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MCL coexpression mm9:359: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.06e-18!118;UBERON:0000925!2.06e-18!118;UBERON:0006595!2.06e-18!118;UBERON:0005409!5.74e-18!47;UBERON:0001007!1.26e-17!116;UBERON:0001555!1.26e-17!116;UBERON:0007026!1.26e-17!116;UBERON:0004921!1.45e-16!114;UBERON:0000160!1.22e-14!31;UBERON:0004923!2.65e-11!24;UBERON:0000344!6.63e-09!15;UBERON:0001242!7.81e-08!13;UBERON:0000060!7.81e-08!13;UBERON:0001262!7.81e-08!13;UBERON:0004786!7.81e-08!13
|tfbs_overrepresentation_for_novel_motifs=0.379825,1.36836,0.341317,0.444236,0.747131,0.466956,0.214952,0.229454,0.465626,1.21499,1.0366,0.595264,0.437632,0.636202,0.463829,0,0.374352,0.182139,0.647746,0.726362,0.289278,0.710085,1.18809,1.13786,0.352326,1.26705,0.0728375,0.167184,0.248458,0.685197,0.928995,0.460285,0.0475156,0.315369,0.806589,0.844797,0.168805,0.589223,0.336224,0.277918,0.186742,0.161379,0.438881,0.468447,1.74984,0.137727,0.309657,0.177618,0.211272,0.537972,0.359925,0.264025,0.238206,0.586014,0.601849,0.22892,0.559359,0.573993,0.866154,0.644883,0.442975,0.746278,0.502154,0.350689,0.667373,0.384144,0.727642,1.06142,0.438956,0.919268,0.64852,0.240361,0.106527,0.632466,0.549252,1.0872,0.533375,0.300684,0.428247,0.0875778,0.0981933,1.00923,0.270104,0.0864064,0.5282,2.49662,0.874699,0.443564,0.842295,1.21975,0.793151,0.532634,0.471416,0.198642,0.0351424,0.122418,0.429553,0.473864,0.309859,0.204213,0.0440835,0.460042,0.570262,0.946715,0.359547,0.485402,0.409409,0.174935,0.626635,0.0863521,0.369309,0.57187,0.0881503,0.187937,0.799811,1.11778,1.01786,0.146927,0.979825,0.668337,0.637418,0.887342,0.245224,0.811709,0.851175,0.43141,0.62924,0.465518,0.726225,0.777839,0.554981,0.85315,0.698665,0.238902,0.820264,0.0109134,0.78425,0.162291,0.773792,1.58317,1.18855,0.732048,0.254204,0.469382,0.35423,0.486829,0.31213,1.54387,0.396035,1.15341,0.261373,0.0788443,0.587436,0.557177,0.238221,0.662158,0.264789,0.226926,0.117954,0.392046,0.782756,0.527439,0.431791,0.365959,0.351524,0.232792,0.677032,0.205322,1.98409
|tfbs_overrepresentation_jaspar=MA0003.1;0.617358,MA0004.1;0.444991,MA0006.1;0.453728,MA0007.1;0.421767,MA0009.1;0.483331,MA0014.1;0.121501,MA0017.1;0.239891,MA0019.1;0.878507,MA0024.1;0.445298,MA0025.1;0.694475,MA0027.1;2.07936,MA0028.1;1.7477,MA0029.1;0.426655,MA0030.1;0.43227,MA0031.1;0.402033,MA0038.1;0.243815,MA0040.1;0.494317,MA0041.1;0.10094,MA0042.1;0.0939798,MA0043.1;0.569356,MA0046.1;0.514989,MA0048.1;0.369099,MA0050.1;1.55402,MA0051.1;1.29176,MA0052.1;0.501416,MA0055.1;0.114275,MA0056.1;0,MA0057.1;0.180412,MA0058.1;1.05104,