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MCL coexpression mm9:673: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0010172;embryonic body morphogenesis;0.00857718680500183;23937!GO:0010171;body morphogenesis;0.00857718680500183;23937!GO:0009790;embryonic development;0.00857718680500183;23937,239447!GO:0005537;mannose binding;0.0141304035005386;239447!GO:0048029;monosaccharide binding;0.0172657606177491;239447!GO:0007157;heterophilic cell adhesion;0.0172657606177491;239447!}}
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adhesion;0.0172657606177491;239447!|ontology_enrichment_celltype=CL:0000540!5.41e-08!33;CL:0000047!5.41e-08!33;CL:0000031!5.41e-08!33;CL:0000404!5.41e-08!33|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0000970!6.78e-08!9;UBERON:0000019!6.78e-08!9;UBERON:0000047!6.78e-08!9;UBERON:0010312!6.78e-08!9;UBERON:0004088!6.78e-08!9;UBERON:0002104!6.78e-08!9;UBERON:0001456!6.78e-08!9;UBERON:0003072!6.78e-08!9;UBERON:0004128!6.78e-08!9;UBERON:0003071!6.78e-08!9|tfbs_overrepresentation_for_novel_motifs=0.29262,0.0513547,0.7433,0.878892,0.52369,0.342839,0.425757,0.106126,0.112618,0.979159,0.385334,1.87456,0.106288,0.437133,0.189961,0,0.619876,0.170475,0.096222,0.688036,0.238546,0.117252,0.436294,0.175485,0.276437,0.4628,1.05365,0.361771,0.213277,0.500344,0.921513,0.717576,0.168723,0.0786762,0.19035,1.01269,0.161521,0.411296,0.144953,0.123934,0.173534,0.353696,0.478787,1.06512,0.351346,0.319944,0.543674,0.9813,0.208261,1.15963,0.603113,0.488021,0.220536,0.855661,0.87275,0.443782,0.634658,0.40287,0.0851299,0.441884,0.698157,0.496904,1.25641,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,1.18624,0.126035,0.905636,0.0810502,0.258161,0.0786324,0.532872,0.681539,1.26039,1.19172,0.636582,0.495545,3.64696,0.792744,0.123451,0.143445,0.500771,1.3522,1.51408,1.07554,0.797601,0.730003,0.181374,0.437593,1.89711,0.340672,0.732731,0.543917,0.0534645,0.486605,0.717305,0.838603,0.603683,0.602672,0.930972,0.660145,0.372438,0.246223,0.67437,0.286453,0.840348,0.681364,0.390066,2.45372,0.172131,0.170188,0.333247,0.621127,0.479408,0.910937,4.72337,0.464505,0.532013,1.13603,0.685116,2.88779,0.723425,1.00525,0.183744,0.821997,0.323373,0.976125,0.456508,1.10385,55.0408,0.300001,0.35497,1.05527,6.41786,1.48237,1.01139,0.475785,0.727736,4.85746,0.354106,0.546641,1.84176,0.302077,0.178088,0.0664621,0.0240729,0.857198,0.133365,0.455644,0.93735,3.14195,0.199652,0.290467,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,0.448733,0.160658,0.413167,0.0207556|tfbs_overrepresentation_jaspar=MA0003.1;0.00322434,MA0004.1;0.330313,MA0006.1;0.186435,MA0007.1;0.850001,MA0009.1;1.75966,MA0014.1;0.00333639,MA0017.1;0.207884,MA0019.1;0.567591,MA0024.1;0.70077,MA0025.1;0.971686,MA0027.1;2.37948,MA0028.1;0.194782,MA0029.1;0.679737,MA0030.1;0.686088,MA0031.1;0.651724,MA0038.1;0.462726,MA0040.1;0.755433,MA0041.1;0.263922,MA0042.1;0.703657,MA0043.1;0.837621,MA0046.1;0.778239,MA0048.1;0.054097,MA0050.1;0.365212,MA0051.1;0.471092,MA0052.1;0.76328,MA0055.1;0.0494654,MA0056.1;0,MA0057.1;0.048013,MA0058.1;0.246908,MA0059.1;0.257372,MA0060.1;0.789184,MA0061.1;0.147394,MA0063.1;0,MA0066.1;0.452472,MA0067.1;1.08124,MA0068.1;0.0500842,MA0069.1;0.76361,MA0070.1;0.75417,MA0071.1;0.364454,MA0072.1;0.745922,MA0073.1;0.827681,MA0074.1;0.419185,MA0076.1;0.223625,MA0077.1;0.724865,MA0078.1;0.502121,MA0081.1;1.39097,MA0083.1;0.836845,MA0084.1;1.4063,MA0087.1;0.794721,MA0088.1;0.0293443,MA0089.1;0,MA0090.1;0.299987,MA0091.1;0.342071,MA0092.1;0.300264,MA0093.1;0.20148,MA0095.1;0,MA0098.1;0,MA0100.1;0.408523,MA0101.1;2.07249,MA0103.1;0.216742,MA0105.1;0.26272,MA0106.1;0.509454,MA0107.1;0.211681,MA0108.2;2.45353,MA0109.1;0,MA0111.1;0.312463,MA0113.1;0.482899,MA0114.1;0.145642,MA0115.1;0.84036,MA0116.1;0.186271,MA0117.1;0.808813,MA0119.1;0.265536,MA0122.1;0.828211,MA0124.1;1.02871,MA0125.1;0.955734,MA0130.1;0,MA0131.1;0.563262,MA0132.1;0,MA0133.1;0,MA0135.1;0.873285,MA0136.1;0.437601,MA0139.1;0.103495,MA0140.1;0.408417,MA0141.1;0.233109,MA0142.1;0.63775,MA0143.1;0.49828,MA0144.1;0.147954,MA0145.1;0.0329586,MA0146.1;0.0833862,MA0147.1;0.157258,MA0148.1;0.344843,MA0149.1;0.269772,MA0062.2;0.0791588,MA0035.2;0.412747,MA0039.2;0.0799333,MA0138.2;0.555696,MA0002.2;0.105469,MA0137.2;0.230686,MA0104.2;0.11535,MA0047.2;0.46201,MA0112.2;0.0329566,MA0065.2;0.033123,MA0150.1;0.316876,MA0151.1;0,MA0152.1;0.46211,MA0153.1;0.889592,MA0154.1;0.195907,MA0155.1;0.0394399,MA0156.1;0.222905,MA0157.1;0.606944,MA0158.1;0,MA0159.1;0.165031,MA0160.1;0.347545,MA0161.1;0,MA0162.1;0.219632,MA0163.1;0.198448,MA0164.1;5.08423,MA0080.2;0.212408,MA0018.2;0.446948,MA0099.2;0.549696,MA0079.2;2.97596e-06,MA0102.2;1.45844,MA0258.1;0.135621,MA0259.1;0.14914,MA0442.1;0}}

