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MCL coexpression mm9:315: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003102!5.70e-08!22
|tfbs_overrepresentation_for_novel_motifs=1.08818,1.2798,0.082828,0.757659,0.968363,0.398187,0.538273,0.171073,0.185974,0.514602,0.469093,0.51908,0.171442,0.19087,0.377417,0,0.333505,0.327284,0.148837,0.785591,0.234822,0.123805,0.190264,0.961577,0.292091,0.209658,0.481302,0.429523,0.198293,0.332722,0.13045,0.416414,0.137902,0.2343,1.04451,0.948337,0.128707,0.513348,1.56781,0.212494,0.144141,0.133472,0.103389,0.381604,0.385364,0.112117,0.747448,1.42729,0.0708063,0.776322,0.319672,0.228569,0.0764489,1.33224,0.554419,0.195691,0.464683,0.166575,0.448489,0.566281,0.39965,0.235329,0.396933,0.310832,0.587745,0.342909,0.678037,1.00855,0.395762,0.867464,0.257427,0.592153,0.244404,0.584436,0.946234,0.217932,0.411083,0.263199,0.38541,0.240083,0.0698528,0.917924,0.234292,0.322554,0.48244,0.0549505,0.465345,1.07036,0.275409,1.16606,0.74267,0.486763,1.09288,0.994482,0.0245071,0.224705,0.559504,0.429584,0.271907,0.266292,0.128784,1.06892,0.523506,0.320141,0.31931,0.415447,0.961759,2.03357,1.87511,1.31904,0.0921762,0.525078,0.241499,0.157745,0.749248,0.142314,1.22389,0.120391,0.334542,0.125121,0.589296,0.294572,0.605922,0.726359,0.800032,0.388466,0.551377,0.421488,0.67664,1.43396,1.26774,0.114231,1.56483,0.205008,0.769462,0.516848,0.100083,0.418217,0.723554,1.52843,1.13499,0.682379,0.625834,0.425235,0.31422,1.33794,0.274066,1.4892,0.680093,1.8686,0.0865549,0.45923,0.540306,1.06407,0.590347,0.613593,0.229288,0.402704,0.0944954,0.328601,0.732404,0.481698,0.388835,0.0910449,0.311631,0.199302,0.554767,0.516562,0.116093
|tfbs_overrepresentation_jaspar=MA0003.1;0.0204875,MA0004.1;0.377695,MA0006.1;0.161227,MA0007.1;0.110297,MA0009.1;0.438777,MA0014.1;0.819838,MA0017.1;0.0511807,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;0.946067,MA0038.1;0.209603,MA0040.1;0.449452,MA0041.1;1.99736,MA0042.1;0.926077,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;5.36757,MA0056.1;0,MA0057.1;1.11417,MA0058.1;0.24722,MA0059.1;0.0759876,MA0060.1;0.0191397,MA0061.1;0.111204,MA0063.1;0,MA0066.1;0.584787,MA0067.1;0.748059,MA0068.1;0.00282371,MA0069.1;0.456647,MA0070.1;0.448343,MA0071.1;0.433998,MA0072.1;1.12297,MA0073.1;2.1272e-08,MA0074.1;0.178027,MA0076.1;0.0586682,MA0077.1;1.08318,MA0078.1;0.239324,MA0081.1;0.293354,MA0083.1;0.521922,MA0084.1;1.0607,MA0087.1;0.484199,MA0088.1;0.546599,MA0089.1;0,MA0090.1;0.32897,MA0091.1;0.125983,MA0092.1;0.329408,MA0093.1;0.181765,MA0095.1;0,MA0098.1;0,MA0100.1;0.170518,MA0101.1;0.0801429,MA0103.1;0.203213,MA0105.1;0.61924,MA0106.1;0.244965,MA0107.1;0.434379,MA0108.2;0.308463,MA0109.1;0,MA0111.1;0.107549,MA0113.1;0.224694,MA0114.1;0.0257825,MA0115.1;0.525089,MA0116.1;0.0415661,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;1.98709,MA0140.1;0.50841,MA0141.1;0.226841,MA0142.1;0.34839,MA0143.1;0.665806,MA0144.1;0.0265945,MA0145.1;0.0737096,MA0146.1;0.00101777,MA0147.1;0.123349,MA0148.1;0.401483,MA0149.1;0.590986,MA0062.2;0.0392392,MA0035.2;0.515842,MA0039.2;0.0298145,MA0138.2;0.281269,MA0002.2;1.19186,MA0137.2;0.062153,MA0104.2;0.0161848,MA0047.2;0.601531,MA0112.2;0.414515,MA0065.2;0.416515,MA0150.1;0.355945,MA0151.1;0,MA0152.1;0.209147,MA0153.1;0.569763,MA0154.1;0.43148,MA0155.1;0.0386081,MA0156.1;0.0583175,MA0157.1;0.863107,MA0158.1;0,MA0159.1;0.0329227,MA0160.1;0.129493,MA0161.1;0,MA0162.1;0.21363,MA0163.1;0.00130201,MA0164.1;0.559407,MA0080.2;0.197063,MA0018.2;0.197998,MA0099.2;0.276491,MA0079.2;0.523882,MA0102.2;1.11159,MA0258.1;0.455063,MA0259.1;1.60646,MA0442.1;0
}}