MA0059.1;0.320353,MA0060.1;1.63679,MA0061.1;0.343057,MA0063.1;0,MA0066.1;0.235725,MA0067.1;0.798606,MA0068.1;0.00518327,MA0069.1;0.501715,MA0070.1;0.493176,MA0071.1;0.169125,MA0072.1;0.485733,MA0073.1;1.79212e-06,MA0074.1;0.209912,MA0076.1;4.6715,MA0077.1;0.466808,MA0078.1;0.755969,MA0081.1;0.109386,MA0083.1;1.39512,MA0084.1;1.11388,MA0087.1;0.530004,MA0088.1;0.100554,MA0089.1;0,MA0090.1;0.124244,MA0091.1;0.908402,MA0092.1;0.124428,MA0093.1;1.292,MA0095.1;0,MA0098.1;0,MA0100.1;0.584206,MA0101.1;0.101635,MA0103.1;0.54098,MA0105.1;0.515449,MA0106.1;0.769607,MA0107.1;0.0699845,MA0108.2;0.919696,MA0109.1;0,MA0111.1;0.820963,MA0113.1;0.259904,MA0114.1;0.145706,MA0115.1;0.571881,MA0116.1;0.206147,MA0117.1;0.542889,MA0119.1;1.13093,MA0122.1;0.560692,MA0124.1;0.748494,MA0125.1;0.67944,MA0130.1;0,MA0131.1;0.870354,MA0132.1;0,MA0133.1;0,MA0135.1;0.602346,MA0136.1;0.637057,MA0139.1;2.85157,MA0140.1;0.584015,MA0141.1;0.280405,MA0142.1;0.389844,MA0143.1;0.27232,MA0144.1;1.86123,MA0145.1;0.371879,MA0146.1;1.13753,MA0147.1;0.370788,MA0148.1;0.155077,MA0149.1;0.341095,MA0062.2;2.91081,MA0035.2;0.205003,MA0039.2;1.50844,MA0138.2;0.319705,MA0002.2;0.227684,MA0137.2;2.62607,MA0104.2;0.477699,MA0047.2;0.243248,MA0112.2;0.0488517,MA0065.2;0.0491972,MA0150.1;0.135628,MA0151.1;0,MA0152.1;0.243327,MA0153.1;0.617506,MA0154.1;1.48239,MA0155.1;0.913852,MA0156.1;2.55706,MA0157.1;0.363212,MA0158.1;0,MA0159.1;0.0457298,MA0160.1;0.475244,MA0161.1;0,MA0162.1;1.32836,MA0163.1;0.425645,MA0164.1;0.224368,MA0080.2;1.35605,MA0018.2;0.654151,MA0099.2;0.314682,MA0079.2;0.148383,MA0102.2;1.16504,MA0258.1;0.0324253,MA0259.1;0.347953,MA0442.1;0
}}

Latest revision as of 15:10, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:70461088..70461109,+p3@Rnf167
Mm9::chr11:98822081..98822092,+p14@Rara
Mm9::chr13:100972065..100972083,-p1@Naip2
Mm9::chr13:75977345..75977376,+p1@Glrx
Mm9::chr17:35263372..35263387,+p2@D17H6S53E
Mm9::chr1:155599076..155599130,+p3@Rnasel
Mm9::chr1:155599132..155599164,+p2@Rnasel
Mm9::chr2:143741009..143741073,+p3@Dstn
Mm9::chr2:143761989..143761993,+p@chr2:143761989..143761993
+
Mm9::chr3:108003333..108003363,-p2@Cyb561d1
Mm9::chr4:6292843..6292867,+p1@Sdcbp
Mm9::chr5:115992915..115992946,+p2@Pxn
Mm9::chr5:115992953..115992965,+p4@Pxn
Mm9::chr5:115992981..115993016,+p3@Pxn
Mm9::chr6:136610331..136610387,-p1@Plbd1
Mm9::chr7:112548505..112548537,-p1@Fam160a2
Mm9::chr7:63217794..63217831,-p1@Nipa2
Mm9::chr8:3631109..3631169,+p1@Stxbp2
Mm9::chr8:64406910..64406924,+p1@Ddx60
Mm9::chr8:74685233..74685268,+p1@Rab8a
Mm9::chr9:5298669..5298694,+p1@Casp1
Mm9::chr9:66440886..66440906,-p4@Usp3


