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MCL coexpression mm9:299: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0007100!3.39e-17!18;UBERON:0000948!3.39e-17!18;UBERON:0005498!3.39e-17!18;UBERON:0004140!3.39e-17!18;UBERON:0009881!3.39e-17!18;UBERON:0004141!3.39e-17!18;UBERON:0003084!3.39e-17!18;UBERON:0007005!3.39e-17!18;UBERON:0004139!3.39e-17!18;UBERON:0004291!3.39e-17!18;UBERON:0004535!1.98e-12!23;UBERON:0001009!1.98e-12!23;UBERON:0004872!2.41e-08!33
|tfbs_overrepresentation_for_novel_motifs=0.0829166,0.00044392,0.0710623,1.14344,0.867839,0.111436,0.164473,1.42317,0.15395,0.0500848,0.137777,0.475202,0.491749,0.172248,0.329595,0,0.309751,0.523643,0.251913,0.296846,0.450817,0.172507,0.17167,0.123801,0.0743998,0.19018,0.63915,0.389073,0.0447558,0.448036,0.115155,0.390688,0.0277557,0.345661,0.0355679,0.33506,0.0253476,0.154752,0.0893077,0.177786,1.23045,0.117985,0.73607,0.333507,0.407249,0.0980588,0.249844,0.131897,2.1609,0.174161,0.296304,0.208297,0.0586377,0.511069,0.526356,0.176842,0.411591,0.149174,0.0341937,0.175527,0.37428,0.214788,0.0648948,0.287721,0.184085,0.318903,0.648538,0.976882,0.370478,0.836509,0.063053,0.148896,0.000600854,0.555978,0.00566569,0.177468,0.801254,0.241622,0.360359,0.0575393,0.786163,0.32329,0.213792,0.131993,0.455476,2.75795e-05,32.3536,0.147679,0.253413,1.13385,0.712592,0.459726,0.401262,0.564989,0.0193136,0.0728776,0.738755,0.403591,0.697528,0.0468111,0.262089,0.390457,0.495886,0.29676,0.295953,0.117743,0.342607,0.129587,0.0594702,0.0565866,0.0796301,0.497436,0.211055,0.140823,0.719117,0.286844,8.43613e-05,0.105758,0.31076,0.479176,0.560777,0.271955,0.19139,0.240971,0.769516,0.953191,0.976729,0.395657,0.647155,0.574009,0.481183,1.64467,0.620289,1.64608,0.739171,1.96661,0.0869147,0.378248,0.693638,1.49553,1.10287,0.652839,2.43833,0.399329,0.791415,4.70722,0.252115,1.45635,0.0880519,0.126902,0.00361487,0.000334972,0.512441,0.0772177,0.185128,7.46366,0.601328,1.89116,9.13953,0.0867803,0.702412,0.454746,0.363706,0.0785906,0.785711,0.180287,0.259945,2.82727,0.00368333
|tfbs_overrepresentation_jaspar=MA0003.1;2.8275e-07,MA0004.1;0.104042,MA0006.1;0.584269,MA0007.1;0.319014,MA0009.1;0.412602,MA0014.1;3.59888e-05,MA0017.1;1.96082,MA0019.1;0.268299,MA0024.1;0.37648,MA0025.1;0.616209,MA0027.1;1.99083,MA0028.1;0.0372733,MA0029.1;2.53757,MA0030.1;0.364159,MA0031.1;0.335674,MA0038.1;0.190128,MA0040.1;0.423075,MA0041.1;0.2404,MA0042.1;1.27197,MA0043.1;0.495015,MA0046.1;0.442826,MA0048.1;0.00225319,MA0050.1;0.12507,MA0051.1;0.196084,MA0052.1;1.92625,MA0055.1;0.0074089,MA0056.1;0,MA0057.1;0.0112986,MA0058.1;0.0597941,MA0059.1;0.0648268,MA0060.1;0.0692355,MA0061.1;0.229521,MA0063.1;0,MA0066.1;0.182901,MA0067.1;0.717937,MA0068.1;0.00188487,MA0069.1;0.430137,MA0070.1;0.421986,MA0071.1;0.785781,MA0072.1;0.414891,MA0073.1;6.61738,MA0074.1;0.160032,MA0076.1;0.0491916,MA0077.1;0.396883,MA0078.1;0.218627,MA0081.1;0.936282,MA0083.1;0.494326,MA0084.1;1.02883,MA0087.1;0.457205,MA0088.1;0.853529,MA0089.1;0,MA0090.1;0.0869074,MA0091.1;0.110977,MA0092.1;0.29369,MA0093.1;0.0399156,MA0095.1;0,MA0098.1;0,MA0100.1;0.152909,MA0101.1;0.241986,MA0103.1;0.0462215,MA0105.1;0.182808,MA0106.1;0.224053,MA0107.1;0.38302,MA0108.2;0.285422,MA0109.1;0,MA0111.1;0.312128,MA0113.1;0.20458,MA0114.1;0.22556,MA0115.