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MCL coexpression mm9:203: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0007000;nucleolus organization and biogenesis;0.0344846295698197;70769!GO:0045604;regulation of epidermal cell differentiation;0.0344846295698197;50868!GO:0015030;Cajal body;0.0344846295698197;70769!GO:0004372;glycine hydroxymethyltransferase activity;0.0344846295698197;108037!GO:0009048;dosage compensation, by inactivation of X chromosome;0.0344846295698197;213742!GO:0045682;regulation of epidermis development;0.0344846295698197;50868!GO:0007549;dosage compensation;0.0344846295698197;213742!GO:0030532;small nuclear ribonucleoprotein complex;0.0368713136867206;70769!}}
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107424564268794|gostat_on_MCL_coexpression=GO:0007000;nucleolus organization and biogenesis;0.0344846295698197;70769!GO:0045604;regulation of epidermal cell differentiation;0.0344846295698197;50868!GO:0015030;Cajal body;0.0344846295698197;70769!GO:0004372;glycine hydroxymethyltransferase activity;0.0344846295698197;108037!GO:0009048;dosage compensation, by inactivation of X chromosome;0.0344846295698197;213742!GO:0045682;regulation of epidermis development;0.0344846295698197;50868!GO:0007549;dosage compensation;0.0344846295698197;213742!GO:0030532;small nuclear ribonucleoprotein complex;0.0368713136867206;70769!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=|tfbs_overrepresentation_for_novel_motifs=0.0979835,0.505749,0.0176818,0.892712,0.745536,0.603523,0.232915,0.707994,0.132146,0.00125068,0.0499793,0.478752,0.020794,0.246496,0.359383,0,0.497195,0.478413,0.015726,0.198239,0.15643,0.0258946,0.0698333,1.01971,0.413127,0.081429,0.262613,0.661002,0.00836988,0.501888,0.345171,0.650356,0.0223529,0.118935,0.0315378,0.00319286,0.00327964,0.216067,0.365702,0.278976,0.305421,0.0393416,0.254592,1.14358,0.185083,0.0294697,0.386024,0.398692,0.0671479,0.448603,0.919233,0.310524,0.323413,0.882144,0.344664,0.254564,1.38913,0.206471,0.523327,0.252251,0.216485,0.322212,0.266948,0.892313,0.26734,0.172879,0.453796,0.762091,0.213428,0.628327,0.0145935,0.126279,0.00181595,0.370715,0.000264492,0.106016,0.320397,0.115965,0.592644,0.161625,0.0614713,0.522612,0.320416,0.669584,0.283628,0.00128221,0.1614,0.0808078,0.124296,0.913913,0.512525,0.28723,0.238418,0.528574,0.00208526,0.087284,0.204904,0.240329,0.121891,0.0092222,0.654242,0.649916,0.318186,0.920659,1.47029,0.153558,0.191295,0.173245,0.167713,0.0592277,0.231686,0.319524,0.325502,0.0516832,0.518556,0.485963,0.00164466,0.574893,0.499087,1.89167,0.374962,0.426783,0.280295,0.74521,0.565403,0.598312,0.51906,0.659843,0.452538,0.338664,0.305535,0.86582,1.09502,1.44014,0.537141,0.00417703,0.0243636,0.640211,0.495055,1.26906,0.883804,0.457711,1.02922,0.236832,0.151742,0.154369,0.123372,1.23035,0.258545,0.0795505,0.0412156,0.00018955,0.33253,0.489633,0.568364,0.396312,1.07377,0.221972,0.238485,0.103944,0.503133,0.28301,0.208006,0.228374,0.457493,0.0751704,0.0617783,0.218219,0.000806864|tfbs_overrepresentation_jaspar=MA0003.1;0.00249034,MA0004.1;0.0323383,MA0006.1;0.805256,MA0007.1;0.527135,MA0009.1;0.692256,MA0014.1;8.44724e-05,MA0017.1;0.114651,MA0019.1;0.831299,MA0024.1;0.218258,MA0025.1;0.424514,MA0027.1;1.761,MA0028.1;0.211216,MA0029.1;0.20414,MA0030.1;0.599855,MA0031.1;0.54594,MA0038.1;0.278052,MA0040.1;0.256435,MA0041.1;0.194889,MA0042.1;0.0676782,MA0043.1;0.317434,MA0046.1;0.272953,MA0048.1;0.0543507,MA0050.1;0.165699,MA0051.1;0.0852278,MA0052.1;0.262081,MA0055.1;3.94347,MA0056.1;0,MA0057.1;0.459567,MA0058.1;0.0637459,MA0059.1;0.602887,MA0060.1;0.0325872,MA0061.1;0.225265,MA0063.1;0,MA0066.1;0.265247,MA0067.1;0.517464,MA0068.1;0.485903,MA0069.1;0.26232,MA0070.1;0.25553,MA0071.1;0.375367,MA0072.1;0.249646,MA0073.