Latest revision as of 15:05, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:120471041..120471068,+p2@Wif1
Mm9::chr10:120471115..120471130,+p7@Wif1
Mm9::chr10:120471224..120471253,+p1@Wif1
Mm9::chr10:120471255..120471274,+p3@Wif1
Mm9::chr10:120471304..120471321,+p4@Wif1
Mm9::chr10:120471329..120471348,+p6@Wif1
Mm9::chr10:72744930..72744935,-p@chr10:72744930..72744935
-
Mm9::chr11:59235122..59235138,-p@chr11:59235122..59235138
-
Mm9::chr12:87301356..87301359,+p@chr12:87301356..87301359
+
Mm9::chr13:115248928..115248944,-p1@Fst
Mm9::chr13:115249147..115249168,-p2@Fst
Mm9::chr13:49704468..49704482,+p4@Ogn
Mm9::chr14:112177443..112177451,-p@chr14:112177443..112177451
-
Mm9::chr16:24733721..24733736,+p@chr16:24733721..24733736
+
Mm9::chr19:11611259..11611336,+p1@Ms4a4d
Mm9::chr1:17591923..17591940,+p2@Pi15
Mm9::chr1:82287473..82287492,-p2@Irs1
Mm9::chr1:92718998..92719001,-p@chr1:92718998..92719001
-
Mm9::chr3:85412245..85412258,+p@chr3:85412245..85412258
+
Mm9::chr6:133717427..133717432,-p1@Gm5886
Mm9::chr6:92868061..92868079,-p@chr6:92868061..92868079
-
Mm9::chr9:123059935..123059969,+p2@Clec3b
Mm9::chr9:67421100..67421118,-p@chr9:67421100..67421118
-
Mm9::chrX:139828393..139828404,-p4@Chrdl1
Mm9::chrX:166123123..166123182,+p2@Mid1


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:0003905alkylbase DNA N-glycosylase activity0.03377526981866
GO:0043616keratinocyte proliferation0.03377526981866



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
surface structure5.70e-0822


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)
MA0003.10.0204875
MA0004.10.377695
MA0006.10.161227
MA0007.10.110297
MA0009.10.438777
MA0014.10.819838
MA0017.10.0511807
MA0019.10.290797
MA0024.10.401898
MA0025.10.645374
MA0027.12.02409
MA0028.10.0452573
MA0029.10.383872
MA0030.10.389298
MA0031.10.946067
MA0038.10.209603
MA0040.10.449452
MA0041.11.99736
MA0042.10.926077
MA0043.10.522621
MA0046.10.469568
MA0048.10.0633201
MA0050.10.857182
MA0051.10.215828
MA0052.10.456356
MA0055.15.36757
MA0056.10
MA0057.11.11417
MA0058.10.24722
MA0059.10.0759876
MA0060.10.0191397
MA0061.10.111204
MA0063.10
MA0066.10.584787
MA0067.10.748059
MA0068.10.00282371
MA0069.10.456647
MA0070.10.448343
MA0071.10.433998
MA0072.11.12297
MA0073.12.1272e-08
MA0074.10.178027
MA0076.10.0586682
MA0077.11.08318
MA0078.10.239324
MA0081.10.293354
MA0083.10.521922
MA0084.11.0607
MA0087.10.484199
MA0088.10.546599
MA0089.10
MA0090.10.32897
MA0091.10.125983
MA0092.10.329408
MA0093.10.181765
MA0095.10
MA0098.10
MA0100.10.170518
MA0101.10.0801429
MA0103.10.203213
MA0105.10.61924
MA0106.10.244965
MA0107.10.434379
MA0108.20.308463
MA0109.10
MA0111.10.107549
MA0113.10.224694
MA0114.10.0257825
MA0115.10.525089
MA0116.10.0415661
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
MA0139.11.98709
MA0140.10.50841
MA0141.10.226841
MA0142.10.34839
MA0143.10.665806
MA0144.10.0265945
MA0145.10.0737096
MA0146.10.00101777
MA0147.10.123349
MA0148.10.401483
MA0149.10.590986
MA0062.20.0392392
MA0035.20.515842
MA0039.20.0298145
MA0138.20.281269
MA0002.21.19186
MA0137.20.062153
MA0104.20.0161848
MA0047.20.601531
MA0112.20.414515
MA0065.20.416515
MA0150.10.355945
MA0151.10
MA0152.10.209147
MA0153.10.569763
MA0154.10.43148
MA0155.10.0386081
MA0156.10.0583175
MA0157.10.863107
MA0158.10
MA0159.10.0329227
MA0160.10.129493
MA0161.10
MA0162.10.21363
MA0163.10.00130201
MA0164.10.559407
MA0080.20.197063
MA0018.20.197998
MA0099.20.276491
MA0079.20.523882
MA0102.21.11159
MA0258.10.455063
MA0259.11.60646
MA0442.10
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