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MCL coexpression mm9:546: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007100!1.19e-10!18;UBERON:0000948!1.19e-10!18;UBERON:0005498!1.19e-10!18;UBERON:0004140!1.19e-10!18;UBERON:0009881!1.19e-10!18;UBERON:0004141!1.19e-10!18;UBERON:0003084!1.19e-10!18;UBERON:0007005!1.19e-10!18;UBERON:0004139!1.19e-10!18;UBERON:0004291!1.19e-10!18;UBERON:0010314!3.91e-08!92;UBERON:0004535!1.20e-07!23;UBERON:0001009!1.20e-07!23;UBERON:0002021!3.32e-07!10;UBERON:0000411!3.32e-07!10;UBERON:0001950!3.32e-07!10;UBERON:0000025!6.65e-07!114
|ontology_enrichment_uberon=UBERON:0007100!1.19e-10!18;UBERON:0000948!1.19e-10!18;UBERON:0005498!1.19e-10!18;UBERON:0004140!1.19e-10!18;UBERON:0009881!1.19e-10!18;UBERON:0004141!1.19e-10!18;UBERON:0003084!1.19e-10!18;UBERON:0007005!1.19e-10!18;UBERON:0004139!1.19e-10!18;UBERON:0004291!1.19e-10!18;UBERON:0010314!3.91e-08!92;UBERON:0004535!1.20e-07!23;UBERON:0001009!1.20e-07!23;UBERON:0002021!3.32e-07!10;UBERON:0000411!3.32e-07!10;UBERON:0001950!3.32e-07!10;UBERON:0000025!6.65e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.021689,0.204219,0.25808,0.123731,0.269875,0.346405,0.0669598,0.0719629,0.0394224,0.308886,0.336042,0.0670839,0.357027,0.419678,0,0.530547,0.758854,0.0594359,0.100162,1.0052,0.0622339,0.356242,0.388504,0.603782,0.381085,0.0554034,0.287195,0.154744,0.0367763,0.275529,0.624931,0.752328,0.176308,0.135203,0.0302663,0.111136,0.332941,1.10107,0.0808072,0.77022,0.279796,0.295897,0.836602,0.0932122,0.24907,0.457618,0.300372,0.647158,0.92391,0.514446,0.404841,0.137142,0.759566,0.776306,0.363247,1.51619,0.325117,0.0511827,0.36147,0.606104,0.413233,0.963301,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.526777,0.0681764,0.808562,0.0481979,0.0433214,0.0464428,0.447339,0.590017,0.179738,0.247973,0.546623,0.411949,0.0636668,0.69807,0.00290338,0.470313,0.0368325,0.462057,1.41118,0.975915,0.702809,1.5387,0.127646,0.315787,0.287636,0.503836,0.639644,0.457849,0.119684,0.111186,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.804983,0.183341,0.177945,0.218949,0.744577,0.180573,0.313258,0.982794,0.381263,0.0290103,0.26114,0.53175,0.714691,0.813766,1.21719,0.382687,0.446521,1.03573,0.593478,0.931332,0.630607,0.906557,0.406303,0.726634,0.702495,0.877862,1.7391,1.0039,0.0607709,0.231086,0.280962,0.955897,1.77738,1.3796,0.91261,2.70124,0.634793,0.508066,0.280171,0.460443,1.73788,1.22575,0.124893,0.148959,0.0106906,0.761071,0.618088,0.977476,0.839715,0.405736,0.143092,0.222538,0.230865,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,0.110426,1.59747,0.00671205
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.021689,0.204219,0.25808,0.123731,0.269875,0.346405,0.0669598,0.0719629,0.0394224,0.308886,0.336042,0.0670839,0.357027,0.419678,0,0.530547,0.758854,0.0594359,0.100162,1.0052,0.0622339,0.356242,0.388504,0.603782,0.381085,0.0554034,0.287195,0.154744,0.0367763,0.275529,0.624931,0.752328,0.176308,0.135203,0.0302663,0.111136,0.332941,1.10107,0.0808072,0.77022,0.279796,0.295897,0.836602,0.0932122,0.24907,0.457618,0.300372,0.647158,0.92391,0.514446,0.404841,0.137142,0.759566,0.776306,0.363247,1.51619,0.325117,0.0511827,0.36147,0.606104,0.413233,0.963301,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.526777,0.0681764,0.808562,0.0481979,0.0433214,0.0464428,0.447339,0.590017,0.179738,0.247973,0.546623,0.411949,0.0636668,0.69807,0.00290338,0.470313,0.0368325,0.462057,1.41118,0.975915,0.702809,1.5387,0.127646,0.315787,0.287636,0.503836,0.639644,0.457849