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MCL coexpression mm9:289: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000468!2.81e-11!333;UBERON:0009569!1.91e-09!66;UBERON:0000922!4.46e-09!320;UBERON:0002048!4.88e-08!14;UBERON:0000117!4.88e-08!14;UBERON:0000171!4.88e-08!14;UBERON:0000170!4.88e-08!14;UBERON:0005597!4.88e-08!14;UBERON:0000118!4.88e-08!14;UBERON:0005177!6.20e-08!79;UBERON:0001048!9.70e-08!134;UBERON:0004872!8.13e-07!33
|ontology_enrichment_uberon=UBERON:0000468!2.81e-11!333;UBERON:0009569!1.91e-09!66;UBERON:0000922!4.46e-09!320;UBERON:0002048!4.88e-08!14;UBERON:0000117!4.88e-08!14;UBERON:0000171!4.88e-08!14;UBERON:0000170!4.88e-08!14;UBERON:0005597!4.88e-08!14;UBERON:0000118!4.88e-08!14;UBERON:0005177!6.20e-08!79;UBERON:0001048!9.70e-08!134;UBERON:0004872!8.13e-07!33
|tfbs_overrepresentation_for_novel_motifs=0.0719497,0.0321192,0.061087,0.305194,0.105881,0.666391,0.148388,0.943591,1.00085,9.52612e-05,0.123115,0.435892,0.115878,0.155782,0.531987,0,0.288299,0.244795,0.00617798,0.0253863,0.710633,0.0693426,0.155233,2.00197,0.229078,0.17289,0.0891743,0.109159,0.14763,0.0150989,0.101869,1.71177,0.0224505,0.157123,0.0292504,0.251881,0.0203772,0.139162,0.617657,0.0111719,0.47293,0.104517,0.301531,0.122302,0.144932,0.0859418,0.230231,0.117576,0.331299,0.150553,0.27523,0.190239,0.107542,0.485586,0.500658,0.160159,0.0411094,0.13388,0.00461258,0.158905,0.351242,0.196469,0.142906,0.266898,0.167068,0.297204,0.621417,0.947606,0.347523,0.807939,0.0538018,0.979268,0.0123689,3.32557,0.301544,0.00332107,0.29001,0.632797,0.896182,0.0488158,0.447591,0.301475,0.195512,0.402298,0.430864,0.000153426,14.277,0.118219,0.233678,1.10402,0.684894,0.435043,0.984712,2.58025,0.01524,0.158698,0.112615,0.379937,0.23041,0.0351285,0.701859,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,0.369494,0.188807,0.047957,0.0689293,0.472153,6.15277,0.125988,0.691366,0.467924,0.00234927,0.0930994,0.28928,1.39786,0.534627,0.251614,0.174046,0.221668,0.741383,0.340552,0.153289,0.372164,0.620047,0.814652,1.15543,0.615552,0.593454,0.503994,0.711262,0.683297,0.261933,0.105244,0.6661,1.46501,1.07314,0.625675,0.181758,0.375761,0.270089,1.68745,0.232424,1.42588,0.0766814,0.10738,0.232803,0.0017162,0.486938,0.0132221,0.970324,0.558342,0.1909,0.567187,4.52961,0.0755084,0.674799,0.430147,0.340904,0.0679754,0.26765,0.163443,0.223583,0.433548,0.140211
|tfbs_overrepresentation_for_novel_motifs=0.0719497,0.0321192,0.061087,0.305194,0.105881,0.666391,0.148388,0.943591,1.00085,9.52612e-05,0.123115,0.435892,0.115878,0.155782,0.531987,0,0.288299,0.244795,0.00617798,0.0253863,0.710633,0.0693426,0.155233,2.00197,0.229078,0.17289,0.0891743,0.109159,0.14763,0.0150989,0.101869,1.71177,0.0224505,0.157123,0.0292504,0.251881,0.0203772,0.139162,0.617657,0.0111719,0.47293,0.104517,0.301531,0.122302,0.144932,0.0859418,0.230231,0.117576,0.331299,0.150553,0.27523,0.190239,0.107542,0.485586,0.500658,0.160159,0.0411094,0.13388,0.00461258,0.158905,0.351242,0.196469,0.142906,0.266898,0.167068,0.297204,0.621417,0.947606,0.347523,0.807939,0.0538018,0.979268,0.0123689,3.32557,0.301544,0.00332107,0.29001,0.632797,0.896182,0.0488158,0.447591,0.301475,0.195512,0.402298,0.430864,0.000153426,14.277,0.118219,0.233678,1.10402,0.684894,0.435043,0.984712,2.58025,0.01524,0.158698,0.112615,0.379937,0.23041,0.0351285,0.701859,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,0.369494,0.188807,0.047957,0.0689293,0.472153,6.15277,0.125988,0.691366,0.467924,0.00234927,0.0930994,0.28928,1.39786,0.534627,0.251614,0.174046,0.221668,0.741383,0.340552,0.153289,0.372164,0.620047,0.814652,1.15543,0.615552,0.593454,0.503994,0.711262,0.683297,0.261933,0.105244,0.6661,1.46501,1.07314,0.625675,0.181758,0.375761,0.270089,1.68745,0.232424,1.42588,0.0766814,0.10738,0.232803,0.0017162,0.486938,0.0132221,0.970324,0.558342,0.1909,0.567187,4.52961,0.0755084,0.674799,0.430147,0.340904,0.0679754,0.26765,0.163443,0.223583,0.433548,0.140211
