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MCL coexpression mm9:627: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.139020819349871,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.220327159451074,0,0,0,0.0761160374363268,0.147171275172461,0.123500036840092,0.0756292965920817,0.0843266682486015,0.0662136857075299,0.273109589838008,0.203269403191864,0.199999744857671,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.91773678163177,0.26617164297258,0.729533971528134,1.30238141970972,0.967007252014765,0.862599123525825,0.609427923181073,0.860401087897797,1.0802767782585,0.8579811903013,0.619360324742638,0.822984757370897,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111087966368681,0,0,0.209289928385081,0.0737896374598673,0,0,0,0,0,0,0.57336148593806,0,0.0803809427109337,0.202246951801561,0.0824580172145032,0.121575116743772,0.125630722758061,0.066440322267935,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001264!1.25e-33!12;UBERON:0002075!2.91e-27!19;UBERON:0005409!1.66e-19!47;UBERON:0002323!1.97e-12!37;UBERON:0004458!1.97e-12!37;UBERON:0003886!5.08e-12!38;UBERON:0002553!1.25e-11!39;UBERON:0000945!1.95e-11!16;UBERON:0010039!1.95e-11!16;UBERON:0000160!1.49e-09!31;UBERON:0000464!5.54e-07!57
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.110566,0.245304,0.303186,0.922539,0.315748,1.02601,0.303924,0.320069,0.0641678,0.357058,1.77521,0.0909495,0.407615,0.974258,0,0.587245,0.897987,0.586013,0.945936,0.215242,0.235703,0.406794,0.471175,0.701128,0.432737,0.0768517,0.334131,0.558665,0.0536593,0.321757,0.683831,0.455295,0.504772,0.169391,0.056009,0.142225,0.382372,0.79515,0.107198,0.153518,0.326286,0.990451,0.980484,0.0216041,0.293566,0.512146,0.34807,1.19261,0.564214,0.570705,0.457464,0.736781,0.82076,0.837732,1.06445,0.581069,0.37415,0.250759,0.412262,0.664611,0.46618,1.14744,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.647992,0.102623,0.870406,0.240236,0.0619297,0.233965,0.50152,0.648171,1.171,0.651601,0.60374,1.17414,0.293128,0.758319,0.00596121,0.237482,0.198381,0.516731,1.47691,1.03946,0.763136,0.696137,0.940863,0.391609,0.11194,0.299765,0.698838,0.512384,0.0434558,1.39077,0.683562,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,0.222586,0.216685,0.261228,0.805555,0.219561,0.361667,1.04639,1.45087,0.278854,0.826326,1.43693,0.139554,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,0.296885,0.940498,0.426575,1.06766,1.8901,2.11995,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.777047,0.0183397,0.822286,0.115938,0.425729,0.901933,0.458393,0.52735,0.265096,0.274055,1.02862,0.757491,0.652135,0.25933,1.37904,0.418964,0.436256,0.384198,0.113306
|tfbs_overrepresentation_jaspar=MA0003.1;0.0244195,MA0004.1;0.303605,MA0006.1;0.16569,MA0007.1;2.20305,MA0009.1;0.709264,MA0014.1;0.00213944,MA0017.1;0.186015,MA0019.1;0.535691,MA0024.1;0.667197,MA0025.1;0.936082,MA0027.1;2.34178,MA0028.1;0.173587,MA0029.1;0.64639,MA0030.1;0.65267,MA0031.1;0.618697,MA0038.1;0.432665,MA0040.1;0.721328,MA0041.1;0.239557,MA0042.1;0.228771,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;0.168666,MA0050.1;0.337476,MA0051.1;0.440863,MA0052.1;0.729105,MA0055.1;0.00695701,MA0056.1;0,MA0057.1;0.151898,MA0058.1;0.223242,MA0059.1;0.233271,MA0060.1;0.108526,MA0061.1;0.129002,MA0063.1;0,MA0066.1;0.422624,MA0067.1;1.04514,MA0068.1;0.0405002,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.336739,MA0072.1;0.711905,MA0073.1;4.29986,MA0074.1;0.390075,MA0076.1;0.200996,MA0077.1;0.691048,MA0078.1;1.18801,MA0081.1;0.702944,MA0083.1;0.802078,MA0084.1;1.3693,MA0087.1;0.760279,MA0088.1;0.0983922,MA0089.1;0,MA0090.1;0.27428,MA0091.1;0.845572,MA0092.1;0.274547,MA0093.1;0.179936,MA0095.1;0,MA0098.1;0,MA0100.1;0.379666,MA0101.1;0.240622,MA0103.1;0.566591,MA0105.1;0.0633795,MA0106.1;0.478503,MA0107.1;0.189625,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.286331,MA0113.1;0.452439,MA0114.1;0.797973,MA0115.1;0.805567,MA0116.1;0.165534,MA0117.1;0.774259,MA0119.1;0.241106,MA0122.1;0.793507,MA0124.1;0.992825,MA0125.1;0.920215,MA0130.1;0,MA0131.1;0.531427,MA0132.1;0,MA0133.1;0,MA0135.1;0.838263,MA0136.1;0.408073,MA0139.1;0.0883913,MA0140.1;0.379562,MA0141.1;0.603844,MA0142.1;0.604892,MA0143.1;0.467531,MA0144.1;1.31149,MA0145.1;1.15539,MA0146.1;0.142424,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;0.245177,MA0062.2;0.0662974,MA0035.2;0.383789,MA0039.2;5.27017e-05,MA0138.2;0.523978,MA0002.2;1.55322,MA0137.2;2.49754,MA0104.2;0.099275,MA0047.2;0.431964,MA0112.2;0.793603,MA0065.2;0.109524,MA0150.1;2.20256,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.042968,MA0155.1;0.127763,MA0156.1;0.200311,MA0157.1;0.574484,MA0158.1;0,MA0159.1;1.41054,MA0160.1;0.85749,MA0161.1;0,MA0162.1;0.0785995,MA0163.1;0.069011,MA0164.1;0.408402,MA0080.2;0.556674,MA0018.2;0.417217,MA0099.2;0.518072,MA0079.2;6.0798e-07,MA0102.2;1.42135,MA0258.1;0.756558,MA0259.1;0.130633,MA0442.1;0
}}

