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MCL coexpression mm9:669: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0004294;tripeptidyl-peptidase II activity;0.0101342096230186;22019!GO:0000085;G2 phase of mitotic cell cycle;0.0101342096230186;22791!GO:0008240;tripeptidyl-peptidase activity;0.0101342096230186;22019!GO:0051319;G2 phase;0.0101342096230186;22791!GO:0003676;nucleic acid binding;0.0319481498724259;56503,22791,67154,70930!GO:0004289;subtilase activity;0.047230829021569;22019!
|ontology_enrichment_celltype=CL:0000542!3.69e-09!13;CL:0000051!3.69e-09!13;CL:0000838!7.21e-09!12;CL:0000988!1.71e-08!32;CL:0002032!1.71e-08!32;CL:0000037!1.71e-08!32;CL:0000566!1.71e-08!32;CL:0000837!1.71e-08!32;CL:0000084!3.21e-08!11;CL:0000827!3.21e-08!11;CL:0000791!3.37e-07!9;CL:0000789!3.37e-07!9;CL:0002420!3.37e-07!9;CL:0002419!3.37e-07!9;CL:0000790!3.37e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!3.74e-10!29;UBERON:0005057!3.74e-10!29;UBERON:0000077!1.57e-09!35;UBERON:0000926!4.33e-09!120;UBERON:0004120!4.33e-09!120;UBERON:0006603!4.33e-09!120;UBERON:0002193!4.47e-09!48;UBERON:0002405!4.47e-09!48;UBERON:0002390!8.71e-09!45;UBERON:0003061!8.71e-09!45;UBERON:0006562!1.86e-08!24;UBERON:0001557!1.86e-08!24;UBERON:0001042!1.86e-08!24;UBERON:0008814!1.86e-08!24;UBERON:0009145!1.86e-08!24;UBERON:0002370!2.03e-08!23;UBERON:0000974!2.03e-08!23;UBERON:0004807!2.03e-08!23;UBERON:0005058!2.03e-08!23;UBERON:0003351!2.03e-08!23;UBERON:0009113!2.03e-08!23;UBERON:0003295!2.03e-08!23;UBERON:0009722!2.03e-08!23;UBERON:0005562!2.03e-08!23;UBERON:0007690!2.03e-08!23;UBERON:0000153!2.09e-08!43;UBERON:0000072!9.17e-08!27;UBERON:0003408!1.04e-07!24;UBERON:0007811!1.18e-07!36;UBERON:0003081!5.82e-07!87;UBERON:0000065!8.73e-07!41
|tfbs_overrepresentation_for_novel_motifs=0.795069,0.286791,0.7433,0.878892,0.176699,0.342839,0.425757,0.345089,0.362206,1.77702,1.00157,0.414631,0.345518,1.95087,0.189961,0,0.619876,0.170475,0.656134,0.171249,0.238546,0.0281659,1.11256,0.520732,0.276437,1.16974,0.0908349,0.949712,1.79888,0.231659,0.349031,0.717576,0.504188,0.570676,0.556756,0.075793,2.15646,0.411296,0.144953,0.782839,0.51597,0.353696,0.0243896,0.191571,1.45562,0.856658,0.543674,0.376103,0.208261,0.61724,0.603113,1.22385,0.479906,0.855661,0.87275,1.12875,0.223087,1.03993,0.288386,1.12465,0.698157,1.24284,0.120887,0.592318,1.15114,0.631188,1.00675,1.3527,0.693631,1.20659,0.706068,0.355763,0.871379,0.905636,2.01635,1.39651,0.570456,0.532872,0.681539,0.242107,0.110993,1.53784,0.495545,0.101814,1.86182,0.981923,0.143445,0.500771,2.31991,1.51408,1.07554,0.797601,0.730003,0.181374,0.437593,0.129056,0.104462,0.732731,0.543917,0.437273,0.943642,0.717305,0.838603,0.603683,0.602672,0.930972,0.660145,0.372438,1.97481,1.25266,0.781068,3.24951,0.681364,1.01194,1.0825,0.172131,0.566805,0.886406,0.621127,0.158673,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,0.433317,1.7186,1.00525,0.183744,0.821997,0.323373,0.976125,0.456508,1.10385,0.115066,0.300001,0.934673,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.354106,0.546641,1.84176,0.816464,1.60254,0.235808,1.9884,0.857198,0.415832,0.455644,0.93735,0.488969,0.57908,0.290467,0.811219,1.06466,0.791909,0.685546,1.41739,0.593295,0.448733,0.939822,0.413167,0.451293
}}

