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MCL coexpression mm9:634: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=CL:0000181!4.37e-11!5;CL:0000417!4.37e-11!5;CL:0000668!4.37e-11!5;CL:0000412!4.37e-11!5;CL:0000182!4.37e-11!5
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!5.30e-40!22;UBERON:0007499!5.30e-40!22;UBERON:0006925!5.30e-40!22;UBERON:0009497!5.30e-40!22;UBERON:0000015!5.30e-40!22;UBERON:0002423!5.30e-40!22;UBERON:0006235!5.30e-40!22;UBERON:0008835!5.30e-40!22;UBERON:0003894!5.30e-40!22;UBERON:0004161!5.30e-40!22;UBERON:0008836!5.30e-40!22;UBERON:0009854!4.16e-38!23;UBERON:0009856!4.16e-38!23;UBERON:0002365!8.99e-35!25;UBERON:0002330!8.99e-35!25;UBERON:0005172!2.37e-22!49;UBERON:0005173!2.37e-22!49;UBERON:0002417!2.37e-22!49;UBERON:0000916!2.37e-22!49;UBERON:0005256!2.91e-22!45;UBERON:0003914!6.40e-19!47;UBERON:0003104!3.86e-17!61;UBERON:0009142!3.86e-17!61;UBERON:0002368!1.06e-15!60;UBERON:0009569!1.59e-15!66;UBERON:0002530!3.48e-14!65;UBERON:0003929!7.81e-14!55;UBERON:0000949!2.03e-12!72;UBERON:0005177!2.76e-12!79;UBERON:0000490!6.31e-11!66;UBERON:0001041!8.21e-11!80;UBERON:0005911!2.70e-10!69;UBERON:0002100!2.82e-10!90;UBERON:0000466!1.06e-09!79;UBERON:0004921!2.71e-07!114;UBERON:0001007!4.26e-07!116;UBERON:0001555!4.26e-07!116;UBERON:0007026!4.26e-07!116;UBERON:0004119!6.60e-07!118;UBERON:0000925!6.60e-07!118;UBERON:0006595!6.60e-07!118
|tfbs_overrepresentation_for_novel_motifs=0.29262,0.286791,0.269904,0.329881,0.52369,0.907763,0.425757,1.69976,0.112618,0.401738,0.385334,0.414631,0.345518,0.437133,0.555819,0,0.619876,0.170475,0.096222,0.171249,0.670854,0.281622,0.436294,0.520732,0.276437,0.4628,0.630402,0.361771,0.213277,0.500344,0.349031,0.717576,0.504188,0.270473,0.19035,0.732568,0.161521,0.411296,2.02661,0.123934,0.51597,0.353696,0.770976,0.191571,0.351346,0.319944,0.543674,0.376103,0.401883,0.215702,0.603113,0.488021,0.220536,0.855661,0.87275,0.443782,0.634658,0.40287,0.60268,0.441884,0.698157,0.496904,0.383763,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,0.110167,0.126035,0.905636,0.0810502,0.258161,0.570456,2.26928,1.63162,0.679143,0.110993,0.636582,0.495545,0.333618,0.792744,0.0439644,0.0525502,0.500771,0.548334,1.51408,1.07554,0.797601,1.73223,0.535058,0.141946,0.805383,0.340672,0.732731,0.543917,0.197581,0.486605,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,0.243062,0.390066,2.45372,1.56826,0.0643992,0.333247,0.621127,0.158673,0.910937,1.4028,1.17341,1.3176,1.13603,0.685116,0.433317,0.723425,1.00525,0.540802,0.821997,0.864341,0.976125,2.01608,1.10385,0.821605,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.354106,2.31437,1.84176,0.302077,0.178088,0.0664621,0.0240729,0.857198,1.93274,0.455644,0.93735,0.488969,0.199652,0.790184,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,0.448733,0.484323,0.413167,0.0207556
|tfbs_overrepresentation_jaspar=MA0003.1;0.0374387,MA0004.1;0.330313,MA0006.1;0.186435,MA0007.1;0.316976,MA0009.1;0.743257,MA0014.1;0.144697,MA0017.1;0.598706,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;0.252679,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;0.136328,MA0056.1;0,MA0057.1;0.406124,MA0058.1;0.246908,MA0059.1;1.31756,MA0060.1;0.12537,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;0.00448813,MA0074.1;0.419185,MA0076.1;0.635923,MA0077.1;0.724865,MA0078.1;1.25398,MA0081.1;0.277253,MA0083.1;0.836845,MA0084.1;1.4063,MA0087.1;0.794721,MA0088.1;0.12124,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;1.05226,MA0101.1;0.265031,MA0103.1;0.619698,MA0105.1;0.0759118,MA0106.1;0.509454,MA0107.1;0.211681,MA0108.2;0.589413,MA0109.1;0,MA0111.1;0.312463,MA0113.1;0.482899,MA0114.1;0.446898,MA0115.1;0.84036,MA0116.1;0.546914,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;0.338099,MA0140.1;0.408417,MA0141.1;0.658164,MA0142.1;0.63775,MA0143.1;0.49828,MA0144.1;0.452699,MA0145.1;0.3137,MA0146.1;0.00490019,MA0147.1;0.157258,MA0148.1;0.344843,MA0149.1;0.269772,MA0062.2;0.0791588,MA0035.2;1.86815,MA0039.2;0.143896,MA0138.2;0.555696,MA0002.2;1.15479,MA0137.2;0.230686,MA0104.2;0.11535,MA0047.2;0.46201,MA0112.2;0.133279,MA0065.2;0.314773,MA0150.1;0.316876,MA0151.1;0,MA0152.1;1.16826,MA0153.1;0.889592,MA0154.1;0.759699,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;0.00661648,MA0163.1;0.00559554,MA0164.1;0.437937,MA0080.2;0.212408,MA0018.2;0.446948,MA0099.2;0.549696,MA0079.2;0.0183326,MA0102.2;1.45844,MA0258.1;0.421574,MA0259.1;0.14914,MA0442.1;0
}}