|tfbs_overrepresentation_jaspar=MA0003.1;5.38126e-06,MA0004.1;0.305832,MA0006.1;0.519243,MA0007.1;0.084375,MA0009.1;0.388771,MA0014.1;1.14493e-06,MA0017.1;0.141194,MA0019.1;0.248074,MA0024.1;0.353393,MA0025.1;0.589418,MA0027.1;1.95996,MA0028.1;0.0307479,MA0029.1;0.336166,MA0030.1;0.341346,MA0031.1;0.84229,MA0038.1;0.17284,MA0040.1;0.399043,MA0041.1;3.51117,MA0042.1;2.17068,MA0043.1;0.469769,MA0046.1;0.418434,MA0048.1;0.00152438,MA0050.1;0.358374,MA0051.1;0.178537,MA0052.1;0.405693,MA0055.1;0.0128114,MA0056.1;0,MA0057.1;0.0079352,MA0058.1;0.0508517,MA0059.1;0.203408,MA0060.1;0.056085,MA0061.1;0.629988,MA0063.1;0,MA0066.1;0.165937,MA0067.1;0.690195,MA0068.1;0.0311649,MA0069.1;0.405974,MA0070.1;0.397975,MA0071.1;0.110717,MA0072.1;1.01402,MA0073.1;0.00399136,MA0074.1;0.870613,MA0076.1;0.0413193,MA0077.1;0.373365,MA0078.1;0.200156,MA0081.1;0.230196,MA0083.1;0.469091,MA0084.1;0.999346,MA0087.1;0.432564,MA0088.1;0.00268442,MA0089.1;0,MA0090.1;0.261914,MA0091.1;1.10357,MA0092.1;0.262306,MA0093.1;0.133673,MA0095.1;0,MA0098.1;0,MA0100.1;0.841692,MA0101.1;0.467124,MA0103.1;0.629824,MA0105.1;0.0207906,MA0106.1;0.205373,MA0107.1;2.36074,MA0108.2;0.264668,MA0109.1;0,MA0111.1;0.58732,MA0113.1;0.186674,MA0114.1;0.374791,MA0115.1;0.472164,MA0116.1;0.0279031,MA0117.1;0.44472,MA0119.1;0.214295,MA0122.1;0.461557,MA0124.1;0.641584,MA0125.1;0.574947,MA0130.1;0,MA0131.1;0.244817,MA0132.1;0,MA0133.1;0,MA0135.1;0.501131,MA0136.1;0.156089,MA0139.1;0.00733889,MA0140.1;0.13735,MA0141.1;0.0450982,MA0142.1;0.302401,MA0143.1;0.573785,MA0144.1;0.196833,MA0145.1;0.087554,MA0146.1;0.00112958,MA0147.1;0.019196,MA0148.1;0.327464,MA0149.1;0.061026,MA0062.2;0.00387198,MA0035.2;0.432878,MA0039.2;3.40338e-09,MA0138.2;0.239154,MA0002.2;1.26879,MA0137.2;0.383209,MA0104.2;0.00945983,MA0047.2;0.513086,MA0112.2;0.0141317,MA0065.2;0.000444712,MA0150.1;1.49668,MA0151.1;0,MA0152.1;0.172422,MA0153.1;0.515592,MA0154.1;0.00977116,MA0155.1;0.00517423,MA0156.1;0.0410387,MA0157.1;0.278203,MA0158.1;0,MA0159.1;0.0935777,MA0160.1;0.101031,MA0161.1;0,MA0162.1;6.8927e-06,MA0163.1;0.00147503,MA0164.1;0.15631,MA0080.2;0.146586,MA0018.2;0.162257,MA0099.2;0.234689,MA0079.2;0,MA0102.2;1.04989,MA0258.1;0.171703,MA0259.1;0.0170425,MA0442.1;0
}}
}}

Revision as of 11:30, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:12450176..12450205,+p@chr14:12450176..12450205
+
Mm9::chr14:33691561..33691572,+p@chr14:33691561..33691572
+
Mm9::chr15:25556204..25556227,+p@chr15:25556204..25556227
+
Mm9::chr16:57569878..57569892,+p@chr16:57569878..57569892
+
Mm9::chr16:57569965..57569979,+p@chr16:57569965..57569979
+
Mm9::chr17:75926800..75926804,+p@chr17:75926800..75926804
+
Mm9::chr18:12219930..12219941,-p@chr18:12219930..12219941
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Mm9::chr18:47435410..47435418,-p@chr18:47435410..47435418
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Mm9::chr1:152571874..152571880,-p@chr1:152571874..152571880
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Mm9::chr2:145556796..145556800,+p@chr2:145556796..145556800
+
Mm9::chr2:44922681..44922694,-p@chr2:44922681..44922694
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Mm9::chr2:60740819..60740824,-p@chr2:60740819..60740824
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Mm9::chr2:60754542..60754549,-p@chr2:60754542..60754549
