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MCL coexpression mm9:337: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0005409!1.14e-10!47;UBERON:0005153!1.60e-10!17;UBERON:0002048!1.85e-08!14;UBERON:0000117!1.85e-08!14;UBERON:0000171!1.85e-08!14;UBERON:0000170!1.85e-08!14;UBERON:0005597!1.85e-08!14;UBERON:0000118!1.85e-08!14;UBERON:0005157!3.43e-08!20
|ontology_enrichment_uberon=UBERON:0005409!1.14e-10!47;UBERON:0005153!1.60e-10!17;UBERON:0002048!1.85e-08!14;UBERON:0000117!1.85e-08!14;UBERON:0000171!1.85e-08!14;UBERON:0000170!1.85e-08!14;UBERON:0005597!1.85e-08!14;UBERON:0000118!1.85e-08!14;UBERON:0005157!3.43e-08!20
|tfbs_overrepresentation_for_novel_motifs=0.10298,5.26515,0.0894988,0.397943,1.02352,0.419638,0.192737,0.188652,0.204405,0.157546,0.163789,0.184641,0.0729759,0.20111,0.179964,0,0.346366,0.987884,0.328981,0.24339,0.53664,0.142591,0.200489,0.0411684,0.310745,0.220337,1.11659,0.451671,0.213668,0.839421,0.430073,0.430274,1.39536,0.124796,0.0478417,6.0427,0.0352642,0.53714,0.840626,3.48657,0.360254,0.142092,0.516365,0.182247,0.0388978,0.119992,0.283619,0.157367,0.26283,0.217247,0.332337,0.239655,0.190262,0.553844,0.569458,0.594337,0.22823,0.522443,0.284434,0.204634,0.413329,0.246553,0.224761,0.323367,0.213815,0.355898,0.693798,1.02539,0.409398,0.883956,0.0802912,0.94768,0.0310007,0.599674,0.130112,0.94121,0.987924,0.754851,0.398928,0.25704,0.6416,0.360462,0.245495,0.17831,0.496926,0.000774753,0.0422093,0.20538,0.287376,1.18318,0.758722,0.501285,0.44118,0.167903,0.515542,1.49875,0.18465,0.44358,0.283814,2.46758,0.328758,0.430036,0.538321,0.332812,0.33197,0.141825,0.38053,1.46667,0.263369,0.0727888,0.67046,0.539906,0.549141,0.167109,0.765328,0.997376,0.45423,0.128566,0.347417,0.920016,0.604565,0.306855,0.631228,0.274265,0.816304,0.40202,0.198291,0.4354,0.692394,0.387426,0.523273,0.387123,0.665113,1.81142,0.785621,0.245425,0.348707,0.865404,0.739526,1.5459,1.15207,0.698162,0.651432,0.439187,0.326804,0.438656,0.286009,1.50665,1.72329,0.0423084,0.855374,0.00550839,0.555246,1.54024,0.214931,0.629009,0.675146,0.193809,1.12905,0.708025,0.748413,0.496177,0.402392,0.323614,0.324177,0.603124,0.326342,0.540411,0.00304129
|tfbs_overrepresentation_for_novel_motifs=0.10298,5.26515,0.0894988,0.397943,1.02352,0.419638,0.192737,0.188652,0.204405,0.157546,0.163789,0.184641,0.0729759,0.20111,0.179964,0,0.346366,0.987884,0.328981,0.24339,0.53664,0.142591,0.200489,0.0411684,0.310745,0.220337,1.11659,0.451671,0.213668,0.839421,0.430073,0.430274,1.39536,0.124796,0.0478417,6.0427,0.0352642,0.53714,0.840626,3.48657,0.360254,0.142092,0.516365,0.182247,0.0388978,0.119992,0.283619,0.157367,0.26283,0.217247,0.332337,0.239655,0.190262,0.553844,0.569458,0.594337,0.22823,0.522443,0.284434,0.204634,0.413329,0.246553,0.224761,0.323367,0.213815,0.355898,0.693798,1.02539,0.409398,0.883956,0.0802912,0.94768,0.0310007,0.599674,0.130112,0.94121,0.987924,0.754851,0.398928,0.25704,0.6416,0.360462,0.245495,0.17831,0.496926,0.000774753,0.0422093,0.20538,0.287376,1.18318,0.758722,0.501285,0.44118,0.167903,0.515542,1.49875,0.18465,0.44358,0.283814,2.46758,0.328758,0.430036,0.538321,0.332812,0.33197,0.141825,0.38053,1.46667,0.263369,0.0727888,0.67046,0.539906,0.549141,0.167109,0.765328,0.997376,0.45423,0.128566,0.347417,0.920016,0.604565,0.306855,0.631228,0.274265,0.816304,0.40202,0.198291,0.4354,0.692394,0.387426,0.523273,0.387123,0.665113,1.81142,0.785621,0.245425,0.348707,0.865404,0.739526,1.5459,1.15207,0.698162,0.651432,0.439187,0.326804,0.438656,0.286009,1.50665,1.72329,0.0423084,0.855374,0.00550839,0.555246,1.54024,0.214931,0.629009,0.675146,0.193809,1.12905,0.708025,0.748413,0.496177,0.402392,0.323614,0.324177,0.603124,0.326342,0.540411,0.00304129