,0.119684,0.111186,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.804983,0.183341,0.177945,0.218949,0.744577,0.180573,0.313258,0.982794,0.381263,0.0290103,0.26114,0.53175,0.714691,0.813766,1.21719,0.382687,0.446521,1.03573,0.593478,0.931332,0.630607,0.906557,0.406303,0.726634,0.702495,0.877862,1.7391,1.0039,0.0607709,0.231086,0.280962,0.955897,1.77738,1.3796,0.91261,2.70124,0.634793,0.508066,0.280171,0.460443,1.73788,1.22575,0.124893,0.148959,0.0106906,0.761071,0.618088,0.977476,0.839715,0.405736,0.143092,0.222538,0.230865,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,0.110426,1.59747,0.00671205
|tfbs_overrepresentation_jaspar=MA0003.1;0.000592671,MA0004.1;0.258473,MA0006.1;0.1319,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.00088087,MA0017.1;0.150118,MA0019.1;1.2076,MA0024.1;0.608636,MA0025.1;0.873493,MA0027.1;2.275,MA0028.1;0.138956,MA0029.1;0.588275,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.381016,MA0040.1;0.661716,MA0041.1;0.198922,MA0042.1;0.553522,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;0.0293065,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;2.7104,MA0055.1;0.0206669,MA0056.1;0,MA0057.1;0.0252827,MA0058.1;0.183941,MA0059.1;0.19314,MA0060.1;0.0819399,MA0061.1;0.0995825,MA0063.1;0,MA0066.1;0.371389,MA0067.1;0.981551,MA0068.1;0.271058,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.788348,MA0072.1;0.652465,MA0073.1;7.91335e-08,MA0074.1;0.902074,MA0076.1;0.163664,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;0.210747,MA0083.1;0.741151,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;0.171343,MA0089.1;0,MA0090.1;0.231074,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.144649,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;0.199903,MA0103.1;0.157724,MA0105.1;0.0444807,MA0106.1;0.425111,MA0107.1;0.153373,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.679612,MA0113.1;1.82462,MA0114.1;0.0981613,MA0115.1;0.744589,MA0116.1;0.131762,MA0117.1;0.713754,MA0119.1;0.200349,MA0122.1;0.732707,MA0124.1;2.14267,MA0125.1;0.857794,MA0130.1;0,MA0131.1;0.476296,MA0132.1;0,MA0133.1;0,MA0135.1;0.77683,MA0136.1;0.357464,MA0139.1;0.0649474,MA0140.1;0.879752,MA0141.1;0.985967,MA0142.1;0.547747,MA0143.1;0.414534,MA0144.1;0.100037,MA0145.1;0.0731548,MA0146.1;0.00143436,MA0147.1;0.107632,MA0148.1;0.747422,MA0149.1;15.0952,MA0062.2;0.046824,MA0035.2;0.33429,MA0039.2;0.00306976,MA0138.2;0.469076,MA0002.2;0.5079,MA0137.2;0.169785,MA0104.2;0.0740839,MA0047.2;0.380343,MA0112.2;0.0731504,MA0065.2;0.190247,MA0150.1;0.688872,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.0285118,MA0155.1;0.0198039,MA0156.1;0.163042,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.114033,MA0160.1;0.274172,MA0161.1;0,MA0162.1;0.00209837,MA0163.1;0.00169705,MA0164.1;0.357779,MA0080.2;0.153997,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;3.37562e-09,MA0102.2;1.35579,MA0258.1;0.0900907,MA0259.1;0.101001,MA0442.1;0
}}
}}

Revision as of 11:55, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr2:168333672..168333721,-p@chr2:168333672..168333721
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Mm9::chr6:118833621..118833641,-p@chr6:118833621..118833641
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Mm9::chr6:118918149..118918165,-p@chr6:118918149..118918165
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Mm9::chr6:118918372..118918378,-p@chr6:118918372..118918378
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Mm9::chr6:118947401..118947413,-p@chr6:118947401..118947413