Latest revision as of 15:41, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:49748436..49748466,+p2@Nol8
Mm9::chr13:49748467..49748505,+p3@Nol8
Mm9::chr15:34012419..34012489,+p1@Mtdh
Mm9::chr15:81958346..81958431,+p1@Ccdc134
Mm9::chr1:43990825..43990921,+p1@Tpp2
Mm9::chr4:48486254..48486273,-p2@Tex10
Mm9::chr5:21290933..21291050,-p1@Dnajc2
Mm9::chr6:71582645..71582688,-p2@Kdm3a
Mm9::chr8:127421777..127421801,+p1@Gm505
Mm9::chr8:32279219..32279241,-p2@Mak16
Mm9::chr9:14588950..14589021,-p1@Ankrd49


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:0004294tripeptidyl-peptidase II activity0.0101342096230186
GO:0000085G2 phase of mitotic cell cycle0.0101342096230186
GO:0008240tripeptidyl-peptidase activity0.0101342096230186
GO:0051319G2 phase0.0101342096230186
GO:0003676nucleic acid binding0.0319481498724259
GO:0004289subtilase activity0.047230829021569



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
hemopoietic organ3.74e-1029
immune organ3.74e-1029
mixed endoderm/mesoderm-derived structure1.57e-0935
mesoderm4.33e-09120
mesoderm-derived structure4.33e-09120
presumptive mesoderm4.33e-09120
hemolymphoid system4.47e-0948
immune system4.47e-0948
hematopoietic system8.71e-0945
blood island8.71e-0945
pharynx1.86e-0824
upper respiratory tract1.86e-0824
chordate pharynx1.86e-0824
pharyngeal arch system1.86e-0824
pharyngeal region of foregut1.86e-0824
thymus2.03e-0823
neck2.03e-0823
respiratory system epithelium2.03e-0823
hemolymphoid system gland2.03e-0823
pharyngeal epithelium2.03e-0823
thymic region2.03e-0823
pharyngeal gland2.03e-0823
entire pharyngeal arch endoderm2.03e-0823
thymus primordium2.03e-0823
early pharyngeal endoderm2.03e-0823
anterior region of body2.09e-0843
segment of respiratory tract9.17e-0827
gland of gut1.04e-0724
craniocervical region1.18e-0736
lateral plate mesoderm5.82e-0787
respiratory tract8.73e-0741


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)
MA0003.11.90003
MA0004.10.879856
MA0006.11.04465
MA0007.11.53459
MA0009.10.743257
MA0014.10.919317
MA0017.10.598706
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.14.03288
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.10.462726
MA0040.10.755433
MA0041.11.34187
MA0042.10.252679
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
MA0058.10.690295
MA0059.11.31756
MA0060.11.28515
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.187364
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.10.00448813
MA0074.10.419185
MA0076.14.3321
MA0077.10.724865
MA0078.10.502121
MA0081.11.39097
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.28966
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.11.73415
MA0095.10
MA0098.10
MA0100.11.05226
MA0101.10.265031
MA0103.10.216742
MA0105.10.556739
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.839864
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.10.546914
MA0117.10.808813
MA0119.10.733279
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.11.38377
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.11.11539
MA0139.10.103495
MA0140.10.408417
MA0141.10.233109
MA0142.10.63775
MA0143.10.49828
MA0144.10.452699
MA0145.10.3137
MA0146.10.183077
MA0147.11.48109
MA0148.10.344843
MA0149.10.269772
MA0062.26.35483
MA0035.20.412747
MA0039.21.11109
MA0138.20.555696
MA0002.20.699393
MA0137.20.652494
MA0104.22.41329
MA0047.20.46201
MA0112.20.313687
MA0065.20.133827
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.0529077
MA0155.10.0394399
MA0156.11.851
MA0157.10.606944
MA0158.10
MA0159.10.495113
MA0160.10.347545
MA0161.10
MA0162.11.19805
MA0163.10.0916052
MA0164.10.437937
MA0080.20.609443
MA0018.21.98396
MA0099.20.549696
MA0079.20.34501
MA0102.21.45844
MA0258.10.135621
MA0259.10.455671
MA0442.10
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