Latest revision as of 15:38, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127331024..127331040,+p@chr10:127331024..127331040
+
Mm9::chr2:4857080..4857097,-p@chr2:4857080..4857097
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Mm9::chr5:123626106..123626143,+p@chr5:123626106..123626143
+
Mm9::chr5:135608332..135608337,-p@chr5:135608332..135608337
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Mm9::chr7:147955119..147955134,-p@chr7:147955119..147955134
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Mm9::chr7:147956077..147956095,-p@chr7:147956077..147956095
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Mm9::chr7:147956118..147956132,-p@chr7:147956118..147956132
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Mm9::chr7:147959053..147959108,-p@chr7:147959053..147959108
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Mm9::chr7:20274903..20274921,+p@chr7:20274903..20274921
+
Mm9::chr7:20274932..20274953,+p@chr7:20274932..20274953
+
Mm9::chr9:107558265..107558276,+p@chr9:107558265..107558276
+


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
metabolising cell4.37e-115
endopolyploid cell4.37e-115
parenchymal cell4.37e-115
polyploid cell4.37e-115
hepatocyte4.37e-115

Uber Anatomy
Ontology termp-valuen
liver5.30e-4022
epithelial sac5.30e-4022
digestive gland5.30e-4022
epithelium of foregut-midgut junction5.30e-4022
anatomical boundary5.30e-4022
hepatobiliary system5.30e-4022
foregut-midgut junction5.30e-4022
hepatic diverticulum5.30e-4022
liver primordium5.30e-4022
septum transversum5.30e-4022
liver bud5.30e-4022
digestive tract diverticulum4.16e-3823
sac4.16e-3823
exocrine gland8.99e-3525
exocrine system8.99e-3525
abdomen element2.37e-2249
abdominal segment element2.37e-2249
abdominal segment of trunk2.37e-2249
abdomen2.37e-2249
trunk mesenchyme2.91e-2245
epithelial tube6.40e-1947
mesenchyme3.86e-1761
entire embryonic mesenchyme3.86e-1761
endocrine gland1.06e-1560
subdivision of trunk1.59e-1566
gland3.48e-1465
gut epithelium7.81e-1455
endocrine system2.03e-1272
trunk region element2.76e-1279
unilaminar epithelium6.31e-1166
foregut8.21e-1180
endo-epithelium2.70e-1069
trunk2.82e-1090
immaterial anatomical entity1.06e-0979
subdivision of digestive tract2.71e-07114
digestive system4.26e-07116
digestive tract4.26e-07116
primitive gut4.26e-07116
endoderm-derived structure6.60e-07118
endoderm6.60e-07118
presumptive endoderm6.60e-07118


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)
MA0003.10.0374387
MA0004.10.330313
MA0006.10.186435
MA0007.10.316976
MA0009.10.743257
MA0014.10.144697
MA0017.10.598706
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
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.136328
MA0056.10
MA0057.10.406124
MA0058.10.246908
MA0059.11.31756
MA0060.10.12537
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
MA0073.10.00448813
MA0074.10.419185
MA0076.10.635923
MA0077.10.724865
MA0078.11.25398
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.12124
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.11.05226
MA0101.10.265031
MA0103.10.619698
MA0105.10.0759118
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.10.446898
MA0115.10.84036
MA0116.10.546914
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
MA0139.10.338099
MA0140.10.408417
MA0141.10.658164
MA0142.10.63775
MA0143.10.49828
MA0144.10.452699
MA0145.10.3137
MA0146.10.00490019
MA0147.10.157258
MA0148.10.344843
MA0149.10.269772
MA0062.20.0791588
MA0035.21.86815
MA0039.20.143896
MA0138.20.555696
MA0002.21.15479
MA0137.20.230686
MA0104.20.11535
MA0047.20.46201
MA0112.20.133279
MA0065.20.314773
MA0150.10.316876
MA0151.10
MA0152.11.16826
MA0153.10.889592
MA0154.10.759699
MA0155.10.0394399
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.10.165031
MA0160.10.347545
MA0161.10
MA0162.10.00661648
MA0163.10.00559554
MA0164.10.437937
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.20.0183326
MA0102.21.45844
MA0258.10.421574
MA0259.10.14914
MA0442.10
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