1;0.497446,MA0116.1;0.0340292,MA0117.1;0.469566,MA0119.1;0.0688632,MA0122.1;0.486676,MA0124.1;0.668899,MA0125.1;0.601578,MA0130.1;0,MA0131.1;0.264933,MA0132.1;0,MA0133.1;0,MA0135.1;0.526836,MA0136.1;0.513613,MA0139.1;0.00975676,MA0140.1;0.152839,MA0141.1;0.0534089,MA0142.1;0.324241,MA0143.1;0.61747,MA0144.1;0.092533,MA0145.1;0.000706813,MA0146.1;7.10193e-06,MA0147.1;0.102772,MA0148.1;0.362249,MA0149.1;0.531582,MA0062.2;0.029827,MA0035.2;0.919281,MA0039.2;1.42873e-08,MA0138.2;0.259078,MA0002.2;0.746077,MA0137.2;0.430805,MA0104.2;0.0596743,MA0047.2;0.18962,MA0112.2;0.00527262,MA0065.2;0.502938,MA0150.1;0.318861,MA0151.1;0,MA0152.1;0.189691,MA0153.1;0.541494,MA0154.1;0.212555,MA0155.1;0.145815,MA0156.1;0.0488777,MA0157.1;0.299365,MA0158.1;0,MA0159.1;0.111589,MA0160.1;0.114259,MA0161.1;0,MA0162.1;0.0106561,MA0163.1;0.000677053,MA0164.1;1.57214,MA0080.2;0.0443911,MA0018.2;0.179043,MA0099.2;0.70777,MA0079.2;3.13406e-15,MA0102.2;1.07954,MA0258.1;0.0795237,MA0259.1;0.021443,MA0442.1;0
}}

Latest revision as of 15:03, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:32858918..32858930,+p@chr10:32858918..32858930
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Mm9::chr10:32876871..32876918,+p@chr10:32876871..32876918
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Mm9::chr10:32876933..32876947,+p@chr10:32876933..32876947
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Mm9::chr10:32878050..32878056,+p@chr10:32878050..32878056
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Mm9::chr10:32895592..32895607,+p@chr10:32895592..32895607
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Mm9::chr10:80669796..80669809,+p@chr10:80669796..80669809
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Mm9::chr11:58897749..58897752,-p@chr11:58897749..58897752
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Mm9::chr11:58934427..58934464,-p@chr11:58934427..58934464
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Mm9::chr19:56452436..56452453,-p@chr19:56452436..56452453
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Mm9::chr2:180129005..180129014,+p@chr2:180129005..180129014
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Mm9::chr2:180129023..180129034,+p@chr2:180129023..180129034
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Mm9::chr2:180129060..180129077,+p@chr2:180129060..180129077
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Mm9::chr2:180129084..180129103,+p@chr2:180129084..180129103
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Mm9::chr2:180129127..180129153,+p@chr2:180129127..180129153
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Mm9::chr2:180129171..180129201,+p@chr2:180129171..180129201
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Mm9::chr2:180129223..180129241,+p@chr2:180129223..180129241
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Mm9::chr2:180131606..180131617,+p@chr2:180131606..180131617
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Mm9::chr2:180132013..180132038,+p@chr2:180132013..180132038
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Mm9::chr2:180132046..180132060,+p@chr2:180132046..180132060
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Mm9::chr2:76743674..76743686,-p@chr2:76743674..76743686
