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MCL coexpression mm9:297: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!4.44e-17!31;UBERON:0004119!8.62e-17!118;UBERON:0000925!8.62e-17!118;UBERON:0006595!8.62e-17!118;UBERON:0001007!4.00e-16!116;UBERON:0001555!4.00e-16!116;UBERON:0007026!4.00e-16!116;UBERON:0005409!1.79e-15!47;UBERON:0004921!4.85e-15!114;UBERON:0000344!8.02e-10!15;UBERON:0005177!5.65e-09!79;UBERON:0001242!1.25e-08!13;UBERON:0000060!1.25e-08!13;UBERON:0001262!1.25e-08!13;UBERON:0004786!1.25e-08!13;UBERON:0002100!2.04e-07!90;UBERON:0000466!4.82e-07!79
|tfbs_overrepresentation_for_novel_motifs=0.996608,0.496012,0.90749,0.10379,0.297691,0.359101,0.955578,0.490887,0.797931,0.413774,0.843247,0.156977,0.287298,1.56893,0.141341,0,0.309751,0.28293,0.678636,0.461593,0.204835,1.99417,0.985067,0.294801,1.39758,0.19018,0.409732,0.389073,0.170987,0.274542,1.21916,0.390688,1.19683,0.549502,0.141822,0.33506,0.107578,0.469672,0.698183,0.879506,0.0294192,0.376228,0.0338186,1.3557,2.438,0.32356,0.249844,0.412087,0.020961,0.696619,0.296304,0.59969,0.254857,0.511069,0.526356,0.52404,0.0489568,0.455754,0.21374,1.00074,0.37428,0.61508,0.339634,0.78395,0.184085,0.318903,0.648538,0.976882,0.370478,0.836509,1.27749,0.0549331,0.3128,0.555978,0.358128,1.37487,1.43908,0.241622,0.360359,0.0575393,0.150594,0.32329,0.612722,0.27149,1.15397,1.17297,0.002421,0.448638,0.253413,1.13385,0.712592,0.459726,0.401262,0.130852,0.217255,0.0728776,0.137297,0.403591,0.25003,1.70364,0.107647,0.390457,0.495886,0.29676,0.802619,0.375598,0.342607,1.31188,0.815002,1.20507,0.273137,0.497436,0.462376,1.38182,0.719117,0.11984,4.06704,0.344114,0.31076,0.255342,0.560777,0.271955,0.19139,0.240971,0.769516,0.363346,0.506409,0.395657,0.647155,0.905446,0.481183,0.328832,0.620289,0.185736,0.739171,0.167784,0.611408,0.118762,0.693638,1.49553,1.10287,0.652839,0.199449,0.399329,0.291009,0.118235,0.252115,1.45635,0.0880519,0.552494,0.94828,0.240345,0.512441,0.636231,0.185128,0.584782,0.601328,0.153464,0.586076,1.52051,0.702412,0.454746,0.363706,0.964644,0.288496,0.180287,0.782143,0.472773,0.519133
}}

Latest revision as of 15:03, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127847588..127847621,-p4@Obfc2b
Mm9::chr11:69618965..69618969,-p2@Tmem102
Mm9::chr11:69619119..69619175,-p1@Tmem102
Mm9::chr12:74647331..74647345,-p3@Tmem30b
Mm9::chr12:74647370..74647398,-p1@Tmem30b
Mm9::chr12:74647408..74647436,-p2@Tmem30b
Mm9::chr14:122506298..122506338,+p2@Tm9sf2
Mm9::chr14:122506341..122506394,+p1@Tm9sf2
Mm9::chr16:13903061..13903078,-p2@Pdxdc1
Mm9::chr18:70085133..70085191,+p1@Ccdc68
Mm9::chr18:70085196..70085225,+p2@Ccdc68
Mm9::chr1:34516601..34516659,+p2@Ptpn18
Mm9::chr2:32380533..32380557,+p1@ENSMUST00000150621
Mm9::chr3:106350740..106350806,+p1@Dram2
Mm9::chr4:118199872..118199908,+p1@2610528J11Rik
Mm9::chr4:118216615..118216671,-p1@Tmem125
Mm9::chr4:133074896..133074925,+p1@1810019J16Rik
Mm9::chr4:133794287..133794313,-p2@Cnksr1
Mm9::chr5:145118914..145118970,-p1@Baiap2l1
Mm9::chr5:66472210..66472248,-p2@Rbm47
Mm9::chr7:148286425..148286450,-p1@Sigirr
Mm9::chr7:148286454..148286486,-p2@Sigirr
Mm9::chr8:109127260..109127274,+p1@Cdh1
Mm9::chr9:21116699..21116776,-p1@Ap1m2
Mm9::chr9:21116780..21116789,-p2@Ap1m2
Mm9::chr9:50554580..50554599,-p@chr9:50554580..50554599
-
Mm9::chr9:50554606..50554702,-p1@2310030G06Rik


