e-09!24;UBERON:0000153!5.72e-09!43;UBERON:0003081!7.87e-08!87;UBERON:0000072!2.54e-07!27;UBERON:0001004!4.33e-07!42;UBERON:0000065!4.50e-07!41;UBERON:0007811!4.57e-07!36;UBERON:0000926!6.09e-07!120;UBERON:0004120!6.09e-07!120;UBERON:0006603!6.09e-07!120
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.289542,0.96259,0.434198,0.260188,0.448401,0.538088,0.515265,0.181564,1.0625,0.494602,0.526159,0.515774,0.550255,0.756943,0,0.742571,0.252772,0.160384,1.03863,0.332107,0.223663,0.549359,0.258745,0.374936,0.577606,0.153291,0.469052,0.818708,0.757024,0.455168,0.843667,0.250677,0.425071,0.276324,0.185086,1.26012,0.522578,0.631914,1.08217,0.256422,0.460258,0.204736,0.761266,0.403938,1.08432,0.662995,0.484612,0.386968,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.447041,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,0.527912,0.236196,1.03623,1.37807,0.813951,0.839631,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.491838,0.293679,0.118251,0.667883,1.65055,1.20871,0.925879,0.856465,0.265734,0.62322,0.585369,0.1711,0.859272,0.663249,0.101559,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.903338,1.59446,0.386136,0.96962,0.337254,0.499714,1.21576,0.708441,0.946242,0.437894,0.743872,0.238599,1.04163,0.692953,0.579418,0.650748,1.26989,0.810177,0.546178,0.849691,1.13749,0.268537,0.950857,0.427043,1.10792,0.570914,1.23736,0.061199,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,0.403515,1.33415,0.766041,0.780212,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,1.2562,0.524587,1.56615
}}

Latest revision as of 16:03, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:20641450..20641527,-p1@Aftph
Mm9::chr18:50190631..50190697,+p1@Tnfaip8
Mm9::chr18:50190724..50190742,+p8@Tnfaip8
Mm9::chr2:26758305..26758348,-p2@Surf6
Mm9::chr4:134708451..134708469,+p1@Runx3
Mm9::chr9:119892880..119892898,-p@chr9:119892880..119892898
-
Mm9::chrX:33431233..33431237,+p@chrX:33431233..33431237
+
Mm9::chrX:34529477..34529502,-p1@Sept6


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:0001652granular component0.0375280775762888



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
hemolymphoid system7.90e-1348
immune system7.90e-1348
hemopoietic organ7.73e-1229
immune organ7.73e-1229
hematopoietic system7.85e-1245
blood island7.85e-1245
mixed endoderm/mesoderm-derived structure4.22e-1035
pharynx1.19e-0924
upper respiratory tract1.19e-0924
chordate pharynx1.19e-0924
pharyngeal arch system1.19e-0924
pharyngeal region of foregut1.19e-0924
thymus2.45e-0923
neck2.45e-0923
respiratory system epithelium2.45e-0923
hemolymphoid system gland2.45e-0923
pharyngeal epithelium2.45e-0923
thymic region2.45e-0923
pharyngeal gland2.45e-0923
entire pharyngeal arch endoderm2.45e-0923
thymus primordium2.45e-0923
early pharyngeal endoderm2.45e-0923
gland of gut3.09e-0924
anterior region of body5.72e-0943
lateral plate mesoderm7.87e-0887
segment of respiratory tract2.54e-0727
respiratory system4.33e-0742
respiratory tract4.50e-0741
craniocervical region4.57e-0736
mesoderm6.09e-07120
mesoderm-derived structure6.09e-07120
presumptive mesoderm6.09e-07120


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)
MA0003.12.21188
MA0004.10.434673
MA0006.10.271714
MA0007.11.07722
MA0009.10.870101
MA0014.11.54572
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.12.15675
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.10.577528
MA0040.10.882616
MA0041.10.360875
MA0042.10.348174
MA0043.10.966833
MA0046.10.906029
MA0048.10.335404
MA0050.10.472794
MA0051.10.586414
MA0052.13.40621
MA0055.10.117901
MA0056.10
MA0057.11.07246
MA0058.10.341628
MA0059.10.353484
MA0060.10.574356
MA0061.10.638933
MA0063.10
MA0066.10.566617
MA0067.11.21448
MA0068.10.319589
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.138438
MA0074.10.531046
MA0076.13.21265
MA0077.10.851175
MA0078.10.61926
MA0081.10.980744
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.10.229377
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.950493
MA0103.10.307078
MA0105.11.93163
MA0106.10.626997
MA0107.10.814533
MA0108.20.710846
MA0109.10
MA0111.11.06639
MA0113.10.598933
MA0114.10.222763
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
MA0139.10.169849
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.10.225588
MA0145.10.246409
MA0146.11.31232
MA0147.11.24068
MA0148.10.450593
MA0149.10.367458
MA0062.22.64619
MA0035.20.524137
MA0039.21.6915
MA0138.20.675599
MA0002.20.172399
MA0137.20.32312
MA0104.20.54394
MA0047.20.576767
MA0112.20.527225
MA0065.20.0704227
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.677425
MA0155.11.45843
MA0156.11.52462
MA0157.10.729116
MA0158.10
MA0159.10.246253
MA0160.10.453546
MA0161.10
MA0162.11.88646
MA0163.10.212034
MA0164.10.551114
MA0080.20.816435
MA0018.20.560731
MA0099.20.669311
MA0079.23.8665
MA0102.21.59466
MA0258.10.60477
MA0259.10.227035
MA0442.10
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