1;3.22078,MA0074.1;0.488492,MA0076.1;0.0490757,MA0077.1;0.23483,MA0078.1;0.329145,MA0081.1;0.415346,MA0083.1;0.31684,MA0084.1;0.812114,MA0087.1;0.285092,MA0088.1;0.00499668,MA0089.1;0,MA0090.1;0.254892,MA0091.1;0.601218,MA0092.1;0.104375,MA0093.1;0.0369477,MA0095.1;0,MA0098.1;0,MA0100.1;0.212891,MA0101.1;0.196644,MA0103.1;0.12616,MA0105.1;0.820149,MA0106.1;0.103821,MA0107.1;0.434326,MA0108.2;0.451773,MA0109.1;0,MA0111.1;0.276969,MA0113.1;0.0907739,MA0114.1;0.0482129,MA0115.1;0.319533,MA0116.1;0.192879,MA0117.1;0.2956,MA0119.1;0.0768515,MA0122.1;0.310251,MA0124.1;0.472367,MA0125.1;0.411352,MA0130.1;0,MA0131.1;0.132569,MA0132.1;0,MA0133.1;0,MA0135.1;1.63414,MA0136.1;0.0703853,MA0139.1;0.0193078,MA0140.1;0.807516,MA0141.1;0.511721,MA0142.1;1.00667,MA0143.1;0.324036,MA0144.1;0.226898,MA0145.1;0.0172216,MA0146.1;0.00193071,MA0147.1;0.135201,MA0148.1;2.92482,MA0149.1;0.0176552,MA0062.2;0.0089299,MA0035.2;0.217736,MA0039.2;3.85443e-06,MA0138.2;0.802283,MA0002.2;0.115323,MA0137.2;0.14521,MA0104.2;0.0673215,MA0047.2;1.46475,MA0112.2;0.273271,MA0065.2;0.00697715,MA0150.1;0.28493,MA0151.1;0,MA0152.1;0.277277,MA0153.1;0.357941,MA0154.1;0.693751,MA0155.1;0.0264997,MA0156.1;0.00966278,MA0157.1;0.477763,MA0158.1;0,MA0159.1;0.278524,MA0160.1;0.147833,MA0161.1;0,MA0162.1;0.016917,MA0163.1;0.257836,MA0164.1;0.903351,MA0080.2;0.0427068,MA0018.2;0.258438,MA0099.2;1.28306,MA0079.2;0.0191621,MA0102.2;0.861175,MA0258.1;0.71922,MA0259.1;0.0512249,MA0442.1;0}}

Latest revision as of 14:52, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126955978..126955991,-p@chr10:126955978..126955991
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Mm9::chr10:82417942..82417945,-p@chr10:82417942..82417945
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Mm9::chr11:33655044..33655056,-p@chr11:33655044..33655056
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Mm9::chr12:100883267..100883273,+p@chr12:100883267..100883273
+
Mm9::chr12:37542835..37542836,+p1@ENSMUST00000175257
Mm9::chr12:55236123..55236144,+p@chr12:55236123..55236144
+
Mm9::chr12:82049738..82049742,+p@chr12:82049738..82049742
+
Mm9::chr13:54285418..54285432,-p@chr13:54285418..54285432
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Mm9::chr13:97960589..97960594,-p@chr13:97960589..97960594
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Mm9::chr14:51427165..51427186,+p2@Rpph1
Mm9::chr15:47371528..47371540,+p@chr15:47371528..47371540
+
Mm9::chr15:98676191..98676203,-p@chr15:98676191..98676203
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Mm9::chr17:23957909..23957992,+p@chr17:23957909..23957992
+
Mm9::chr17:39985095..39985135,+p@chr17:39985095..39985135
+
Mm9::chr17:39985471..39985552,+p@chr17:39985471..39985552
+
Mm9::chr17:39985696..39985709,+p@chr17:39985696..39985709
+
Mm9::chr17:50559473..50559520,-p@chr17:50559473..50559520
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Mm9::chr17:71313113..71313143,+p@chr17:71313113..71313143
+
Mm9::chr19:46157555..46157566,+p@chr19:46157555..46157566
+
Mm9::chr19:61274672..61274684,-p@chr19:61274672..61274684
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Mm9::chr1:87761176..87761190,-p@chr1:87761176..87761190
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Mm9::chr2:174092554..174092558,-p1@Mir296
Mm9::chr3:37380338..37380362,+p3@ENSMUST00000121415
Mm9::chr3:89823119..89823134,-p3@Ubap2l
Mm9::chr4:138894119..138894145,+p1@ENSMUST00000175168
Mm9::chr4:41154059..41154070,-p@chr4:41154059..41154070
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Mm9::chr4:45359494..45359529,-p@chr4:45359494..45359529
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Mm9::chr4:78419945..78419958,+p@chr4:78419945..78419958
+
Mm9::chr5:110029960..110029965,+p@chr5:110029960..110029965
+