|tfbs_overrepresentation_jaspar=MA0003.1;0.00285751,MA0004.1;0.126659,MA0006.1;0.0460466,MA0007.1;0.118104,MA0009.1;0.452863,MA0014.1;0.134525,MA0017.1;0.205754,MA0019.1;0.30302,MA0024.1;0.415603,MA0025.1;0.660968,MA0027.1;2.04174,MA0028.1;0.0499059,MA0029.1;0.397373,MA0030.1;0.402861,MA0031.1;0.373333,MA0038.1;0.62805,MA0040.1;0.463641,MA0041.1;1.01943,MA0042.1;0.273359,MA0043.1;0.53743,MA0046.1;0.483941,MA0048.1;0.299714,MA0050.1;0.149886,MA0051.1;0.226644,MA0052.1;0.47061,MA0055.1;4.71123,MA0056.1;0,MA0057.1;0.0191121,MA0058.1;0.0765185,MA0059.1;0.0823381,MA0060.1;0.0217699,MA0061.1;1.23548,MA0063.1;0,MA0066.1;0.212546,MA0067.1;0.764133,MA0068.1;0.0205783,MA0069.1;0.470904,MA0070.1;0.462521,MA0071.1;0.892635,MA0072.1;0.455219,MA0073.1;3.57791e-10,MA0074.1;0.187944,MA0076.1;0.064121,MA0077.1;0.436665,MA0078.1;0.250627,MA0081.1;1.0745,MA0083.1;0.536725,MA0084.1;1.07765,MA0087.1;0.4987,MA0088.1;0.0733979,MA0089.1;0,MA0090.1;0.107485,MA0091.1;0.828453,MA0092.1;0.349135,MA0093.1;0.0530878,MA0095.1;0,MA0098.1;0,MA0100.1;0.532297,MA0101.1;0.292678,MA0103.1;0.476679,MA0105.1;1.29467,MA0106.1;0.256379,MA0107.1;0.462865,MA0108.2;0.320962,MA0109.1;0,MA0111.1;0.369101,MA0113.1;0.2357,MA0114.1;0.0290062,MA0115.1;0.539917,MA0116.1;0.0459718,MA0117.1;0.511373,MA0119.1;0.0869793,MA0122.1;0.528896,MA0124.1;0.714453,MA0125.1;0.646095,MA0130.1;0,MA0131.1;0.299487,MA0132.1;0,MA0133.1;0,MA0135.1;0.569948,MA0136.1;0.201456,MA0139.1;0.182329,MA0140.1;0.180161,MA0141.1;1.34224,MA0142.1;0.949006,MA0143.1;0.247626,MA0144.1;0.293322,MA0145.1;0.29554,MA0146.1;0.287037,MA0147.1;0.0335355,MA0148.1;0.136186,MA0149.1;0.0894222,MA0062.2;0.00879313,MA0035.2;0.18328,MA0039.2;7.41218e-06,MA0138.2;0.293335,MA0002.2;0.0720702,MA0137.2;0.239653,MA0104.2;0.0185242,MA0047.2;0.219739,MA0112.2;0.0857672,MA0065.2;0.172355,MA0150.1;0.376372,MA0151.1;0,MA0152.1;0.219814,MA0153.1;0.584906,MA0154.1;0.292479,MA0155.1;0.210578,MA0156.1;0.0637507,MA0157.1;0.335532,MA0158.1;0,MA0159.1;0.610644,MA0160.1;0.844124,MA0161.1;0,MA0162.1;4.63331e-05,MA0163.1;0.00179914,MA0164.1;0.201705,MA0080.2;0.0584358,MA0018.2;0.208409,MA0099.2;0.288477,MA0079.2;4.29624e-08,MA0102.2;1.12863,MA0258.1;0.107482,MA0259.1;0.0303419,MA0442.1;0
}}
}}

Revision as of 11:35, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:14195225..14195244,-p@chr16:14195225..14195244
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Mm9::chr16:14202194..14202203,-p@chr16:14202194..14202203
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Mm9::chr16:14203288..14203302,-p@chr16:14203288..14203302
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Mm9::chr16:14204794..14204805,-p@chr16:14204794..14204805
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Mm9::chr16:14205227..14205233,-p@chr16:14205227..14205233
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Mm9::chr16:14208379..14208398,-p@chr16:14208379..14208398
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Mm9::chr16:14209743..14209775,+p@chr16:14209743..14209775
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Mm9::chr16:14212642..14212652,-p@chr16:14212642..14212652
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Mm9::chr16:14215928..14215944,-p@chr16:14215928..14215944
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Mm9::chr16:14215976..14215987,-p@chr16:14215976..14215987
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Mm9::chr16:14218083..14218104,-p@chr16:14218083..14218104
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Mm9::chr16:14218991..14219005,-p@chr16:14218991..14219005
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Mm9::chr16:14219029..14219053,-p@chr16:14219029..14219053