Latest revision as of 15:42, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:54242363..54242376,+p@chr15:54242363..54242376
+
Mm9::chr3:86350565..86350577,-p@chr3:86350565..86350577
-
Mm9::chr3:86351974..86352003,-p5@Mab21l2
Mm9::chr3:86352190..86352212,-p1@Mab21l2
Mm9::chr3:86352240..86352250,-p7@Mab21l2
Mm9::chr3:86352359..86352374,-p3@Mab21l2
Mm9::chr3:86352399..86352406,-p9@Mab21l2
Mm9::chr3:86352449..86352465,-p2@Mab21l2
Mm9::chr3:86352504..86352520,-p4@Mab21l2
Mm9::chr3:86352529..86352542,-p6@Mab21l2
Mm9::chr3:86352800..86352805,+p@chr3:86352800..86352805
+


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:0010172embryonic body morphogenesis0.00857718680500183
GO:0010171body morphogenesis0.00857718680500183
GO:0009790embryonic development0.00857718680500183
GO:0005537mannose binding0.0141304035005386
GO:0048029monosaccharide binding0.0172657606177491
GO:0007157heterophilic cell adhesion0.0172657606177491



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
neuron5.41e-0833
neuronal stem cell5.41e-0833
neuroblast5.41e-0833
electrically signaling cell5.41e-0833

Uber Anatomy
Ontology termp-valuen
eye6.78e-089
camera-type eye6.78e-089
simple eye6.78e-089
immature eye6.78e-089
ocular region6.78e-089
visual system6.78e-089
face6.78e-089
optic cup6.78e-089
optic vesicle6.78e-089
eye primordium6.78e-089


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)
MA0003.10.00322434
MA0004.10.330313
MA0006.10.186435
MA0007.10.850001
MA0009.11.75966
MA0014.10.00333639
MA0017.10.207884
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.10.462726
MA0040.10.755433
MA0041.10.263922
MA0042.10.703657
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0494654
MA0056.10
MA0057.10.048013
MA0058.10.246908
MA0059.10.257372
MA0060.10.789184
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.10.827681
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.11.39097
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.0293443
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.12.07249
MA0103.10.216742
MA0105.10.26272
MA0106.10.509454
MA0107.10.211681
MA0108.22.45353
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.103495
MA0140.10.408417
MA0141.10.233109
MA0142.10.63775
MA0143.10.49828
MA0144.10.147954
MA0145.10.0329586
MA0146.10.0833862
MA0147.10.157258
MA0148.10.344843
MA0149.10.269772
MA0062.20.0791588
MA0035.20.412747
MA0039.20.0799333
MA0138.20.555696
MA0002.20.105469
MA0137.20.230686
MA0104.20.11535
MA0047.20.46201
MA0112.20.0329566
MA0065.20.033123
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.195907
MA0155.10.0394399
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.10.165031
MA0160.10.347545
MA0161.10
MA0162.10.219632
MA0163.10.198448
MA0164.15.08423
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.22.97596e-06
MA0102.21.45844
MA0258.10.135621
MA0259.10.14914
MA0442.10
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