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MCL coexpression mm9:523: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000026!1.44e-11!12;UBERON:0004708!1.44e-11!12;UBERON:0002101!1.44e-11!12;UBERON:0004357!1.44e-11!12;UBERON:0004347!1.44e-11!12;UBERON:0005732!1.44e-11!12;UBERON:0005733!1.44e-11!12;UBERON:0002102!1.56e-11!7;UBERON:0004710!1.56e-11!7;UBERON:0005419!1.56e-11!7;UBERON:0005417!1.56e-11!7;UBERON:0005729!1.56e-11!7;UBERON:0010707!1.86e-10!13;UBERON:0010708!7.24e-10!8;UBERON:0003102!1.06e-09!22;UBERON:0000970!1.15e-08!9;UBERON:0000019!1.15e-08!9;UBERON:0000047!1.15e-08!9;UBERON:0010312!1.15e-08!9;UBERON:0004088!1.15e-08!9;UBERON:0002104!1.15e-08!9;UBERON:0001456!1.15e-08!9;UBERON:0003072!1.15e-08!9;UBERON:0004128!1.15e-08!9;UBERON:0003071!1.15e-08!9;UBERON:0001444!8.92e-07!11
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.686627,0.204219,0.25808,0.123731,0.269875,0.915684,0.237242,0.536572,0.236908,0.308886,0.336042,0.237599,0.357027,0.134875,0,0.530547,1.24126,0.215337,0.465097,0.176628,0.165365,0.356242,0.122718,0.210021,0.381085,1.19145,0.782755,0.915208,0.338204,0.275529,0.624931,0.373899,0.702925,0.420513,0.425764,0.111136,0.332941,0.097604,0.581324,0.384293,0.279796,0.145909,1.35349,0.486712,0.24907,0.457618,0.812613,0.415504,0.156829,0.514446,0.404841,0.321327,0.759566,0.776306,0.363247,0.490599,1.56359,0.190698,0.949048,0.606104,1.06252,0.26973,0.504093,0.372973,0.541429,0.908031,1.25063,0.60172,1.10561,0.189925,0.0700673,0.0681764,0.808562,0.0481979,0.0433214,0.396955,0.447339,0.590017,0.179738,0.0707051,0.546623,0.411949,0.849185,0.69807,0.871139,0.470313,0.145915,0.462057,1.41118,0.975915,0.702809,0.636995,0.799202,0.315787,0.601346,0.233568,0.639644,0.457849,0.842735,0.358446,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.296997,0.183341,0.177945,0.62491,0.744577,0.180573,0.313258,0.982794,0.381263,0.189757,0.26114,0.53175,0.352143,0.813766,1.21719,0.382687,0.446521,1.03573,1.44745,0.353461,0.630607,0.906557,0.129636,0.726634,0.252176,0.877862,0.375176,1.0039,1.96799,0.231086,1.40454,0.955897,1.77738,1.3796,2.10778,0.393303,0.634793,0.508066,1.40165,0.460443,1.73788,0.232952,0.394117,0.3445,1.07944,0.761071,0.0882878,0.374365,0.839715,0.405736,0.866018,0.222538,0.230865,0.96517,0.697256,0.593895,0.620756,0.50503,0.367885,0.356446,0.8896,1.97604
|tfbs_overrepresentation_jaspar=MA0003.1;0.400158,MA0004.1;0.258473,MA0006.1;0.817804,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.023905,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;4.81217,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.992094,MA0040.1;0.661716,MA0041.1;0.198922,MA0042.1;0.189008,MA0043.1;0.74191,MA0046.1;1.63659,MA0048.1;0.0293065,MA0050.1;0.290354,MA0051.1;0.388883,MA0052.1;1.60625,MA0055.1;0.933849,MA0056.1;0,MA0057.1;0.107353,MA0058.1;0.183941,MA0059.1;0.19314,MA0060.1;0.279564,MA0061.1;0.32765,MA0063.1;0,MA0066.1;0.371389,MA0067.1;0.981551,MA0068.1;0.504573,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;1.63211,MA0074.1;0.902074,MA0076.1;0.163664,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;1.14043,MA0083.1;0.741151,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;1.19948,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;0.199903,MA0103.1;0.927638,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;0.323836,MA0115.1;0.744589,MA0116.1;0.8172,MA0117.1;0.713754,MA0119.1;0.580747,MA0122.1;1.73783,MA0124.1;0.929684,MA0125.1;0.857794,MA0130.1;0,MA0131.1;1.19873,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;0.918219,MA0146.1;0.294588,MA0147.1;0.349075,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;0.046824,MA0035.2;0.33429,MA0039.2;0.584904,MA0138.2;0.469076,MA0002.2;0.235791,MA0137.2;0.169785,MA0104.2;0.257564,MA0047.2;0.380343,MA0112.2;0.189423,MA0065.2;0.190247,MA0150.1;0.246295,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.837005,MA0155.1;1.83942,MA0156.1;0.163042,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.365914,MA0160.1;0.274172,MA0161.1;0,MA0162.1;1.03543,MA0163.1;0.319589,MA0164.1;0.357779,MA0080.2;0.153997,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;0.855689,MA0102.2;1.35579,MA0258.1;0.0900907,MA0259.1;0.331447,MA0442.1;0
}}

