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MCL coexpression mm9:545: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000477!5.48e-18!244;UBERON:0000481!8.94e-18!230;UBERON:0000073!2.30e-13!54;UBERON:0004111!6.06e-13!122;UBERON:0000025!2.55e-12!114;UBERON:0001049!4.70e-12!52;UBERON:0005068!4.70e-12!52;UBERON:0006241!4.70e-12!52;UBERON:0007135!4.70e-12!52;UBERON:0010314!2.06e-10!92;UBERON:0011216!3.26e-10!194;UBERON:0001017!3.40e-10!73;UBERON:0000955!6.93e-10!47;UBERON:0006238!6.93e-10!47;UBERON:0001016!1.65e-09!75;UBERON:0002616!2.01e-09!46;UBERON:0002020!2.61e-09!34;UBERON:0000160!5.68e-09!31;UBERON:0003103!8.07e-09!43;UBERON:0003080!9.00e-08!40;UBERON:0002021!1.26e-07!10;UBERON:0000411!1.26e-07!10;UBERON:0001950!1.26e-07!10;UBERON:0002780!2.27e-07!39;UBERON:0001890!2.27e-07!39;UBERON:0006240!2.27e-07!39;UBERON:0003528!3.58e-07!29;UBERON:0002791!3.58e-07!29;UBERON:0001893!3.58e-07!29;UBERON:0002346!4.90e-07!64;UBERON:0003075!4.90e-07!64;UBERON:0007284!4.90e-07!64;UBERON:0000467!5.17e-07!308;UBERON:0000480!5.17e-07!308
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.284621,0.204219,0.716126,0.781942,0.743234,0.346405,0.237242,0.536572,0.112618,0.308886,0.336042,0.0670839,1.67598,0.419678,0,0.530547,1.24126,0.814719,1.0999,0.523517,0.0622339,0.356242,0.388504,0.210021,2.64354,1.66983,1.42727,0.154744,0.145734,1.38465,0.624931,0.117091,0.0464745,0.135203,0.0766511,0.111136,0.332941,0.662669,0.0808072,0.77022,0.279796,0.145909,1.35349,0.0379861,0.24907,1.15859,0.812613,0.0394476,0.92391,0.514446,0.404841,0.0341327,0.759566,0.776306,0.952972,0.163199,0.325117,0.190698,1.69149,0.606104,0.413233,0.569343,0.504093,0.372973,0.541429,0.908031,1.25063,1.46477,1.10561,0.189925,0.0700673,0.0145353,0.808562,0.181606,0.166516,0.396955,0.447339,0.590017,0.179738,0.530081,0.546623,0.411949,0.0636668,0.69807,0.00290338,0.0223411,0.145915,2.03467,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.0848579,0.503836,0.639644,3.00051,0.0288834,1.74455,0.624668,0.742871,0.514993,0.514023,0.76508,0.569344,0.804983,0.539826,0.177945,0.218949,0.744577,0.533113,0.313258,0.982794,0.381263,0.0290103,0.26114,0.53175,0.352143,0.813766,0.484912,0.995764,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.129636,0.726634,0.252176,0.877862,0.375176,1.0039,0.012643,0.231086,0.280962,0.955897,1.77738,1.3796,4.9638,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.124893,0.148959,0.0106906,0.761071,0.29706,0.374365,0.839715,0.405736,0.143092,0.222538,0.230865,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,0.110426,0.33468,0.000933345
|tfbs_overrepresentation_jaspar=MA0003.1;5.9896e-05,MA0004.1;0.717031,MA0006.1;0.412095,MA0007.1;2.76506,MA0009.1;0.649874,MA0014.1;0.00638392,MA0017.1;0.150118,MA0019.1;0.480432,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;0.189008,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;0.0293065,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;0.669354,MA0055.1;0.0652519,MA0056.1;0,MA0057.1;0.0252827,MA0058.1;0.541281,MA0059.1;1.68775,MA0060.1;0.0819399,MA0061.1;0.0995825,MA0063.1;0,MA0066.1;0.371389,MA0067.1;0.981551,MA0068.1;0.0266408,MA0069.1;5.25829,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;2.48172e-05,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;0.0136969,MA0089.1;0,MA0090.1;0.231074,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.872649,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;0.199903,MA0103.1;0.157724,MA0105.1;0.170132,MA0106.1;0.425111,MA0107.1;0.153373,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.242308,MA0113.1;1.03368,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;1.29812,MA0140.1;0.879752,MA0141.1;0.171891,MA0142.1;0.547747,MA0143.1;1.87424,MA0144.1;1.11784,MA0145.1;0.0731548,MA0146.1;0.00143436,MA0147.1;0.349075,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;0.046824,MA0035.2;2.4188,MA0039.2;1.17257e-05,MA0138.2;0.469076,MA0002.2;0.0664561,MA0137.2;0.506794,MA0104.2;0.257564,MA0047.2;0.380343,MA0112.2;0.0158338,MA0065.2;0.0159336,MA0150.1;0.246295,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;0.365914,MA0160.1;0.274172,MA0161.1;0,MA0162.1;0.00209837,MA0163.1;0.00169705,MA0164.1;1.67861,MA0080.2;0.153997,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;3.62432e-10,MA0102.2;1.35579,MA0258.1;0.301988,MA0259.1;1.65358,MA0442.1;0
}}