Mm9::chr5:115301801..115301827,+p@chr5:115301801..115301827
+
Mm9::chr5:117660103..117660133,+p@chr5:117660103..117660133
+
Mm9::chr5:130297676..130297688,+p@chr5:130297676..130297688
+
Mm9::chr5:143916652..143916673,-p@chr5:143916652..143916673
-
Mm9::chr5:145893809..145893838,-p@chr5:145893809..145893838
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Mm9::chr5:17282593..17282616,-p1@Mir5109
Mm9::chr5:23001897..23001913,+p@chr5:23001897..23001913
+
Mm9::chr6:11876758..11876790,+p6@Phf14
Mm9::chr6:124665248..124665251,+p1@ENSMUST00000158210
Mm9::chr6:44742926..44742928,+p@chr6:44742926..44742928
+
Mm9::chr7:137977942..137977971,+p1@ENSMUST00000175357
Mm9::chr7:54108537..54108541,+p@chr7:54108537..54108541
+
Mm9::chr8:3177033..3177059,-p@chr8:3177033..3177059
-
Mm9::chr9:113665458..113665471,+p@chr9:113665458..113665471
+
Mm9::chr9:21043754..21043783,-p2@Keap1
Mm9::chrM:13975..13985,-p10@uc012hdm.1
Mm9::chrX:100663351..100663375,-p@chrX:100663351..100663375
-


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:0007000nucleolus organization and biogenesis0.0344846295698197
GO:0045604regulation of epidermal cell differentiation0.0344846295698197
GO:0015030Cajal body0.0344846295698197
GO:0004372glycine hydroxymethyltransferase activity0.0344846295698197
GO:0009048dosage compensation, by inactivation of X chromosome0.0344846295698197
GO:0045682regulation of epidermis development0.0344846295698197
GO:0007549dosage compensation0.0344846295698197
GO:0030532small nuclear ribonucleoprotein complex0.0368713136867206



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><br><br><br>


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)
MA0003.10.00249034
MA0004.10.0323383
MA0006.10.805256
MA0007.10.527135
MA0009.10.692256
MA0014.18.44724e-05
MA0017.10.114651
MA0019.10.831299
MA0024.10.218258
MA0025.10.424514
MA0027.11.761
MA0028.10.211216
MA0029.10.20414
MA0030.10.599855
MA0031.10.54594
MA0038.10.278052
MA0040.10.256435
MA0041.10.194889
MA0042.10.0676782
MA0043.10.317434
MA0046.10.272953
MA0048.10.0543507
MA0050.10.165699
MA0051.10.0852278
MA0052.10.262081
MA0055.13.94347
MA0056.10
MA0057.10.459567
MA0058.10.0637459
MA0059.10.602887
MA0060.10.0325872
MA0061.10.225265
MA0063.10
MA0066.10.265247
MA0067.10.517464
MA0068.10.485903
MA0069.10.26232
MA0070.10.25553
MA0071.10.375367
MA0072.10.249646
MA0073.13.22078
MA0074.10.488492
MA0076.10.0490757
MA0077.10.23483
MA0078.10.329145
MA0081.10.415346
MA0083.10.31684
MA0084.10.812114
MA0087.10.285092
MA0088.10.00499668
MA0089.10
MA0090.10.254892
MA0091.10.601218
MA0092.10.104375
MA0093.10.0369477
MA0095.10
MA0098.10
MA0100.10.212891
MA0101.10.196644
MA0103.10.12616
MA0105.10.820149
MA0106.10.103821
MA0107.10.434326
MA0108.20.451773
MA0109.10
MA0111.10.276969
MA0113.10.0907739
MA0114.10.0482129
MA0115.10.319533
MA0116.10.192879
MA0117.10.2956
MA0119.10.0768515
MA0122.10.310251
MA0124.10.472367
MA0125.10.411352
MA0130.10
MA0131.10.132569
MA0132.10
MA0133.10
MA0135.11.63414
MA0136.10.0703853
MA0139.10.0193078
MA0140.10.807516
MA0141.10.511721
MA0142.11.00667
MA0143.10.324036
MA0144.10.226898
MA0145.10.0172216
MA0146.10.00193071
MA0147.10.135201
MA0148.12.92482
MA0149.10.0176552
MA0062.20.0089299
MA0035.20.217736
MA0039.23.85443e-06
MA0138.20.802283
MA0002.20.115323
MA0137.20.14521
MA0104.20.0673215
MA0047.21.46475
MA0112.20.273271
MA0065.20.00697715
MA0150.10.28493
MA0151.10
MA0152.10.277277
MA0153.10.357941
MA0154.10.693751
MA0155.10.0264997
MA0156.10.00966278
MA0157.10.477763
MA0158.10
MA0159.10.278524
MA0160.10.147833
MA0161.10
MA0162.10.016917
MA0163.10.257836
MA0164.10.903351
MA0080.20.0427068
MA0018.20.258438
MA0099.21.28306
MA0079.20.0191621
MA0102.20.861175
MA0258.10.71922
MA0259.10.0512249
MA0442.10
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