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Mm9::chr16:14226602..14226625,-p@chr16:14226602..14226625
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Mm9::chr16:14244006..14244017,-p@chr16:14244006..14244017
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Mm9::chr16:14270168..14270173,-p@chr16:14270168..14270173
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Mm9::chr16:35001354..35001369,+p@chr16:35001354..35001369
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Mm9::chr16:35001846..35001886,+p@chr16:35001846..35001886
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Mm9::chr1:137260434..137260445,+p@chr1:137260434..137260445
+
Mm9::chr3:122808200..122808203,-p@chr3:122808200..122808203
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Mm9::chr6:34696425..34696437,+p@chr6:34696425..34696437
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Mm9::chr6:34696461..34696473,+p@chr6:34696461..34696473
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Mm9::chr6:34696544..34696557,+p@chr6:34696544..34696557
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Mm9::chr6:83478962..83478967,-p@chr6:83478962..83478967
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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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
gastrointestinal system1.14e-1047
epithelial bud1.60e-1017
lung1.85e-0814
respiratory tube1.85e-0814
respiration organ1.85e-0814
pair of lungs1.85e-0814
lung primordium1.85e-0814
lung bud1.85e-0814
epithelial fold3.43e-0820


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)
MA0003.10.00285751
MA0004.10.126659
MA0006.10.0460466
MA0007.10.118104
MA0009.10.452863
MA0014.10.134525
MA0017.10.205754
MA0019.10.30302
MA0024.10.415603
MA0025.10.660968
MA0027.12.04174
MA0028.10.0499059
MA0029.10.397373
MA0030.10.402861
MA0031.10.373333
MA0038.10.62805
MA0040.10.463641
MA0041.11.01943
MA0042.10.273359
MA0043.10.53743
MA0046.10.483941
MA0048.10.299714
MA0050.10.149886
MA0051.10.226644
MA0052.10.47061
MA0055.14.71123
MA0056.10
MA0057.10.0191121
MA0058.10.0765185
MA0059.10.0823381
MA0060.10.0217699
MA0061.11.23548
MA0063.10
MA0066.10.212546
MA0067.10.764133
MA0068.10.0205783
MA0069.10.470904
MA0070.10.462521
MA0071.10.892635
MA0072.10.455219
MA0073.13.57791e-10
MA0074.10.187944
MA0076.10.064121
MA0077.10.436665
MA0078.10.250627
MA0081.11.0745
MA0083.10.536725
MA0084.11.07765
MA0087.10.4987
MA0088.10.0733979
MA0089.10
MA0090.10.107485
MA0091.10.828453
MA0092.10.349135
MA0093.10.0530878
MA0095.10
MA0098.10
MA0100.10.532297
MA0101.10.292678
MA0103.10.476679
MA0105.11.29467
MA0106.10.256379
MA0107.10.462865
MA0108.20.320962
MA0109.10
MA0111.10.369101
MA0113.10.2357
MA0114.10.0290062
MA0115.10.539917
MA0116.10.0459718
MA0117.10.511373
MA0119.10.0869793
MA0122.10.528896
MA0124.10.714453
MA0125.10.646095
MA0130.10
MA0131.10.299487
MA0132.10
MA0133.10
MA0135.10.569948
MA0136.10.201456
MA0139.10.182329
MA0140.10.180161
MA0141.11.34224
MA0142.10.949006
MA0143.10.247626
MA0144.10.293322
MA0145.10.29554
MA0146.10.287037
MA0147.10.0335355
MA0148.10.136186
MA0149.10.0894222
MA0062.20.00879313
MA0035.20.18328
MA0039.27.41218e-06
MA0138.20.293335
MA0002.20.0720702
MA0137.20.239653
MA0104.20.0185242
MA0047.20.219739
MA0112.20.0857672
MA0065.20.172355
MA0150.10.376372
MA0151.10
MA0152.10.219814
MA0153.10.584906
MA0154.10.292479
MA0155.10.210578
MA0156.10.0637507
MA0157.10.335532
MA0158.10
MA0159.10.610644
MA0160.10.844124
MA0161.10
MA0162.14.63331e-05
MA0163.10.00179914
MA0164.10.201705
MA0080.20.0584358
MA0018.20.208409
MA0099.20.288477
MA0079.24.29624e-08
MA0102.21.12863
MA0258.10.107482
MA0259.10.0303419
MA0442.10
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