Latest revision as of 15:27, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:97069737..97069749,+p5@Kera
Mm9::chr15:101936581..101936594,+p@chr15:101936581..101936594
+
Mm9::chr15:51484092..51484121,-p@chr15:51484092..51484121
-
Mm9::chr16:95807175..95807195,-p@chr16:95807175..95807195
-
Mm9::chr16:95807232..95807250,-p@chr16:95807232..95807250
-
Mm9::chr17:23882313..23882330,-p@chr17:23882313..23882330
-
Mm9::chr18:61986651..61986691,-p@chr18:61986651..61986691
-
Mm9::chr18:7004715..7004731,-p1@Mkx
Mm9::chr1:164064835..164064864,-p3@Dnm3
Mm9::chr2:164230106..164230121,-p1@Matn4
Mm9::chr2:74505324..74505330,+p@chr2:74505324..74505330
+
Mm9::chr5:125483810..125483836,+p1@Fam101a
Mm9::chr6:51009701..51009744,-p@chr6:51009701..51009744
-
Mm9::chr8:23734491..23734495,+p1@Dkk4


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
appendage1.44e-1112
paired limb/fin1.44e-1112
limb1.44e-1112
paired limb/fin bud1.44e-1112
limb bud1.44e-1112
limb/fin field1.44e-1112
limb field1.44e-1112
forelimb1.56e-117
pectoral appendage1.56e-117
pectoral appendage bud1.56e-117
forelimb bud1.56e-117
forelimb/pectoral fin field1.56e-117
appendage girdle complex1.86e-1013
pectoral complex7.24e-108
surface structure1.06e-0922
eye1.15e-089
camera-type eye1.15e-089
simple eye1.15e-089
immature eye1.15e-089
ocular region1.15e-089
visual system1.15e-089
face1.15e-089
optic cup1.15e-089
optic vesicle1.15e-089
eye primordium1.15e-089
subdivision of head8.92e-0711


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)
MA0003.10.400158
MA0004.10.258473
MA0006.10.817804
MA0007.10.246385
MA0009.10.649874
MA0014.10.023905
MA0017.10.150118
MA0019.11.2076
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.138956
MA0029.14.81217
MA0030.10.594419
MA0031.10.561217
MA0038.10.992094
MA0040.10.661716
MA0041.10.198922
MA0042.10.189008
MA0043.10.74191
MA0046.11.63659
MA0048.10.0293065
MA0050.10.290354
MA0051.10.388883
MA0052.11.60625
MA0055.10.933849
MA0056.10
MA0057.10.107353
MA0058.10.183941
MA0059.10.19314
MA0060.10.279564
MA0061.10.32765
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.10.504573
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.11.63211
MA0074.10.902074
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.11.14043
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.11.19948
MA0089.10
MA0090.10.653402
MA0091.10.269175
MA0092.10.653984
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.199903
MA0103.10.927638
MA0105.10.170132
MA0106.10.425111
MA0107.10.153373
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.10.323836
MA0115.10.744589
MA0116.10.8172
MA0117.10.713754
MA0119.10.580747
MA0122.11.73783
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.11.19873
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
MA0145.10.918219
MA0146.10.294588
MA0147.10.349075
MA0148.10.271704
MA0149.10.204102
MA0062.20.046824
MA0035.20.33429
MA0039.20.584904
MA0138.20.469076
MA0002.20.235791
MA0137.20.169785
MA0104.20.257564
MA0047.20.380343
MA0112.20.189423
MA0065.20.190247
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.837005
MA0155.11.83942
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.10.274172
MA0161.10
MA0162.11.03543
MA0163.10.319589
MA0164.10.357779
MA0080.20.153997
MA0018.20.366212
MA0099.20.463355
MA0079.20.855689
MA0102.21.35579
MA0258.10.0900907
MA0259.10.331447
MA0442.10
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