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MCL coexpression mm9:515: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002371!6.87e-10!16;UBERON:0001474!1.69e-09!22;UBERON:0004765!1.69e-09!22;UBERON:0001434!1.69e-09!22;UBERON:0002193!3.83e-09!48;UBERON:0002405!3.83e-09!48;UBERON:0000926!2.33e-08!120;UBERON:0004120!2.33e-08!120;UBERON:0006603!2.33e-08!120;UBERON:0002390!3.07e-08!45;UBERON:0003061!3.07e-08!45;UBERON:0002204!6.39e-08!32;UBERON:0003081!8.06e-08!87
|tfbs_overrepresentation_for_novel_motifs=0.6379,0.153651,0.204219,0.716126,0.391122,0.743234,0.346405,0.237242,0.251553,0.646925,0.308886,0.892635,0.0670839,0.357027,0.830717,0,0.530547,0.118546,0.0594359,0.751449,1.59417,0.837419,0.356242,0.77745,0.603782,1.75954,0.0554034,0.782755,1.46612,0.338204,0.275529,0.624931,0.117091,0.702925,0.420513,3.38218,0.111136,0.332941,0.662669,3.29256,0.77022,0.279796,2.31403,0.136236,0.0109479,0.695306,0.457618,0.300372,0.929173,0.92391,0.514446,0.404841,0.584697,0.759566,0.776306,0.363247,0.163199,0.325117,0.190698,0.36147,0.606104,0.413233,0.963301,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.899779,0.0145353,0.808562,0.0481979,0.0433214,1.08401,0.447339,0.590017,1.61198,0.530081,0.546623,0.411949,1.2842,0.69807,0.0177525,4.42758,0.0368325,0.462057,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.601346,0.503836,0.639644,0.457849,0.529405,1.74455,0.624668,0.742871,0.514993,1.27935,0.279432,0.569344,0.296997,0.183341,0.177945,0.218949,0.744577,0.180573,0.313258,2.251,0.119923,0.189757,0.26114,1.31704,0.352143,0.813766,0.484912,0.995764,1.13466,1.03573,0.593478,0.353461,0.630607,0.906557,0.406303,0.726634,0.252176,0.877862,0.375176,1.0039,0.323891,1.21865,0.768569,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,1.26666,9.31172,0.460443,1.73788,1.22575,0.787076,0.3445,0.0106906,0.761071,0.0882878,0.977476,3.24753,0.405736,0.143092,1.18597,0.230865,0.96517,0.697256,0.593895,0.620756,3.21432,0.367885,0.110426,0.33468,0.0249603
|tfbs_overrepresentation_jaspar=MA0003.1;0.0100854,MA0004.1;0.258473,MA0006.1;0.412095,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.00088087,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;0.789929,MA0051.1;0.388883,MA0052.1;2.7104,MA0055.1;0.14835,MA0056.1;0,MA0057.1;0.107353,MA0058.1;0.541281,MA0059.1;0.19314,MA0060.1;0.0819399,MA0061.1;0.671982,MA0063.1;0,MA0066.1;0.970926,MA0067.1;0.981551,MA0068.1;1.17375,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;2.56907,MA0074.1;0.340281,MA0076.1;0.163664,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;0.605506,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;0.444403,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;0.46624,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.242308,MA0113.1;0.400008,MA0114.1;0.323836,MA0115.1;0.744589,MA0116.1;0.131762,MA0117.1;0.713754,MA0119.1;0.200349,MA0122.1;0.732707,MA0124.1;0.929684,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;0.330266,MA0141.1;0.171891,MA0142.1;0.547747,MA0143.1;0.414534,MA0144.1;0.100037,MA0145.1;0.370377,MA0146.1;0.00143436,MA0147.1;0.107632,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;0.177386,MA0035.2;0.33429,MA0039.2;0.00913764,MA0138.2;0.469076,MA0002.2;1.31437,MA0137.2;0.169785,MA0104.2;0.257564,MA0047.2;0.380343,MA0112.2;0.189423,MA0065.2;0.0735294,MA0150.1;0.688872,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.283993,MA0155.1;0.0879017,MA0156.1;0.490212,MA0157.1;1.28808,MA0158.1;0,MA0159.1;0.114033,MA0160.1;0.274172,MA0161.1;0,MA0162.1;0.0134677,MA0163.1;0.00169705,MA0164.1;0.357779,MA0080.2;2.09808,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;1.60703,MA0102.2;1.35579,MA0258.1;0.626814,MA0259.1;0.101001,MA0442.1;0
}}

