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MCL coexpression mm9:163: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.17e-15!118;UBERON:0000925!2.17e-15!118;UBERON:0006595!2.17e-15!118;UBERON:0001007!1.60e-14!116;UBERON:0001555!1.60e-14!116;UBERON:0007026!1.60e-14!116;UBERON:0005409!1.33e-13!47;UBERON:0004921!1.66e-13!114;UBERON:0000160!1.83e-12!31;UBERON:0004923!2.05e-11!24;UBERON:0000344!5.16e-09!15;UBERON:0001242!7.48e-08!13;UBERON:0000060!7.48e-08!13;UBERON:0001262!7.48e-08!13;UBERON:0004786!7.48e-08!13
|tfbs_overrepresentation_for_novel_motifs=1.12984,1.57093,1.30246,0.0476067,0.00422895,0.0542312,0.789118,0.0201398,0.170462,3.88975,1.33159,0.0997278,0.480766,0.520639,0.00575909,0,1.05097,0.167479,1.36192,0.352035,0.0145339,0.883525,2.10955,0.180102,0.505722,0.323603,0.0558117,1.5888,0.165965,1.19654,0.801188,0.429896,0.796234,0.272453,2.64764,0.804139,3.35533,1.08156,0.44159,0.628705,0.17514,2.42589,0.0471527,0.00596766,2.01967,0.678106,1.24085,1.27901,0.0372462,0.170922,0.998282,1.02138,0.447481,0.632916,0.233728,0.537905,0.0385933,0.434753,0.0848863,0.532956,0.803006,0.682115,0.121402,0.570293,0.56522,4.29837,0.329653,0.616867,0.126144,1.2284,3.18374,0.0951933,1.78169,0.256208,2.42504,3.19138,0.272151,0.451021,0.119914,0.38165,0.00885456,0.664753,0.167959,0.076893,1.62689,5.63408,0.944255,0.12008,0.481135,0.763142,0.382871,0.544637,0.145735,0.107111,1.01469,0.015554,0.0426963,0.8837,0.817986,0.180543,0.0119157,0.847444,0.606582,0.0833891,0.282384,0.819709,1.18013,0.185164,1.12529,2.98327,0.544025,0.212331,0.384939,0.404069,0.388387,0.0421833,2.67421,0.733695,1.56096,0.0321611,0.259901,0.070507,0.139774,0.204057,0.431518,0.385979,0.274938,0.86178,0.328524,0.685414,0.200563,0.987611,0.306767,0.312955,0.40544,0.201993,0.0998918,0.162328,0.366944,1.11117,0.733971,0.33317,0.0380209,0.44397,0.578945,0.161235,0.477804,1.07297,0.101978,2.44793,1.22939,4.34334,0.223362,1.16207,0.0326228,0.278572,0.0418142,0.246349,0.196573,2.36073,0.374299,0.536197,0.386551,0.536421,0.0790063,0.126395,0.733002,0.0986539,2.35012
|tfbs_overrepresentation_jaspar=MA0003.1;14.869,MA0004.1;1.77213,MA0006.1;0.70332,MA0007.1;0.665874,MA0009.1;0.15318,MA0014.1;19.3529,MA0017.1;0.425296,MA0019.1;0.242182,MA0024.1;0.809034,MA0025.1;0.303494,MA0027.1;1.59941,MA0028.1;6.17794,MA0029.1;0.118998,MA0030.1;0.38727,MA0031.1;0.698051,MA0038.1;1.78702,MA0040.1;0.483091,MA0041.1;0.948957,MA0042.1;1.17312,MA0043.1;0.210566,MA0046.1;0.173584,MA0048.1;1.14061,MA0050.1;0.066821,MA0051.1;0.33785,MA0052.1;0.164728,MA0055.1;0.0543968,MA0056.1;0,MA0057.1;3.65115,MA0058.1;4.07392,MA0059.1;0.908658,MA0060.1;7.62205,MA0061.1;0.311612,MA0063.1;0,MA0066.1;0.560747,MA0067.1;0.387388,MA0068.1;0.228326,MA0069.1;0.164922,MA0070.1;0.15943,MA0071.1;0.0663704,MA0072.1;0.469536,MA0073.1;6.1714,MA0074.1;0.103106,MA0076.1;4.67891,MA0077.1;0.439978,MA0078.1;0.174236,MA0081.1;0.316944,MA0083.1;0.210065,MA0084.1;0.664822,MA0087.1;0.183562,MA0088.1;1.48621,MA0089.1;0,MA0090.1;0.0341902,MA0091.1;0.0538249,MA0092.1;0.0343024,MA0093.1;3.26569,MA0095.1;0,MA0098.1;0,MA0100.1;0.727777,MA0101.1;0.285073,MA0103.1;0.0867555,MA0105.1;0.253631,MA0106.1;0.717683,MA0107.1;0.0808299,MA0108.2;0.0773988,MA0109.1;0,MA0111.1;0.647402,MA