Latest revision as of 15:29, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr1:166367547..166367556,-p@chr1:166367547..166367556
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Mm9::chr1:166367979..166367990,-p@chr1:166367979..166367990
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Mm9::chr1:166368108..166368130,-p@chr1:166368108..166368130
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Mm9::chr1:166368171..166368190,-p@chr1:166368171..166368190
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Mm9::chr1:166368306..166368326,-p@chr1:166368306..166368326
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Mm9::chr1:166368472..166368510,-p@chr1:166368472..166368510
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Mm9::chr1:166368526..166368551,-p@chr1:166368526..166368551
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Mm9::chr1:166368555..166368628,-p@chr1:166368555..166368628
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Mm9::chr1:166368606..166368638,+p@chr1:166368606..166368638
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Mm9::chr1:166371689..166371707,-p@chr1:166371689..166371707
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Mm9::chr1:166371738..166371749,-p@chr1:166371738..166371749
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Mm9::chr1:166373357..166373391,+p@chr1:166373357..166373391
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Mm9::chr1:166373395..166373424,+p@chr1:166373395..166373424
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Mm9::chr1:166383623..166383655,+p@chr1:166383623..166383655
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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
anatomical cluster5.48e-18244
multi-tissue structure8.94e-18230
regional part of nervous system2.30e-1354
anatomical conduit6.06e-13122
tube2.55e-12114
neural tube4.70e-1252
neural rod4.70e-1252
future spinal cord4.70e-1252
neural keel4.70e-1252
structure with developmental contribution from neural crest2.06e-1092
organ system subdivision3.26e-10194
central nervous system3.40e-1073
brain6.93e-1047
future brain6.93e-1047
nervous system1.65e-0975
regional part of brain2.01e-0946
gray matter2.61e-0934
intestine5.68e-0931
compound organ8.07e-0943
anterior neural tube9.00e-0840
occipital lobe1.26e-0710
visual cortex1.26e-0710
neocortex1.26e-0710
regional part of forebrain2.27e-0739
forebrain2.27e-0739
future forebrain2.27e-0739
brain grey matter3.58e-0729
regional part of telencephalon3.58e-0729
telencephalon3.58e-0729
neurectoderm4.90e-0764
neural plate4.90e-0764
presumptive neural plate4.90e-0764
anatomical system5.17e-07308
anatomical group5.17e-07308


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)
MA0003.15.9896e-05
MA0004.10.717031
MA0006.10.412095
MA0007.12.76506
MA0009.10.649874
MA0014.10.00638392
MA0017.10.150118
MA0019.10.480432
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
MA0042.10.189008
MA0043.10.74191
MA0046.10.683926
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.10.0652519
MA0056.10
MA0057.10.0252827
MA0058.10.541281
MA0059.11.68775
MA0060.10.0819399
MA0061.10.0995825
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.0266408
MA0069.15.25829
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.12.48172e-05
MA0074.10.902074
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0136969
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.872649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.199903
MA0103.10.157724
MA0105.10.170132
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.242308
MA0113.11.03368
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
MA0139.11.29812
MA0140.10.879752
MA0141.10.171891
MA0142.10.547747
MA0143.11.87424
MA0144.11.11784
MA0145.10.0731548
MA0146.10.00143436
MA0147.10.349075
MA0148.10.271704
MA0149.10.204102
MA0062.20.046824
MA0035.22.4188
MA0039.21.17257e-05
MA0138.20.469076
MA0002.20.0664561
MA0137.20.506794
MA0104.20.257564
MA0047.20.380343
MA0112.20.0158338
MA0065.20.0159336
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.0285118
MA0155.10.0198039
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.10.274172
MA0161.10
MA0162.10.00209837
MA0163.10.00169705
MA0164.11.67861
MA0080.20.153997
MA0018.20.366212
MA0099.20.463355
MA0079.23.62432e-10
MA0102.21.35579
MA0258.10.301988
MA0259.11.65358
MA0442.10
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