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 structure2.06e-18118
endoderm2.06e-18118
presumptive endoderm2.06e-18118
gastrointestinal system5.74e-1847
digestive system1.26e-17116
digestive tract1.26e-17116
primitive gut1.26e-17116
subdivision of digestive tract1.45e-16114
intestine1.22e-1431
organ component layer2.65e-1124
mucosa6.63e-0915
intestinal mucosa7.81e-0813
anatomical wall7.81e-0813
wall of intestine7.81e-0813
gastrointestinal system mucosa7.81e-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)
MA0003.10.617358
MA0004.10.444991
MA0006.10.453728
MA0007.10.421767
MA0009.10.483331
MA0014.10.121501
MA0017.10.239891
MA0019.10.878507
MA0024.10.445298
MA0025.10.694475
MA0027.12.07936
MA0028.11.7477
MA0029.10.426655
MA0030.10.43227
MA0031.10.402033
MA0038.10.243815
MA0040.10.494317
MA0041.10.10094
MA0042.10.0939798
MA0043.10.569356
MA0046.10.514989
MA0048.10.369099
MA0050.11.55402
MA0051.11.29176
MA0052.10.501416
MA0055.10.114275
MA0056.10
MA0057.10.180412
MA0058.11.05104
MA0059.10.320353
MA0060.11.63679
MA0061.10.343057
MA0063.10
MA0066.10.235725
MA0067.10.798606
MA0068.10.00518327
MA0069.10.501715
MA0070.10.493176
MA0071.10.169125
MA0072.10.485733
MA0073.11.79212e-06
MA0074.10.209912
MA0076.14.6715
MA0077.10.466808
MA0078.10.755969
MA0081.10.109386
MA0083.11.39512
MA0084.11.11388
MA0087.10.530004
MA0088.10.100554
MA0089.10
MA0090.10.124244
MA0091.10.908402
MA0092.10.124428
MA0093.11.292
MA0095.10
MA0098.10
MA0100.10.584206
MA0101.10.101635
MA0103.10.54098
MA0105.10.515449
MA0106.10.769607
MA0107.10.0699845
MA0108.20.919696
MA0109.10
MA0111.10.820963
MA0113.10.259904
MA0114.10.145706
MA0115.10.571881
MA0116.10.206147
MA0117.10.542889
MA0119.11.13093
MA0122.10.560692
MA0124.10.748494
MA0125.10.67944
MA0130.10
MA0131.10.870354
MA0132.10
MA0133.10
MA0135.10.602346
MA0136.10.637057
MA0139.12.85157
MA0140.10.584015
MA0141.10.280405
MA0142.10.389844
MA0143.10.27232
MA0144.11.86123
MA0145.10.371879
MA0146.11.13753
MA0147.10.370788
MA0148.10.155077
MA0149.10.341095
MA0062.22.91081
MA0035.20.205003
MA0039.21.50844
MA0138.20.319705
MA0002.20.227684
MA0137.22.62607
MA0104.20.477699
MA0047.20.243248
MA0112.20.0488517
MA0065.20.0491972
MA0150.10.135628
MA0151.10
MA0152.10.243327
MA0153.10.617506
MA0154.11.48239
MA0155.10.913852
MA0156.12.55706
MA0157.10.363212
MA0158.10
MA0159.10.0457298
MA0160.10.475244
MA0161.10
MA0162.11.32836
MA0163.10.425645
MA0164.10.224368
MA0080.21.35605
MA0018.20.654151
MA0099.20.314682
MA0079.20.148383
MA0102.21.16504
MA0258.10.0324253
MA0259.10.347953
MA0442.10
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