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MCL coexpression mm9:325: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0001048!7.50e-12!134;UBERON:0000475!8.99e-09!150;UBERON:0001041!1.02e-08!80;UBERON:0004921!3.21e-07!114
|ontology_enrichment_uberon=UBERON:0001048!7.50e-12!134;UBERON:0000475!8.99e-09!150;UBERON:0001041!1.02e-08!80;UBERON:0004921!3.21e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.0957479,0.0693267,0.082828,0.757659,0.619074,0.126473,0.538273,0.171073,0.185974,0.00252313,0.154519,0.997828,0.0137083,0.19087,0.672427,0,0.333505,0.327284,0.300991,0.0141544,0.868788,0.059033,0.190264,0.614199,0.609268,0.209658,0.0497643,0.138754,0.198293,0.0837629,0.13045,0.416414,0.137902,0.111175,0.0433193,0.085061,0.304603,0.172462,0.492112,0.0187026,0.606367,0.133472,0.309443,1.0513,0.00124625,0.112117,0.271716,0.148281,0.230262,0.201733,0.319672,0.228569,0.0764489,0.538915,0.554419,0.195691,0.806193,0.166575,0.448489,0.194311,0.39965,0.235329,0.653348,0.310832,0.20328,0.342909,0.678037,1.00855,0.395762,0.867464,0.0740354,0.180319,0.0258637,0.584436,0.00783682,0.102175,0.0387859,0.72791,0.38541,0.0679477,0.358206,0.347414,0.660928,1.15583,0.48244,5.64294e-05,0.214763,0.333186,0.275409,1.16606,0.74267,0.486763,0.427209,0.355202,0.0245071,1.41908,0.559504,0.429584,0.271907,0.00324888,0.558459,0.416179,0.523506,0.320141,0.31931,0.133214,0.367229,0.145827,0.246199,0.0668927,0.0921762,0.525078,0.518312,0.157745,0.749248,0.142314,0.000158899,0.120391,0.334542,0.297443,0.589296,0.294572,0.210922,0.262524,0.800032,0.388466,1.05137,0.421488,0.67664,0.647397,0.508573,0.366432,0.649498,0.205008,0.769462,0.000765891,0.328991,0.418217,0.723554,1.52843,1.13499,0.682379,0.625834,0.425235,0.31422,0.133739,0.274066,1.4892,0.101315,0.0381381,0.0288565,0.00056979,0.540306,1.45971,0.204372,0.613593,0.649218,0.179236,0.313953,0.0999378,0.732404,0.481698,1.00924,0.0910449,0.311631,0.199302,0.127618,0.173777,0.00218754
|tfbs_overrepresentation_for_novel_motifs=0.0957479,0.0693267,0.082828,0.757659,0.619074,0.126473,0.538273,0.171073,0.185974,0.00252313,0.154519,0.997828,0.0137083,0.19087,0.672427,0,0.333505,0.327284,0.300991,0.0141544,0.868788,0.059033,0.190264,0.614199,0.609268,0.209658,0.0497643,0.138754,0.198293,0.0837629,0.13045,0.416414,0.137902,0.111175,0.0433193,0.085061,0.304603,0.172462,0.492112,0.0187026,0.606367,0.133472,0.309443,1.0513,0.00124625,0.112117,0.271716,0.148281,0.230262,0.201733,0.319672,0.228569,0.0764489,0.538915,0.554419,0.195691,0.806193,0.166575,0.448489,0.194311,0.39965,0.235329,0.653348,0.310832,0.20328,0.342909,0.678037,1.00855,0.395762,0.867464,0.0740354,0.180319,0.0258637,0.584436,0.00783682,0.102175,0.0387859,0.72791,0.38541,0.0679477,0.358206,0.347414,0.660928,1.15583,0.48244,5.64294e-05,0.214763,0.333186,0.275409,1.16606,0.74267,0.486763,0.427209,0.355202,0.0245071,1.41908,0.559504,0.429584,0.271907,0.00324888,0.558459,0.416179,0.523506,0.320141,0.31931,0.133214,0.367229,0.145827,0.246199,0.0668927,0.0921762,0.525078,0.518312,0.157745,0.749248,0.142314,0.000158899,0.120391,0.334542,0.297443,0.589296,0.294572,0.210922,0.262524,0.800032,0.388466,1.05137,0.421488,0.67664,0.647397,0.508573,0.366432,0.649498,0.205008,0.769462,0.000765891,0.328991,0.418217,0.723554,1.52843,1.13499,0.682379,0.625834,0.425235,0.31422,0.133739,0.274066,1.4892,0.101315,0.0381381,0.0288565,0.00056979,0.540306,1.45971,0.204372,0.613593,0.649218,0.179236,0.313953,0.0999378,0.732404,0.481698,1.00924,0.0910449,0.311631,0.199302,0.127618,0.173777,0.00218754
