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MCL coexpression mm9:514: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002113!3.42e-23!14;UBERON:0003918!3.42e-23!14;UBERON:0011143!3.42e-23!14;UBERON:0005095!3.42e-23!14;UBERON:0007687!3.42e-23!14;UBERON:0001008!3.56e-21!19;UBERON:0006554!1.30e-19!18;UBERON:0000489!3.08e-14!21;UBERON:0004175!9.74e-10!9;UBERON:0000474!5.55e-09!9;UBERON:0005156!1.19e-07!26;UBERON:0000990!1.19e-07!26;UBERON:0003134!1.74e-07!8;UBERON:0003100!3.87e-07!11;UBERON:0003133!5.26e-07!24;UBERON:0001301!8.38e-07!3;UBERON:0006555!8.38e-07!3;UBERON:0005103!8.38e-07!3;UBERON:0000083!8.38e-07!3;UBERON:0009201!8.38e-07!3;UBERON:0004819!8.38e-07!3;UBERON:0006553!8.38e-07!3;UBERON:0003074!8.38e-07!3;UBERON:0003060!8.38e-07!3
|tfbs_overrepresentation_for_novel_motifs=0.6379,0.0679776,0.204219,0.25808,0.391122,0.743234,0.346405,0.237242,0.251553,0.0394224,0.308886,0.336042,0.237599,0.357027,0.419678,0,0.530547,0.118546,0.215337,0.24668,1.0052,0.329508,0.356242,0.77745,0.210021,0.381085,0.0554034,0.287195,0.154744,0.0367763,0.275529,0.624931,0.373899,0.176308,0.135203,0.155394,0.111136,0.885722,1.10107,0.0808072,0.384293,0.279796,0.295897,0.423138,0.0932122,0.24907,0.457618,0.300372,0.415504,0.156829,0.514446,0.404841,0.321327,0.759566,0.776306,0.363247,0.950326,0.325117,0.190698,0.36147,0.606104,0.413233,0.26973,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.899779,0.0681764,0.808562,0.181606,0.0433214,0.17621,0.447339,0.590017,1.61198,0.904727,0.546623,0.411949,1.2842,0.69807,0.00290338,0.156995,1.84007,0.462057,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.287636,0.233568,0.639644,0.457849,0.0288834,0.111186,1.51291,0.742871,0.514993,0.514023,0.279432,0.569344,1.46283,0.539826,0.177945,1.17217,0.744577,0.180573,0.313258,0.982794,0.381263,0.0290103,0.26114,1.31704,0.714691,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.129636,0.726634,0.702495,0.877862,0.375176,1.0039,0.012643,0.65343,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.787076,0.148959,0.0106906,0.761071,0.0882878,0.374365,0.839715,0.405736,0.440483,0.222538,0.230865,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,0.110426,0.8896,0.0649099
|tfbs_overrepresentation_jaspar=MA0003.1;0.00296851,MA0004.1;0.258473,MA0006.1;0.1319,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.00088087,MA0017.1;0.895796,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;2.75684,MA0048.1;0.0293065,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;0.669354,MA0055.1;0.00347439,MA0056.1;0,MA0057.1;0.489127,MA0058.1;0.183941,MA0059.1;0.19314,MA0060.1;0.0819399,MA0061.1;0.671982,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;0.289658,MA0072.1;0.652465,MA0073.1;0.0552191,MA0074.1;1.61724,MA0076.1;0.163664,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;0.210747,MA0083.1;1.7553,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;0.0649199,MA0089.1;0,MA0090.1;0.653402,MA0091.1;0.269175,MA0092.1;0.653984,MA0093.1;0.144649,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;0.57968,MA0103.1;0.477056,MA0105.1;0.170132,MA0106.1;0.425111,MA0107.1;0.153373,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.679612,MA0113.1;0.400008,MA0114.1;0.665298,MA0115.1;0.744589,MA0116.1;1.32557,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;0.511953,MA0142.1;0.547747,MA0143.1;0.414534,MA0144.1;0.328866,MA0145.1;0.0731548,MA0146.1;0.294588,MA0147.1;0.107632,MA0148.1;1.37059,MA0149.1;0.204102,MA0062.2;0.046824,MA0035.2;0.888731,MA0039.2;0.000135096,MA0138.2;1.18323,MA0002.2;0.235791,MA0137.2;0.169785,MA0104.2;0.0740839,MA0047.2;1.75697,MA0112.2;0.0731504,MA0065.2;0.190247,MA0150.1;0.246295,MA0151.1;0,MA0152.1;0.990823,MA0153.1;4.46197,MA0154.1;0.525346,MA0155.1;0.0879017,MA0156.1;0.490212,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.738546,MA0160.1;0.753068,MA0161.1;0,MA0162.1;0.0134677,MA0163.1;0.0112325,MA0164.1;0.357779,MA0080.2;0.467794,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;0.0324544,MA0102.2;1.35579,MA0258.1;0.0900907,MA0259.1;0.101001,MA0442.1;0
}}