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>

Cell Type
Ontology termp-valuen
epithelial cell9.58e-0725

Uber Anatomy
Ontology termp-valuen
intestine4.44e-1731
endoderm-derived structure8.62e-17118
endoderm8.62e-17118
presumptive endoderm8.62e-17118
digestive system4.00e-16116
digestive tract4.00e-16116
primitive gut4.00e-16116
gastrointestinal system1.79e-1547
subdivision of digestive tract4.85e-15114
mucosa8.02e-1015
trunk region element5.65e-0979
intestinal mucosa1.25e-0813
anatomical wall1.25e-0813
wall of intestine1.25e-0813
gastrointestinal system mucosa1.25e-0813
trunk2.04e-0790
immaterial anatomical entity4.82e-0779


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)
MA0003.11.77809
MA0004.10.104042
MA0006.10.321056
MA0007.10.0963695
MA0009.10.412602
MA0014.11.21145
MA0017.10.373582
MA0019.10.268299
MA0024.10.982128
MA0025.10.616209
MA0027.11.99083
MA0028.10.964323
MA0029.10.358857
MA0030.10.364159
MA0031.10.335674
MA0038.10.190128
MA0040.10.423075
MA0041.10.516309
MA0042.10.224462
MA0043.10.495015
MA0046.11.12668
MA0048.13.90915
MA0050.10.394575
MA0051.10.570537
MA0052.10.429851
MA0055.10.827716
MA0056.10
MA0057.10.494507
MA0058.10.216391
MA0059.10.499284
MA0060.11.63988
MA0061.10.229521
MA0063.10
MA0066.10.182901
MA0067.10.717937
MA0068.10.0122883
MA0069.11.09923
MA0070.10.421986
MA0071.10.124599
MA0072.10.414891
MA0073.10.0369749
MA0074.10.160032
MA0076.10.727245
MA0077.10.396883
MA0078.10.218627
MA0081.10.259646
MA0083.10.494326
MA0084.11.02883
MA0087.10.457205
MA0088.10.297426
MA0089.10
MA0090.10.611372
MA0091.10.357896
MA0092.10.29369
MA0093.10.155784
MA0095.10
MA0098.10
MA0100.11.45514
MA0101.10.519199
MA0103.13.85231
MA0105.10.331176
MA0106.10.63693
MA0107.10.38302
MA0108.20.285422
MA0109.10
MA0111.10.0938213
MA0113.10.20458
MA0114.11.03436
MA0115.10.497446
MA0116.10.0340292
MA0117.10.469566
MA0119.10.890392
MA0122.10.486676
MA0124.10.668899
MA0125.10.601578
MA0130.10
MA0131.11.34561
MA0132.10
MA0133.10
MA0135.10.526836
MA0136.10.988731
MA0139.10.135354
MA0140.10.152839
MA0141.10.43696
MA0142.10.866283
MA0143.10.215799
MA0144.11.88585
MA0145.11.20375
MA0146.13.68956
MA0147.10.102772
MA0148.10.362249
MA0149.10.0709954
MA0062.23.18304
MA0035.20.155719
MA0039.22.72786
MA0138.20.718426
MA0002.20.0507616
MA0137.21.15535
MA0104.20.0596743
MA0047.21.05736
MA0112.22.19194
MA0065.20.703731
MA0150.10.318861
MA0151.10
MA0152.10.189691
MA0153.10.541494
MA0154.10.544835
MA0155.11.37083
MA0156.12.0869
MA0157.10.299365
MA0158.10
MA0159.10.270136
MA0160.10.366505
MA0161.10
MA0162.13.74117
MA0163.10.203588
MA0164.10.514179
MA0080.21.49904
MA0018.20.179043
MA0099.20.70777
MA0079.20.343895
MA0102.21.07954
MA0258.10.393446
MA0259.10.233481
MA0442.10
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