|tfbs_overrepresentation_jaspar=MA0003.1;7.92629e-06,MA0004.1;0.118549,MA0006.1;0.161227,MA0007.1;0.110297,MA0009.1;0.438777,MA0014.1;8.13201e-05,MA0017.1;0.744727,MA0019.1;0.290797,MA0024.1;0.401898,MA0025.1;0.645374,MA0027.1;2.02409,MA0028.1;0.0452573,MA0029.1;0.383872,MA0030.1;0.389298,MA0031.1;0.360121,MA0038.1;0.602791,MA0040.1;0.449452,MA0041.1;1.44949,MA0042.1;1.91982,MA0043.1;0.522621,MA0046.1;0.469568,MA0048.1;0.0633201,MA0050.1;0.857182,MA0051.1;0.215828,MA0052.1;0.456356,MA0055.1;0.000748463,MA0056.1;0,MA0057.1;0.0526414,MA0058.1;0.0704409,MA0059.1;0.0759876,MA0060.1;0.0191397,MA0061.1;0.0263971,MA0063.1;0,MA0066.1;0.20204,MA0067.1;0.748059,MA0068.1;0.861798,MA0069.1;0.456647,MA0070.1;0.448343,MA0071.1;0.433998,MA0072.1;0.44111,MA0073.1;0.028672,MA0074.1;0.178027,MA0076.1;0.0586682,MA0077.1;0.422739,MA0078.1;0.239324,MA0081.1;0.293354,MA0083.1;1.29616,MA0084.1;1.0607,MA0087.1;0.484199,MA0088.1;0.062577,MA0089.1;0,MA0090.1;0.100075,MA0091.1;1.28905,MA0092.1;1.11922,MA0093.1;0.0482497,MA0095.1;0,MA0098.1;0,MA0100.1;0.508591,MA0101.1;0.0801429,MA0103.1;0.203213,MA0105.1;0.00683369,MA0106.1;0.244965,MA0107.1;0.0529506,MA0108.2;0.308463,MA0109.1;0,MA0111.1;0.348856,MA0113.1;0.224694,MA0114.1;0.109084,MA0115.1;0.525089,MA0116.1;0.161005,MA0117.1;0.496768,MA0119.1;0.0804194,MA0122.1;0.514153,MA0124.1;0.698593,MA0125.1;0.630583,MA0130.1;0,MA0131.1;0.287321,MA0132.1;0,MA0133.1;0,MA0135.1;0.554905,MA0136.1;0.191208,MA0139.1;0.553962,MA0140.1;0.170444,MA0141.1;0.491507,MA0142.1;0.920091,MA0143.1;0.236381,MA0144.1;0.111883,MA0145.1;0.00796589,MA0146.1;1.60668e-05,MA0147.1;0.123349,MA0148.1;0.401483,MA0149.1;0.0827548,MA0062.2;0.00745981,MA0035.2;0.515842,MA0039.2;5.91886e-07,MA0138.2;0.281269,MA0002.2;0.565269,MA0137.2;0.223304,MA0104.2;0.0744814,MA0047.2;1.13392,MA0112.2;0.0289203,MA0065.2;0.074225,MA0150.1;0.110236,MA0151.1;0,MA0152.1;0.209147,MA0153.1;1.39749,MA0154.1;0.00317676,MA0155.1;0.0111578,MA0156.1;0.212038,MA0157.1;0.322822,MA0158.1;0,MA0159.1;0.133167,MA0160.1;0.405937,MA0161.1;0,MA0162.1;0.00177304,MA0163.1;0.00130201,MA0164.1;1.06464,MA0080.2;0.436302,MA0018.2;0.197998,MA0099.2;0.276491,MA0079.2;4.30474e-06,MA0102.2;1.11159,MA0258.1;0.240529,MA0259.1;0.0270156,MA0442.1;0
}}
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Revision as of 11:34, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:116712504..116712508,-p@chr11:116712504..116712508
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Mm9::chr11:32574487..32574491,+p@chr11:32574487..32574491
+
Mm9::chr12:32022121..32022126,-p@chr12:32022121..32022126
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Mm9::chr16:76325031..76325037,-p@chr16:76325031..76325037
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Mm9::chr16:91029086..91029090,-p@chr16:91029086..91029090
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Mm9::chr17:3167022..3167027,+p@chr17:3167022..3167027
+
Mm9::chr17:34253274..34253287,-p@chr17:34253274..34253287
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Mm9::chr17:75081762..75081765,+p@chr17:75081762..75081765
+
Mm9::chr17:80849971..80849981,-p@chr17:80849971..80849981
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Mm9::chr18:61725794..61725800,+p@chr18:61725794..61725800
+
Mm9::chr19:3510893..3510897,-p@chr19:3510893..3510897
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Mm9::chr19:57154179..57154181,-p9@Ablim1
Mm9::chr2:70662746..70662751,-p@chr2:70662746..70662751
