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MCL coexpression mm9:489: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0015898;amiloride transport;0.0293102503698022;76507!GO:0048038;quinone binding;0.0439557408918446;76507!GO:0008131;amine oxidase activity;0.0488290092672435;76507!
|ontology_enrichment_celltype=CL:0002563!2.56e-11!9;CL:0002251!2.56e-11!9;CL:0000239!2.62e-08!6;CL:0000677!2.62e-08!6;CL:0000212!2.62e-08!6;CL:0000584!2.62e-08!6;CL:0000075!5.89e-07!7
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!1.12e-34!31;UBERON:0005409!5.54e-29!47;UBERON:0000344!1.34e-18!15;UBERON:0001242!2.44e-16!13;UBERON:0000060!2.44e-16!13;UBERON:0001262!2.44e-16!13;UBERON:0004786!2.44e-16!13;UBERON:0003350!2.56e-11!9;UBERON:0004808!2.56e-11!9;UBERON:0001277!2.56e-11!9;UBERON:0004923!4.40e-11!24;UBERON:0000485!7.68e-09!11;UBERON:0004119!5.61e-07!118;UBERON:0000925!5.61e-07!118;UBERON:0006595!5.61e-07!118;UBERON:0001007!9.01e-07!116;UBERON:0001555!9.01e-07!116;UBERON:0007026!9.01e-07!116
|tfbs_overrepresentation_for_novel_motifs=0.206403,0.59339,0.186933,0.238864,0.356286,0.698129,0.324772,0.460624,0.485477,0.0308722,0.288187,0.314655,0.210446,0.335151,0.383709,0,0.505674,0.34341,0.1896,0.409021,0.160516,0.28295,0.334384,0.109412,0.192505,0.35869,0.401215,0.267095,0.139679,0.547046,0.255771,0.598971,0.693185,0.352983,0.121176,0.524376,0.324876,0.311629,1.01847,0.247011,0.107883,0.259911,0.252106,0.122151,0.409286,0.230148,0.433813,0.279902,0.198601,0.436869,0.48979,0.381972,0.281801,0.732469,0.749094,0.341233,0.147717,0.303999,0.674421,0.339495,0.580338,0.390204,0.516848,0.479581,0.350748,0.516415,0.880067,1.22155,0.576002,1.07689,0.173229,0.823515,0.0113485,0.781142,0.040685,0.606791,0.634128,1.08528,0.564426,0.163487,0.479273,1.29536,0.388944,0.443997,0.671442,0.00202775,0.848455,0.547574,0.438181,1.38183,0.947651,0.676142,0.610915,0.114049,0.284335,0.257625,0.0565042,0.613539,0.43404,0.249401,0.0985954,0.59871,0.715894,0.490329,0.489372,0.259558,0.543989,0.276621,0.499786,0.487082,0.582521,0.717588,0.164285,0.292444,0.954503,0.106786,0.0693264,0.241826,0.506861,1.61096,0.786314,0.46068,0.360259,0.422901,1.00724,0.567849,0.331666,0.60459,0.8786,0.370855,0.699779,0.233152,0.850049,0.352905,0.975524,0.0491355,0.212784,0.722951,0.927716,1.74768,1.35029,0.884624,0.370659,0.608735,0.483498,0.721183,0.436593,1.7082,1.15531,0.111457,0.556427,0.119607,0.733963,0.56364,0.352111,0.81211,0.382849,0.128633,0.590764,0.212571,0.93695,0.670634,1.39432,0.199399,0.480505,0.914274,0.0978842,0.841805,0.00458245
}}