0113.1;0.156186,MA0114.1;0.821788,MA0115.1;0.212338,MA0116.1;1.20591,MA0117.1;1.06789,MA0119.1;0.958944,MA0122.1;0.590697,MA0124.1;0.346379,MA0125.1;0.291827,MA0130.1;0,MA0131.1;1.83389,MA0132.1;0,MA0133.1;0,MA0135.1;0.234087,MA0136.1;0.832065,MA0139.1;1.49367,MA0140.1;0.0952116,MA0141.1;0.0132779,MA0142.1;0.324979,MA0143.1;0.0446173,MA0144.1;0.0253016,MA0145.1;1.4522,MA0146.1;5.05147,MA0147.1;0.929028,MA0148.1;0.14973,MA0149.1;0.480736,MA0062.2;6.77222,MA0035.2;0.022714,MA0039.2;13.6416,MA0138.2;1.2895,MA0002.2;0.0846659,MA0137.2;0.104203,MA0104.2;0.555565,MA0047.2;1.3236,MA0112.2;0.891978,MA0065.2;0.741795,MA0150.1;0.11748,MA0151.1;0,MA0152.1;0.0343035,MA0153.1;0.245148,MA0154.1;0.176658,MA0155.1;2.24876,MA0156.1;1.24497,MA0157.1;0.0847892,MA0158.1;0,MA0159.1;0.394268,MA0160.1;0.0567586,MA0161.1;0,MA0162.1;12.038,MA0163.1;7.76519,MA0164.1;0.117613,MA0080.2;0.284636,MA0018.2;0.86639,MA0099.2;0.22266,MA0079.2;37.3349,MA0102.2;0.712096,MA0258.1;0.260293,MA0259.1;2.6927,MA0442.1;0
}}

Latest revision as of 14:48, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:41238915..41238926,-p@chr10:41238915..41238926
-
Mm9::chr10:89148964..89148989,-p2@Scyl2
Mm9::chr11:101163543..101163605,-p1@Becn1
Mm9::chr11:75275126..75275143,+p2@ENSMUST00000134345
Mm9::chr11:75275168..75275188,+p1@ENSMUST00000134345
Mm9::chr12:111685422..111685440,+p3@Ppp2r5c
Mm9::chr12:70782782..70782856,-p2@Sos2
Mm9::chr12:78063146..78063159,-p2@Max
Mm9::chr12:78063165..78063227,-p1@Max
Mm9::chr13:34094244..34094292,+p1@Ripk1
Mm9::chr13:34094299..34094310,+p2@Ripk1
Mm9::chr13:55423258..55423272,-p2@Rab24
Mm9::chr13:55423289..55423335,-p1@Rab24
Mm9::chr13:65214271..65214295,-p2@Hiatl1
Mm9::chr13:65214302..65214312,-p4@Hiatl1
Mm9::chr13:97312682..97312730,+p1@Col4a3bp
Mm9::chr14:31439382..31439406,-p1@Prkcd
Mm9::chr14:56503797..56503847,+p1@Khnyn
Mm9::chr14:68551569..68551642,-p1@Dock5
Mm9::chr15:102289624..102289651,+p1@Prr13
Mm9::chr15:73342989..73343037,+p1@Dennd3
Mm9::chr15:81415768..81415811,+p1@Ep300
Mm9::chr16:57231547..57231622,-p2@Tbc1d23
Mm9::chr17:34974027..34974111,+p1@Dom3z
Mm9::chr18:12287251..12287316,+p1@Riok3
Mm9::chr18:78033296..78033349,+p1@Pstpip2
Mm9::chr19:4397052..4397098,-p1@Kdm2a
Mm9::chr19:53384910..53384937,+p3@Mxi1
Mm9::chr19:53384985..53385042,+p1@Mxi1
Mm9::chr19:53385060..53385069,+p6@Mxi1
Mm9::chr19:6015152..6015198,-p1@Capn1
Mm9::chr19:6241699..6241734,+p1@Atg2a
Mm9::chr1:161162430..161162451,+p2@LOC100504800
p2@Rfwd2
Mm9::chr1:163806719..163806738,-p5@AI848100
Mm9::chr1:75207407..75207485,+p1@Stk16
Mm9::chr2:164630324..164630337,-p1@Acot8
Mm9::chr2:60221292..60221347,-p1@Ly75
Mm9::chr2:68699490..68699567,+p1@Lass6
Mm9::chr3:107948998..107949068,-p1@Gnai3
Mm9::chr3:108925918..108925977,+p3@Slc25a24
Mm9::chr3:157609959..157610005,+p3@Ankrd13c
Mm9::chr3:16083208..16083280,+p1@Ythdf3
Mm9::chr3:21975566..21975603,+p3@Tbl1xr1
Mm9::chr3:51465131..51465172,+p2@Mgst2
Mm9::chr3:9004422..9004428,-p7@Tpd52
Mm9::chr3:9004472..9004515,-p1@Tpd52
Mm9::chr3:9004686..9004750,-p2@Tpd52
Mm9::chr4:10934782..10934802,-p2@Plekhf2
Mm9::chr4:116393525..116393609,+p1@Tesk2
Mm9::chr4:126431114..126431124,+p3@AU040320
Mm9::chr4:154999040..154999049,+p4@Cdk11b
Mm9::chr4:41296061..41296097,+p1@Ubap1