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Mm9::chr3:51222313..51222316,+p@chr3:51222313..51222316
+
Mm9::chr3:78958710..78958714,-p@chr3:78958710..78958714
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Mm9::chr5:24942162..24942165,-p@chr5:24942162..24942165
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Mm9::chr5:24991546..24991550,-p@chr5:24991546..24991550
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Mm9::chr6:47460173..47460174,+p@chr6:47460173..47460174
+
Mm9::chr6:87969965..87969966,-p3@Rab7
Mm9::chr8:125463487..125463492,-p@chr8:125463487..125463492
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Mm9::chr8:125470421..125470424,-p@chr8:125470421..125470424
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Mm9::chr8:125552886..125552890,-p@chr8:125552886..125552890
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Mm9::chr8:125556280..125556284,-p@chr8:125556280..125556284
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Mm9::chr8:125556650..125556651,-p@chr8:125556650..125556651
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Mm9::chr9:66430989..66430991,-p@chr9:66430989..66430991
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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
primordium7.50e-12134
organism subdivision8.99e-09150
foregut1.02e-0880
subdivision of digestive tract3.21e-07114


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)
MA0003.17.92629e-06
MA0004.10.118549
MA0006.10.161227
MA0007.10.110297
MA0009.10.438777
MA0014.18.13201e-05
MA0017.10.744727
MA0019.10.290797
MA0024.10.401898
MA0025.10.645374
MA0027.12.02409
MA0028.10.0452573
MA0029.10.383872
MA0030.10.389298
MA0031.10.360121
MA0038.10.602791
MA0040.10.449452
MA0041.11.44949
MA0042.11.91982
MA0043.10.522621
MA0046.10.469568
MA0048.10.0633201
MA0050.10.857182
MA0051.10.215828
MA0052.10.456356
MA0055.10.000748463
MA0056.10
MA0057.10.0526414
MA0058.10.0704409
MA0059.10.0759876
MA0060.10.0191397
MA0061.10.0263971
MA0063.10
MA0066.10.20204
MA0067.10.748059
MA0068.10.861798
MA0069.10.456647
MA0070.10.448343
MA0071.10.433998
MA0072.10.44111
MA0073.10.028672
MA0074.10.178027
MA0076.10.0586682
MA0077.10.422739
MA0078.10.239324
MA0081.10.293354
MA0083.11.29616
MA0084.11.0607
MA0087.10.484199
MA0088.10.062577
MA0089.10
MA0090.10.100075
MA0091.11.28905
MA0092.11.11922
MA0093.10.0482497
MA0095.10
MA0098.10
MA0100.10.508591
MA0101.10.0801429
MA0103.10.203213
MA0105.10.00683369
MA0106.10.244965
MA0107.10.0529506
MA0108.20.308463
MA0109.10
MA0111.10.348856
MA0113.10.224694
MA0114.10.109084
MA0115.10.525089
MA0116.10.161005
MA0117.10.496768
MA0119.10.0804194
MA0122.10.514153
MA0124.10.698593
MA0125.10.630583
MA0130.10
MA0131.10.287321
MA0132.10
MA0133.10
MA0135.10.554905
MA0136.10.191208
MA0139.10.553962
MA0140.10.170444
MA0141.10.491507
MA0142.10.920091
MA0143.10.236381
MA0144.10.111883
MA0145.10.00796589
MA0146.11.60668e-05
MA0147.10.123349
MA0148.10.401483
MA0149.10.0827548
MA0062.20.00745981
MA0035.20.515842
MA0039.25.91886e-07
MA0138.20.281269
MA0002.20.565269
MA0137.20.223304
MA0104.20.0744814
MA0047.21.13392
MA0112.20.0289203
MA0065.20.074225
MA0150.10.110236
MA0151.10
MA0152.10.209147
MA0153.11.39749
MA0154.10.00317676
MA0155.10.0111578
MA0156.10.212038
MA0157.10.322822
MA0158.10
MA0159.10.133167
MA0160.10.405937
MA0161.10
MA0162.10.00177304
MA0163.10.00130201
MA0164.11.06464
MA0080.20.436302
MA0018.20.197998
MA0099.20.276491
MA0079.24.30474e-06
MA0102.21.11159
MA0258.10.240529
MA0259.10.0270156
MA0442.10
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