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Mm9::chr3:81897636..81897649,-p@chr3:81897636..81897649
-
Mm9::chr4:136035787..136035792,+p@chr4:136035787..136035792
+
Mm9::chr5:45173766..45173795,-p@chr5:45173766..45173795
-
Mm9::chr6:128076700..128076714,-p@chr6:128076700..128076714
-
Mm9::chr8:11325485..11325492,+p@chr8:11325485..11325492
+
Mm9::chr8:11325581..11325600,+p@chr8:11325581..11325600
+
Mm9::chr8:11352046..11352061,+p@chr8:11352046..11352061
+
Mm9::chr9:118612466..118612477,+p@chr9:118612466..118612477
+
Mm9::chr9:118612493..118612503,+p@chr9:118612493..118612503
+
Mm9::chr9:118612509..118612522,+p@chr9:118612509..118612522
+
Mm9::chr9:118612553..118612564,+p@chr9:118612553..118612564
+
Mm9::chr9:118612595..118612606,+p@chr9:118612595..118612606
+
Mm9::chr9:118612613..118612630,+p@chr9:118612613..118612630
+
Mm9::chr9:118612890..118612907,+p@chr9:118612890..118612907
+
Mm9::chr9:118744610..118744624,+p@chr9:118744610..118744624
+
Mm9::chr9:118744639..118744676,+p@chr9:118744639..118744676
+


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
multi-cellular organism2.81e-11333
subdivision of trunk1.91e-0966
embryo4.46e-09320
lung4.88e-0814
respiratory tube4.88e-0814
respiration organ4.88e-0814
pair of lungs4.88e-0814
lung primordium4.88e-0814
lung bud4.88e-0814
trunk region element6.20e-0879
primordium9.70e-08134
splanchnic layer of lateral plate mesoderm8.13e-0733


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)
MA0003.15.38126e-06
MA0004.10.305832
MA0006.10.519243
MA0007.10.084375
MA0009.10.388771
MA0014.11.14493e-06
MA0017.10.141194
MA0019.10.248074
MA0024.10.353393
MA0025.10.589418
MA0027.11.95996
MA0028.10.0307479
MA0029.10.336166
MA0030.10.341346
MA0031.10.84229
MA0038.10.17284
MA0040.10.399043
MA0041.13.51117
MA0042.12.17068
MA0043.10.469769
MA0046.10.418434
MA0048.10.00152438
MA0050.10.358374
MA0051.10.178537
MA0052.10.405693
MA0055.10.0128114
MA0056.10
MA0057.10.0079352
MA0058.10.0508517
MA0059.10.203408
MA0060.10.056085
MA0061.10.629988
MA0063.10
MA0066.10.165937
MA0067.10.690195
MA0068.10.0311649
MA0069.10.405974
MA0070.10.397975
MA0071.10.110717
MA0072.11.01402
MA0073.10.00399136
MA0074.10.870613
MA0076.10.0413193
MA0077.10.373365
MA0078.10.200156
MA0081.10.230196
MA0083.10.469091
MA0084.10.999346
MA0087.10.432564
MA0088.10.00268442
MA0089.10
MA0090.10.261914
MA0091.11.10357
MA0092.10.262306
MA0093.10.133673
MA0095.10
MA0098.10
MA0100.10.841692
MA0101.10.467124
MA0103.10.629824
MA0105.10.0207906
MA0106.10.205373
MA0107.12.36074
MA0108.20.264668
MA0109.10
MA0111.10.58732
MA0113.10.186674
MA0114.10.374791
MA0115.10.472164
MA0116.10.0279031
MA0117.10.44472
MA0119.10.214295
MA0122.10.461557
MA0124.10.641584
MA0125.10.574947
MA0130.10
MA0131.10.244817
MA0132.10
MA0133.10
MA0135.10.501131
MA0136.10.156089
MA0139.10.00733889
MA0140.10.13735
MA0141.10.0450982
MA0142.10.302401
MA0143.10.573785
MA0144.10.196833
MA0145.10.087554
MA0146.10.00112958
MA0147.10.019196
MA0148.10.327464
MA0149.10.061026
MA0062.20.00387198
MA0035.20.432878
MA0039.23.40338e-09
MA0138.20.239154
MA0002.21.26879
MA0137.20.383209
MA0104.20.00945983
MA0047.20.513086
MA0112.20.0141317
MA0065.20.000444712
MA0150.11.49668
MA0151.10
MA0152.10.172422
MA0153.10.515592
MA0154.10.00977116
MA0155.10.00517423
MA0156.10.0410387
MA0157.10.278203
MA0158.10
MA0159.10.0935777
MA0160.10.101031
MA0161.10
MA0162.16.8927e-06
MA0163.10.00147503
MA0164.10.15631
MA0080.20.146586
MA0018.20.162257
MA0099.20.234689
MA0079.20
MA0102.21.04989
MA0258.10.171703
MA0259.10.0170425
MA0442.10
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