Latest revision as of 15:37, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr19:58812762..58812772,+p@chr19:58812762..58812772
+
Mm9::chr19:58818585..58818603,+p@chr19:58818585..58818603
+
Mm9::chr19:58818604..58818615,+p@chr19:58818604..58818615
+
Mm9::chr19:58818621..58818632,+p@chr19:58818621..58818632
+
Mm9::chr2:28417931..28417942,-p@chr2:28417931..28417942
-
Mm9::chr4:128784051..128784061,+p5@Tmem54
Mm9::chr6:30514398..30514416,+p@chr6:30514398..30514416
+
Mm9::chr8:114210441..114210502,-p@chr8:114210441..114210502
-
Mm9::chr8:114212440..114212443,-p@chr8:114212440..114212443
-
Mm9::chr8:114214209..114214233,-p@chr8:114214209..114214233
-
Mm9::chr8:114214342..114214354,-p@chr8:114214342..114214354
-
Mm9::chr9:69950924..69950949,-p4@Fam81a


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
pancreas1.25e-3312
viscus2.91e-2719
gastrointestinal system1.66e-1947
body cavity1.97e-1237
body cavity or lining1.97e-1237
body cavity precursor5.08e-1238
anatomical cavity1.25e-1139
stomach1.95e-1116
food storage organ1.95e-1116
intestine1.49e-0931
anatomical space5.54e-0757


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)
MA0003.10.0244195
MA0004.10.303605
MA0006.10.16569
MA0007.12.20305
MA0009.10.709264
MA0014.10.00213944
MA0017.10.186015
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.10.64639
MA0030.10.65267
MA0031.10.618697
MA0038.10.432665
MA0040.10.721328
MA0041.10.239557
MA0042.10.228771
MA0043.10.802848
MA0046.10.743934
MA0048.10.168666
MA0050.10.337476
MA0051.10.440863
MA0052.10.729105
MA0055.10.00695701
MA0056.10
MA0057.10.151898
MA0058.10.223242
MA0059.10.233271
MA0060.10.108526
MA0061.10.129002
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.0405002
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.14.29986
MA0074.10.390075
MA0076.10.200996
MA0077.10.691048
MA0078.11.18801
MA0081.10.702944
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.10.0983922
MA0089.10
MA0090.10.27428
MA0091.10.845572
MA0092.10.274547
MA0093.10.179936
MA0095.10
MA0098.10
MA0100.10.379666
MA0101.10.240622
MA0103.10.566591
MA0105.10.0633795
MA0106.10.478503
MA0107.10.189625
MA0108.20.557195
MA0109.10
MA0111.10.286331
MA0113.10.452439
MA0114.10.797973
MA0115.10.805567
MA0116.10.165534
MA0117.10.774259
MA0119.10.241106
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.10.531427
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.10.0883913
MA0140.10.379562
MA0141.10.603844
MA0142.10.604892
MA0143.10.467531
MA0144.11.31149
MA0145.11.15539
MA0146.10.142424
MA0147.10.138228
MA0148.10.317692
MA0149.10.245177
MA0062.20.0662974
MA0035.20.383789
MA0039.25.27017e-05
MA0138.20.523978
MA0002.21.55322
MA0137.22.49754
MA0104.20.099275
MA0047.20.431964
MA0112.20.793603
MA0065.20.109524
MA0150.12.20256
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.042968
MA0155.10.127763
MA0156.10.200311
MA0157.10.574484
MA0158.10
MA0159.11.41054
MA0160.10.85749
MA0161.10
MA0162.10.0785995
MA0163.10.069011
MA0164.10.408402
MA0080.20.556674
MA0018.20.417217
MA0099.20.518072
MA0079.26.0798e-07
MA0102.21.42135
MA0258.10.756558
MA0259.10.130633
MA0442.10
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