Latest revision as of 15:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:57447746..57447774,+p@chr10:57447746..57447774
+
Mm9::chr13:56280012..56280082,-p1@Tifab
Mm9::chr18:36886225..36886240,-p3@Cd14
Mm9::chr18:46733954..46733965,-p3@Ticam2
Mm9::chr18:46734123..46734142,-p1@Ticam2
Mm9::chr19:11543843..11543871,+p3@Ms4a6c
Mm9::chr19:11543877..11543893,+p1@Ms4a6c
Mm9::chr19:11543896..11543909,+p4@Ms4a6c
Mm9::chr19:11543959..11543992,+p2@Ms4a6c
Mm9::chr1:173612208..173612223,+p2@Cd48
Mm9::chr4:140137689..140137710,-p3@Arhgef10l
Mm9::chr6:137359296..137359309,+p10@Ptpro
Mm9::chr6:137359366..137359373,+p9@Ptpro
Mm9::chr6:137359577..137359592,+p@chr6:137359577..137359592
+


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:0045323interleukin-1 receptor complex0.0333073388941277
GO:0048503GPI anchor binding0.0333073388941277
GO:0035091phosphoinositide binding0.0379483483932656
GO:0005886plasma membrane0.0379483483932656
GO:0005543phospholipid binding0.0379483483932656



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
bone marrow6.87e-1016
bone element1.69e-0922
skeletal element1.69e-0922
skeletal system1.69e-0922
hemolymphoid system3.83e-0948
immune system3.83e-0948
mesoderm2.33e-08120
mesoderm-derived structure2.33e-08120
presumptive mesoderm2.33e-08120
hematopoietic system3.07e-0845
blood island3.07e-0845
musculoskeletal system6.39e-0832
lateral plate mesoderm8.06e-0887


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)
MA0003.10.0100854
MA0004.10.258473
MA0006.10.412095
MA0007.10.246385
MA0009.10.649874
MA0014.10.00088087
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
MA0050.10.789929
MA0051.10.388883
MA0052.12.7104
MA0055.10.14835
MA0056.10
MA0057.10.107353
MA0058.10.541281
MA0059.10.19314
MA0060.10.0819399
MA0061.10.671982
MA0063.10
MA0066.10.970926
MA0067.10.981551
MA0068.11.17375
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.12.56907
MA0074.10.340281
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.605506
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.0136969
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.199903
MA0103.10.157724
MA0105.10.170132
MA0106.10.425111
MA0107.10.46624
MA0108.20.50131
MA0109.10
MA0111.10.242308
MA0113.10.400008
MA0114.10.323836
MA0115.10.744589
MA0116.10.131762
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.357464
MA0139.10.0649474
MA0140.10.330266
MA0141.10.171891
MA0142.10.547747
MA0143.10.414534
MA0144.10.100037
MA0145.10.370377
MA0146.10.00143436
MA0147.10.107632
MA0148.10.271704
MA0149.10.204102
MA0062.20.177386
MA0035.20.33429
MA0039.20.00913764
MA0138.20.469076
MA0002.21.31437
MA0137.20.169785
MA0104.20.257564
MA0047.20.380343
MA0112.20.189423
MA0065.20.0735294
MA0150.10.688872
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.283993
MA0155.10.0879017
MA0156.10.490212
MA0157.11.28808
MA0158.10
MA0159.10.114033
MA0160.10.274172
MA0161.10
MA0162.10.0134677
MA0163.10.00169705
MA0164.10.357779
MA0080.22.09808
MA0018.20.366212
MA0099.20.463355
MA0079.21.60703
MA0102.21.35579
MA0258.10.626814
MA0259.10.101001
MA0442.10
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