Latest revision as of 15:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:50689167..50689171,+p@chr10:50689167..50689171
+
Mm9::chr11:83664219..83664262,-p@chr11:83664219..83664262
-
Mm9::chr11:83664264..83664275,-p@chr11:83664264..83664275
-
Mm9::chr11:83667318..83667328,+p@chr11:83667318..83667328
+
Mm9::chr13:94853381..94853386,+p14@Lhfpl2
Mm9::chr18:84819316..84819345,-p1@Cndp1
Mm9::chr19:32397689..32397724,-p7@Sgms1
Mm9::chr19:44824107..44824111,-p@chr19:44824107..44824111
-
Mm9::chr19:44899724..44899728,+p@chr19:44899724..44899728
+
Mm9::chr1:9922173..9922188,+p@chr1:9922173..9922188
+
Mm9::chr2:24289622..24289625,-p@chr2:24289622..24289625
-
Mm9::chr2:24328115..24328121,-p@chr2:24328115..24328121
-
Mm9::chr2:24331085..24331100,-p1@Pax8
Mm9::chr3:66100840..66100852,-p2@Veph1


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:0000138Golgi trans cisterna0.0261058449942821
GO:0033188sphingomyelin synthase activity0.0261058449942821
GO:0047493ceramide cholinephosphotransferase activity0.0261058449942821
GO:0006686sphingomyelin biosynthetic process0.0261058449942821
GO:0031984organelle subcompartment0.0261058449942821
GO:0031985Golgi cisterna0.0261058449942821
GO:0006684sphingomyelin metabolic process0.039145896197846
GO:0030878thyroid gland development0.0478240168453609
GO:0005795Golgi stack0.0478240168453609



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>


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)
MA0003.10.00296851
MA0004.10.258473
MA0006.10.1319
MA0007.10.246385
MA0009.10.649874
MA0014.10.00088087
MA0017.10.895796
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
MA0046.12.75684
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.10.00347439
MA0056.10
MA0057.10.489127
MA0058.10.183941
MA0059.10.19314
MA0060.10.0819399
MA0061.10.671982
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.271058
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.10.0552191
MA0074.11.61724
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.10.210747
MA0083.11.7553
MA0084.11.30392
MA0087.10.699999
MA0088.10.0649199
MA0089.10
MA0090.10.653402
MA0091.10.269175
MA0092.10.653984
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.477056
MA0105.10.170132
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.10.665298
MA0115.10.744589
MA0116.11.32557
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
MA0141.10.511953
MA0142.10.547747
MA0143.10.414534
MA0144.10.328866
MA0145.10.0731548
MA0146.10.294588
MA0147.10.107632
MA0148.11.37059
MA0149.10.204102
MA0062.20.046824
MA0035.20.888731
MA0039.20.000135096
MA0138.21.18323
MA0002.20.235791
MA0137.20.169785
MA0104.20.0740839
MA0047.21.75697
MA0112.20.0731504
MA0065.20.190247
MA0150.10.246295
MA0151.10
MA0152.10.990823
MA0153.14.46197
MA0154.10.525346
MA0155.10.0879017
MA0156.10.490212
MA0157.10.518122
MA0158.10
MA0159.10.738546
MA0160.10.753068
MA0161.10
MA0162.10.0134677
MA0163.10.0112325
MA0164.10.357779
MA0080.20.467794
MA0018.20.366212
MA0099.20.463355
MA0079.20.0324544
MA0102.21.35579
MA0258.10.0900907
MA0259.10.101001
MA0442.10
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