Mm9::chr5:101275436..101275468,+p3@Agpat9
Mm9::chr5:144288845..144288878,-p1@Rac1
Mm9::chr5:93696588..93696631,+p1@Ccng2
Mm9::chr6:86619104..86619119,-p1@Mxd1
Mm9::chr6:86619130..86619158,-p2@Mxd1
Mm9::chr7:128178056..128178094,+p2@Mettl9
Mm9::chr7:134351937..134352018,-p1@Tbc1d10b
Mm9::chr7:26004842..26004899,-p1@Dedd2
Mm9::chr8:112089592..112089603,-p4@Dhx38
Mm9::chr8:125778192..125778217,+p2@Zfp276
Mm9::chr8:75016491..75016561,-p1@Slc35e1
Mm9::chr9:108894027..108894047,+p1@Pfkfb4
Mm9::chr9:108984886..108984928,-p1@Ccdc72
p1@Gm15431
Mm9::chr9:123022249..123022274,-p2@Zdhhc3
Mm9::chrX:19941681..19941742,+p1@Rp2h


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
endoderm-derived structure2.17e-15118
endoderm2.17e-15118
presumptive endoderm2.17e-15118
digestive system1.60e-14116
digestive tract1.60e-14116
primitive gut1.60e-14116
gastrointestinal system1.33e-1347
subdivision of digestive tract1.66e-13114
intestine1.83e-1231
organ component layer2.05e-1124
mucosa5.16e-0915
intestinal mucosa7.48e-0813
anatomical wall7.48e-0813
wall of intestine7.48e-0813
gastrointestinal system mucosa7.48e-0813


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)
MA0003.114.869
MA0004.11.77213
MA0006.10.70332
MA0007.10.665874
MA0009.10.15318
MA0014.119.3529
MA0017.10.425296
MA0019.10.242182
MA0024.10.809034
MA0025.10.303494
MA0027.11.59941
MA0028.16.17794
MA0029.10.118998
MA0030.10.38727
MA0031.10.698051
MA0038.11.78702
MA0040.10.483091
MA0041.10.948957
MA0042.11.17312
MA0043.10.210566
MA0046.10.173584
MA0048.11.14061
MA0050.10.066821
MA0051.10.33785
MA0052.10.164728
MA0055.10.0543968
MA0056.10
MA0057.13.65115
MA0058.14.07392
MA0059.10.908658
MA0060.17.62205
MA0061.10.311612
MA0063.10
MA0066.10.560747
MA0067.10.387388
MA0068.10.228326
MA0069.10.164922
MA0070.10.15943
MA0071.10.0663704
MA0072.10.469536
MA0073.16.1714
MA0074.10.103106
MA0076.14.67891
MA0077.10.439978
MA0078.10.174236
MA0081.10.316944
MA0083.10.210065
MA0084.10.664822
MA0087.10.183562
MA0088.11.48621
MA0089.10
MA0090.10.0341902
MA0091.10.0538249
MA0092.10.0343024
MA0093.13.26569
MA0095.10
MA0098.10
MA0100.10.727777
MA0101.10.285073
MA0103.10.0867555
MA0105.10.253631
MA0106.10.717683
MA0107.10.0808299
MA0108.20.0773988
MA0109.10
MA0111.10.647402
MA0113.10.156186
MA0114.10.821788
MA0115.10.212338
MA0116.11.20591
MA0117.11.06789
MA0119.10.958944
MA0122.10.590697
MA0124.10.346379
MA0125.10.291827
MA0130.10
MA0131.11.83389
MA0132.10
MA0133.10
MA0135.10.234087
MA0136.10.832065
MA0139.11.49367
MA0140.10.0952116
MA0141.10.0132779
MA0142.10.324979
MA0143.10.0446173
MA0144.10.0253016
MA0145.11.4522
MA0146.15.05147
MA0147.10.929028
MA0148.10.14973
MA0149.10.480736
MA0062.26.77222
MA0035.20.022714
MA0039.213.6416
MA0138.21.2895
MA0002.20.0846659
MA0137.20.104203
MA0104.20.555565
MA0047.21.3236
MA0112.20.891978
MA0065.20.741795
MA0150.10.11748
MA0151.10
MA0152.10.0343035
MA0153.10.245148
MA0154.10.176658
MA0155.12.24876
MA0156.11.24497
MA0157.10.0847892
MA0158.10
MA0159.10.394268
MA0160.10.0567586
MA0161.10
MA0162.112.038
MA0163.17.76519
MA0164.10.117613
MA0080.20.284636
MA0018.20.86639
MA0099.20.22266
MA0079.237.3349
MA0102.20.712096
MA0258.10.260293
MA0259.12.6927
MA0442.10
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