Latest revision as of 15:23, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:58191043..58191048,+p@chr11:58191043..58191048
+
Mm9::chr11:62574529..62574553,+p1@ENSMUST00000128292
Mm9::chr17:28954648..28954666,+p@chr17:28954648..28954666
+
Mm9::chr17:28954680..28954694,+p@chr17:28954680..28954694
+
Mm9::chr19:41068744..41068762,-p5@Blnk
Mm9::chr19:41068768..41068779,-p6@Blnk
Mm9::chr3:128928440..128928460,-p@chr3:128928440..128928460
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Mm9::chr5:148118614..148118625,-p4@Cdx2
Mm9::chr5:148118639..148118715,-p1@Cdx2
Mm9::chr6:108482619..108482640,-p@chr6:108482619..108482640
-
Mm9::chr6:135312399..135312415,+p@chr6:135312399..135312415
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Mm9::chr6:48845213..48845232,+p4@Abp1
Mm9::chr7:52596120..52596147,-p3@Ppfia3
Mm9::chr8:77397026..77397036,+p6@Isx
Mm9::chr9:60661477..60661512,+p@chr9:60661477..60661512
+


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:0015898amiloride transport0.0293102503698022
GO:0048038quinone binding0.0439557408918446
GO:0008131amine oxidase activity0.0488290092672435



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>


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)
MA0003.10.0773439
MA0004.10.239244
MA0006.10.118059
MA0007.10.64515
MA0009.10.623671
MA0014.10.00434123
MA0017.10.420732
MA0019.11.15568
MA0024.10.582844
MA0025.10.845702
MA0027.12.24512
MA0028.10.12472
MA0029.10.562703
MA0030.10.568779
MA0031.10.535959
MA0038.10.942753
MA0040.10.635404
MA0041.10.18185
MA0042.10.172351
MA0043.10.71494
MA0046.11.58136
MA0048.10.0239691
MA0050.10.743895
MA0051.10.366328
MA0052.10.642973
MA0055.10.00245735
MA0056.10
MA0057.10.226212
MA0058.10.167504
MA0059.10.176308
MA0060.10.249987
MA0061.10.615538
MA0063.10
MA0066.10.349199
MA0067.10.953264
MA0068.10.0216542
MA0069.10.643292
MA0070.10.634186
MA0071.11.36243
MA0072.10.626238
MA0073.10.0103286
MA0074.10.318792
MA0076.10.148159
MA0077.10.605975
MA0078.10.395048
MA0081.10.193203
MA0083.10.714187
MA0084.11.27474
MA0087.10.673355
MA0088.10.0106511
MA0089.10
MA0090.10.610307
MA0091.10.696557
MA0092.10.610874
MA0093.10.130107
MA0095.10
MA0098.10
MA0100.10.309116
MA0101.10.182791
MA0103.10.863534
MA0105.10.617024
MA0106.10.401864
MA0107.10.138378
MA0108.20.476838
MA0109.10
MA0111.10.223614
MA0113.10.377232
MA0114.10.609093
MA0115.10.717599
MA0116.10.117928
MA0117.11.64298
MA0119.10.183219
MA0122.10.705806
MA0124.10.901619
MA0125.10.830088
MA0130.10
MA0131.10.452196
MA0132.10
MA0133.10
MA0135.11.77281
MA0136.10.335579
MA0139.10.45049
MA0140.10.832119
MA0141.10.472769
MA0142.10.522654
MA0143.10.391481
MA0144.10.617592
MA0145.10.160233
MA0146.10.00683492
MA0147.10.0952713
MA0148.10.252062
MA0149.11.65222
MA0062.20.154316
MA0035.20.84095
MA0039.20.0306485
MA0138.20.445088
MA0002.20.796194
MA0137.20.467774
MA0104.20.0641853
MA0047.20.357963
MA0112.21.53116
MA0065.20.060272
MA0150.10.644946
MA0151.10
MA0152.10.9415
MA0153.11.80563
MA0154.10.247047
MA0155.10.189024
MA0156.10.45173
MA0157.11.23539
MA0158.10
MA0159.10.332142
MA0160.10.254455
MA0161.10
MA0162.10.00971175
MA0163.10.0289848
MA0164.10.335886
MA0080.20.848376
MA0018.20.344133
MA0099.20.439458
MA0079.20.000779432
MA0102.21.32652
MA0258.10.967298
MA0259.10.621948
MA0442.10
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