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MCL coexpression mm9:1027: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!6.93e-18!44;CL:0000133!6.93e-18!44;CL:0000540!1.33e-17!33;CL:0000047!1.33e-17!33;CL:0000031!1.33e-17!33;CL:0000404!1.33e-17!33;CL:0002319!3.24e-17!43;CL:0000055!3.68e-13!49;CL:0000393!9.00e-13!39;CL:0000211!9.00e-13!39;CL:0000117!3.99e-12!23;CL:0000337!3.99e-12!23
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!9.82e-33!95;UBERON:0000924!9.82e-33!95;UBERON:0006601!9.82e-33!95;UBERON:0001016!5.55e-31!75;UBERON:0001017!1.04e-30!73;UBERON:0002346!2.47e-28!64;UBERON:0003075!2.47e-28!64;UBERON:0007284!2.47e-28!64;UBERON:0010371!1.49e-26!73;UBERON:0000073!2.29e-21!54;UBERON:0010314!3.58e-21!92;UBERON:0003056!4.59e-21!49;UBERON:0001049!1.47e-20!52;UBERON:0005068!1.47e-20!52;UBERON:0006241!1.47e-20!52;UBERON:0007135!1.47e-20!52;UBERON:0000955!5.10e-18!47;UBERON:0006238!5.10e-18!47;UBERON:0002616!2.67e-17!46;UBERON:0002020!2.85e-17!34;UBERON:0003080!9.23e-16!40;UBERON:0002780!2.81e-15!39;UBERON:0001890!2.81e-15!39;UBERON:0006240!2.81e-15!39;UBERON:0003528!7.53e-15!29;UBERON:0002791!7.53e-15!29;UBERON:0001893!7.53e-15!29;UBERON:0000956!4.05e-11!21;UBERON:0001869!4.05e-11!21;UBERON:0000203!4.05e-11!21;UBERON:0000468!1.00e-09!333;UBERON:0002619!8.40e-09!17;UBERON:0000922!3.18e-07!320;UBERON:0000479!5.08e-07!349
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.660133,0.411716,0.480627,0.299217,0.495263,0.587291,0.594722,0.215218,0.478312,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,0.19222,0.731589,0.374752,0.08187,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.344372,0.876948,0.50223,0.897561,0.78719,0.166577,0.316253,0.101236,0.279977,0.57142,0.258564,0.652422,0.295233,0.507468,0.258106,0.317766,0.515031,0.469348,0.714592,0.532496,0.219744,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.937475,1.3814,0.522357,0.604914,0.877332,0.664501,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,1.01778,0.21183,0.0869413,1.09164,0.17012,0.482617,0.166511,0.703064,0.859987,0.378988,1.14907,0.812889,0.663039,1.09903,0.975495,0.0369809,0.042613,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.203879,0.913319,0.71485,0.127063,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,1.10097,1.02459,0.380122,0.547992,1.27206,0.293461,0.0501572,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.580299,1.13474,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,1.81619,0.507927,0.717753,2.03691,0.448938,0.813943,0.452587,0.0736236,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.0206035
|tfbs_overrepresentation_jaspar=MA0003.1;0.0286946,MA0004.1;0.481116,MA0006.1;0.311391,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;0.0200028,MA0017.1;0.337808,MA0019.1;0.740036,MA0024.1;0.880057,MA0025.1;1.15921,MA0027.1;2.57545,MA0028.1;0.321735,MA0029.1;0.858105,MA0030.1;2.00977,MA0031.1;1.93597,MA0038.1;0.62758,MA0040.1;0.936879,MA0041.1;1.04397,MA0042.1;1.01509,MA0043.1;1.02178,MA0046.1;0.960497,MA0048.1;0.40238,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;1.92126,MA0056.1;0,MA0057.1;0.376102,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;0.232592,MA0061.1;0.261749,MA0063.1;0,MA0066.1;0.616444,MA0067.1;1.27078,MA0068.1;1.25994,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;2.22537,MA0072.1;0.927016,MA0073.1;0.00782298,MA0074.1;0.580087,MA0076.1;0.356883,MA0077.1;0.905143,MA0078.1;0.670113,MA0081.1;1.07783,MA0083.1;1.02098,MA0084.1;1.59945,MA0087.1;0.977537,MA0088.1;0.0841779,MA0089.1;0,MA0090.1;0.446539,MA0091.1;0.494398,MA0092.1;0.446857,MA0093.1;0.329976,MA0095.1;0,MA0098.1;0,MA0100.1;1.39455,MA0101.1;0.406019,MA0103.1;0.348572,MA0105.1;0.162418,MA0106.1;0.677988,MA0107.1;0.906859,MA0108.2;0.763162,MA0109.1;0,MA0111.1;0.460823,MA0113.1;0.649407,MA0114.1;0.259463,MA0115.1;1.0246,MA0116.1;0.311187,MA0117.1;0.992087,MA0119.1;0.40661,MA0122.1;1.01209,MA0124.1;1.21735,MA0125.1;1.14291,MA0130.1;0,MA0131.1;0.735438,MA0132.1;0,MA0133.1;0,MA0135.1;1.05845,MA0136.1;0.600242,MA0139.1;0.202522,MA0140.1;0.568252,MA0141.1;0.368264,MA0142.1;0.814115,MA0143.1;1.59922,MA0144.1;0.262477,MA0145.1;0.304732,MA0146.1;0.264322,MA0147.1;0.274511,MA0148.1;0.49752,MA0149.1;0.411562,MA0062.2;0.167299,MA0035.2;0.573016,MA0039.2;0.113749,MA0138.2;0.727395,MA0002.2;0.205289,MA0137.2;0.365364,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;0.304722,MA0065.2;0.633155,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;1.07519,MA0154.1;0.126143,MA0155.1;0.336768,MA0156.1;0.356017,MA0157.1;0.781683,MA0158.1;0,MA0159.1;0.284457,MA0160.1;1.25065,MA0161.1;0,MA0162.1;0.127623,MA0163.1;0.0280055,MA0164.1;0.600609,MA0080.2;0.908823,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;0.323753,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.26402,MA0442.1;0
}}