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Mm9::chr6:118964375..118964404,-p@chr6:118964375..118964404
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Mm9::chr6:118967054..118967059,-p@chr6:118967054..118967059
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Mm9::chr6:118980881..118980892,-p@chr6:118980881..118980892
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Mm9::chr6:118980957..118980998,-p@chr6:118980957..118980998
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Mm9::chr6:118981045..118981063,-p@chr6:118981045..118981063
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Mm9::chr6:118981213..118981237,-p@chr6:118981213..118981237
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Mm9::chr6:118981274..118981291,-p@chr6:118981274..118981291
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Mm9::chr6:118982732..118982744,-p@chr6:118982732..118982744
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Mm9::chr6:119036678..119036690,-p@chr6:119036678..119036690
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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
primary circulatory organ1.19e-1018
heart1.19e-1018
primitive heart tube1.19e-1018
primary heart field1.19e-1018
anterior lateral plate mesoderm1.19e-1018
heart tube1.19e-1018
heart primordium1.19e-1018
cardiac mesoderm1.19e-1018
cardiogenic plate1.19e-1018
heart rudiment1.19e-1018
structure with developmental contribution from neural crest3.91e-0892
cardiovascular system1.20e-0723
circulatory system1.20e-0723
occipital lobe3.32e-0710
visual cortex3.32e-0710
neocortex3.32e-0710
tube6.65e-07114


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)
MA0003.10.000592671
MA0004.10.258473
MA0006.10.1319
MA0007.10.246385
MA0009.10.649874
MA0014.10.00088087
MA0017.10.150118
MA0019.11.2076
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.138956
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.10.553522
MA0043.10.74191
MA0046.10.683926
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.12.7104
MA0055.10.0206669
MA0056.10
MA0057.10.0252827
MA0058.10.183941
MA0059.10.19314
MA0060.10.0819399
MA0061.10.0995825
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.271058
MA0069.10.669676
MA0070.10.660488
MA0071.10.788348
MA0072.10.652465
MA0073.17.91335e-08
MA0074.10.902074
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.171343
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.199903
MA0103.10.157724
MA0105.10.0444807
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.11.82462
MA0114.10.0981613
MA0115.10.744589
MA0116.10.131762
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.12.14267
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.357464
MA0139.10.0649474
MA0140.10.879752
MA0141.10.985967
MA0142.10.547747
MA0143.10.414534
MA0144.10.100037
MA0145.10.0731548
MA0146.10.00143436
MA0147.10.107632
MA0148.10.747422
MA0149.115.0952
MA0062.20.046824
MA0035.20.33429
MA0039.20.00306976
MA0138.20.469076
MA0002.20.5079
MA0137.20.169785
MA0104.20.0740839
MA0047.20.380343
MA0112.20.0731504
MA0065.20.190247
MA0150.10.688872
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.0285118
MA0155.10.0198039
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.114033
MA0160.10.274172
MA0161.10
MA0162.10.00209837
MA0163.10.00169705
MA0164.10.357779
MA0080.20.153997
MA0018.20.366212
MA0099.20.463355
MA0079.23.37562e-09
MA0102.21.35579
MA0258.10.0900907
MA0259.10.101001
MA0442.10
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