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Mm9::chr6:97198514..97198538,-p@chr6:97198514..97198538
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Mm9::chr6:97202319..97202331,-p@chr6:97202319..97202331
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Mm9::chr7:31838575..31838586,-p9@Fxyd1
Mm9::chr8:15064820..15064830,+p@chr8:15064820..15064830
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Mm9::chr8:15086117..15086125,+p@chr8:15086117..15086125
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Mm9::chr8:15086239..15086246,+p@chr8:15086239..15086246
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Mm9::chr9:77500495..77500501,+p@chr9:77500495..77500501
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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:0043168anion binding0.0213663507368652
GO:0031404chloride ion binding0.0213663507368652
GO:0005254chloride channel activity0.0213663507368652
GO:0005253anion channel activity0.0213663507368652
GO:0008509anion transmembrane transporter activity0.031907083767052



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>


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)
MA0003.12.8275e-07
MA0004.10.104042
MA0006.10.584269
MA0007.10.319014
MA0009.10.412602
MA0014.13.59888e-05
MA0017.11.96082
MA0019.10.268299
MA0024.10.37648
MA0025.10.616209
MA0027.11.99083
MA0028.10.0372733
MA0029.12.53757
MA0030.10.364159
MA0031.10.335674
MA0038.10.190128
MA0040.10.423075
MA0041.10.2404
MA0042.11.27197
MA0043.10.495015
MA0046.10.442826
MA0048.10.00225319
MA0050.10.12507
MA0051.10.196084
MA0052.11.92625
MA0055.10.0074089
MA0056.10
MA0057.10.0112986
MA0058.10.0597941
MA0059.10.0648268
MA0060.10.0692355
MA0061.10.229521
MA0063.10
MA0066.10.182901
MA0067.10.717937
MA0068.10.00188487
MA0069.10.430137
MA0070.10.421986
MA0071.10.785781
MA0072.10.414891
MA0073.16.61738
MA0074.10.160032
MA0076.10.0491916
MA0077.10.396883
MA0078.10.218627
MA0081.10.936282
MA0083.10.494326
MA0084.11.02883
MA0087.10.457205
MA0088.10.853529
MA0089.10
MA0090.10.0869074
MA0091.10.110977
MA0092.10.29369
MA0093.10.0399156
MA0095.10
MA0098.10
MA0100.10.152909
MA0101.10.241986
MA0103.10.0462215
MA0105.10.182808
MA0106.10.224053
MA0107.10.38302
MA0108.20.285422
MA0109.10
MA0111.10.312128
MA0113.10.20458
MA0114.10.22556
MA0115.10.497446
MA0116.10.0340292
MA0117.10.469566
MA0119.10.0688632
MA0122.10.486676
MA0124.10.668899
MA0125.10.601578
MA0130.10
MA0131.10.264933
MA0132.10
MA0133.10
MA0135.10.526836
MA0136.10.513613
MA0139.10.00975676
MA0140.10.152839
MA0141.10.0534089
MA0142.10.324241
MA0143.10.61747
MA0144.10.092533
MA0145.10.000706813
MA0146.17.10193e-06
MA0147.10.102772
MA0148.10.362249
MA0149.10.531582
MA0062.20.029827
MA0035.20.919281
MA0039.21.42873e-08
MA0138.20.259078
MA0002.20.746077
MA0137.20.430805
MA0104.20.0596743
MA0047.20.18962
MA0112.20.00527262
MA0065.20.502938
MA0150.10.318861
MA0151.10
MA0152.10.189691
MA0153.10.541494
MA0154.10.212555
MA0155.10.145815
MA0156.10.0488777
MA0157.10.299365
MA0158.10
MA0159.10.111589
MA0160.10.114259
MA0161.10
MA0162.10.0106561
MA0163.10.000677053
MA0164.11.57214
MA0080.20.0443911
MA0018.20.179043
MA0099.20.70777
MA0079.23.13406e-15
MA0102.21.07954
MA0258.10.0795237
MA0259.10.021443
MA0442.10
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