Latest revision as of 16:16, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:57504665..57504709,+p2@Fabp7
Mm9::chr13:83869149..83869189,-p2@ENSMUST00000171323
p2@uc011zcg.1
Mm9::chr3:34552508..34552515,+p@chr3:34552508..34552515
+
Mm9::chr4:97251271..97251292,-p1@E130114P18Rik
Mm9::chr4:97251303..97251334,-p1@ENSMUST00000107068
p1@ENSMUST00000126721
p1@ENSMUST00000147925
p1@ENSMUST00000151946
Mm9::chr5:67359660..67359686,+p7@Limch1
Mm9::chr5:67359771..67359785,+p9@Limch1


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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
ectoderm-derived structure9.82e-3395
ectoderm9.82e-3395
presumptive ectoderm9.82e-3395
nervous system5.55e-3175
central nervous system1.04e-3073
neurectoderm2.47e-2864
neural plate2.47e-2864
presumptive neural plate2.47e-2864
ecto-epithelium1.49e-2673
regional part of nervous system2.29e-2154
structure with developmental contribution from neural crest3.58e-2192
pre-chordal neural plate4.59e-2149
neural tube1.47e-2052
neural rod1.47e-2052
future spinal cord1.47e-2052
neural keel1.47e-2052
brain5.10e-1847
future brain5.10e-1847
regional part of brain2.67e-1746
gray matter2.85e-1734
anterior neural tube9.23e-1640
regional part of forebrain2.81e-1539
forebrain2.81e-1539
future forebrain2.81e-1539
brain grey matter7.53e-1529
regional part of telencephalon7.53e-1529
telencephalon7.53e-1529
cerebral cortex4.05e-1121
cerebral hemisphere4.05e-1121
pallium4.05e-1121
multi-cellular organism1.00e-09333
regional part of cerebral cortex8.40e-0917
embryo3.18e-07320
tissue5.08e-07349


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)
MA0003.10.0286946
MA0004.10.481116
MA0006.10.311391
MA0007.10.465969
MA0009.10.92425
MA0014.10.0200028
MA0017.10.337808
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.321735
MA0029.10.858105
MA0030.12.00977
MA0031.11.93597
MA0038.10.62758
MA0040.10.936879
MA0041.11.04397
MA0042.11.01509
MA0043.11.02178
MA0046.10.960497
MA0048.10.40238
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.11.92126
MA0056.10
MA0057.10.376102
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.11.25994
MA0069.10.945354
MA0070.10.93557
MA0071.12.22537
MA0072.10.927016
MA0073.10.00782298
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.11.07783
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.0841779
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.11.39455
MA0101.10.406019
MA0103.10.348572
MA0105.10.162418
MA0106.10.677988
MA0107.10.906859
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.10.311187
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.10.202522
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.11.59922
MA0144.10.262477
MA0145.10.304732
MA0146.10.264322
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.113749
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.20.304722
MA0065.20.633155
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.126143
MA0155.10.336768
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.11.25065
MA0161.10
MA0162.10.127623
MA0163.10.0280055
MA0164.10.600609
MA0080.20.908823
MA0018.20.610433
MA0099.20.721008
MA0079.20.323753
MA0102.21.65195
MA0258.10.246285
MA0259.10.26402
MA0442.10
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