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MCL coexpression mm9:355: Difference between revisions

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{{MCL_coexpression_mm9|gostat_on_MCL_coexpression=GO:0019807;aspartoacylase activity;0.0347567648091107;71670!GO:0004315;3-oxoacyl-[acyl-carrier-protein] synthase activity;0.0347567648091107;71147!GO:0004046;aminoacylase activity;0.0347567648091107;71670!GO:0004312;fatty-acid synthase activity;0.0347567648091107;71147!GO:0015101;organic cation transmembrane transporter activity;0.0347567648091107;20517!GO:0042895;antibiotic transporter activity;0.0347567648091107;18400!GO:0008493;tetracycline transporter activity;0.0347567648091107;18400!GO:0015904;tetracycline transport;0.0347567648091107;18400!GO:0015307;drug:hydrogen antiporter activity;0.0347567648091107;18400!GO:0015520;tetracycline:hydrogen antiporter activity;0.0347567648091107;18400!GO:0008514;organic anion transmembrane transporter activity;0.0347567648091107;18400!GO:0046677;response to antibiotic;0.0347567648091107;18400!GO:0017110;nucleoside-diphosphatase activity;0.0458029772383249;12499!}}
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activity;0.0347567648091107;71670!GO:0004315;3-oxoacyl-[acyl-carrier-protein] synthase activity;0.0347567648091107;71147!GO:0004046;aminoacylase activity;0.0347567648091107;71670!GO:0004312;fatty-acid synthase activity;0.0347567648091107;71147!GO:0015101;organic cation transmembrane transporter activity;0.0347567648091107;20517!GO:0042895;antibiotic transporter activity;0.0347567648091107;18400!GO:0008493;tetracycline transporter activity;0.0347567648091107;18400!GO:0015904;tetracycline transport;0.0347567648091107;18400!GO:0015307;drug:hydrogen antiporter activity;0.0347567648091107;18400!GO:0015520;tetracycline:hydrogen antiporter activity;0.0347567648091107;18400!GO:0008514;organic anion transmembrane transporter activity;0.0347567648091107;18400!GO:0046677;response to antibiotic;0.0347567648091107;18400!GO:0017110;nucleoside-diphosphatase activity;0.0458029772383249;12499!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0000160!4.67e-17!31;UBERON:0009854!4.86e-15!23;UBERON:0009856!4.86e-15!23;UBERON:0005409!1.11e-14!47;UBERON:0002107!3.25e-14!22;UBERON:0007499!3.25e-14!22;UBERON:0006925!3.25e-14!22;UBERON:0009497!3.25e-14!22;UBERON:0000015!3.25e-14!22;UBERON:0002423!3.25e-14!22;UBERON:0006235!3.25e-14!22;UBERON:0008835!3.25e-14!22;UBERON:0003894!3.25e-14!22;UBERON:0004161!3.25e-14!22;UBERON:0008836!3.25e-14!22;UBERON:0005172!5.06e-13!49;UBERON:0005173!5.06e-13!49;UBERON:0002417!5.06e-13!49;UBERON:0000916!5.06e-13!49;UBERON:0002365!2.32e-12!25;UBERON:0002330!2.32e-12!25;UBERON:0004119!4.15e-12!118;UBERON:0000925!4.15e-12!118;UBERON:0006595!4.15e-12!118;UBERON:0001007!1.99e-11!116;UBERON:0001555!1.99e-11!116;UBERON:0007026!1.99e-11!116;UBERON:0004921!1.71e-10!114;UBERON:0000344!1.91e-10!15;UBERON:0001242!3.39e-09!13;UBERON:0000060!3.39e-09!13;UBERON:0001262!3.39e-09!13;UBERON:0004786!3.39e-09!13;UBERON:0003104!1.10e-08!61;UBERON:0009142!1.10e-08!61;UBERON:0005177!1.50e-07!79;UBERON:0009569!2.07e-07!66;UBERON:0004923!3.83e-07!24|tfbs_overrepresentation_for_novel_motifs=0.762536,0.0264025,0.104705,0.144583,1.14511,0.910673,0.214952,0.436916,0.465626,0.0552943,0.542448,0.595264,0.0921047,1.19059,0.463829,0,0.374352,0.0483719,0.647746,0.492447,1.50769,0.963771,0.223092,0.741837,0.352326,0.243873,1.27323,0.167184,0.070875,2.12854,0.15805,1.16433,0.0475156,1.51449,0.21244,0.0464706,1.05392,0.2039,0.144722,0.115421,0.186742,0.486105,2.15935,1.72353,2.0581,0.426921,0.833552,0.52593,0.708753,0.252327,0.359925,0.264025,0.649685,0.586014,0.601849,0.22892,0.0764293,0.197526,1.21011,0.227439,1.127,0.271204,0.111304,0.350689,0.237053,0.99896,0.727642,1.06142,0.438956,0.919268,0.0946191,0.0223673,0.759163,0.632466,0.0127734,0.145958,0.157028,0.300684,0.428247,0.614637,1.48887,0.388829,0.743757,0.41783,0.5282,0.00663602,1.11743,0.255395,1.52233,1.21975,0.793151,0.532634,0.471416,0.053818,2.31735,0.0296941,0.224978,0.473864,0.309859,0.204213,0.0440835,1.16381,0.570262,0.946715,0.359547,0.161095,0.409409,0.998343,0.626635,0.0863521,0.115332,0.57187,0.0881503,0.550938,0.799811,0.0491861,0.2637,0.146927,0.375433,0.374781,0.637418,0.333667,0.245224,1.47357,0.851175,0.43141,0.62924,0.465518,0.726225,0.0550287,0.554981,0.85315,1.66723,1.2483,0.820264,0.183848,0.124253,0.488358,0.773792,1.58317,1.18855,0.732048,0.254204,0.469382,0.35423,0.486829,0.31213,1.54387,0.790363,0.0521541,0.00883403,0.0788443,0.587436,0.128379,0.670097,1.59125,0.731564,0.0633954,0.376149,0.392046,0.782756,0.527439,3.92204,0.738623,0.351524,0.232792,1.48682,0.205322,0.0368447|tfbs_overrepresentation_jaspar=MA0003.1;0.0850171,MA0004.1;0.873644,MA0006.1;0.2064,MA0007.1;0.834271,MA0009.1;0.483331,MA0014.1;0.0349653,MA0017.1;1.84562,MA0019.1;0.329708,MA0024.1;0.445298,MA0025.1;0.694475,MA0027.1;2.07936,MA0028.1;1.25253,MA0029.1;0.426655,MA0030.1;2.88295,MA0031.1;1.83155,MA0038.1;0.243815,MA0040.1;0.494317,MA0041.1;0.678341,MA0042.1;0.0939798,MA0043.1;0.569356,MA0046.1;8.25179,MA0048.1;0.844903,MA0050.1;0.169675,MA0051.1;0.250459,MA0052.1;0.501416,MA0055.1;1.0714,MA0056.1;0,MA0057.1;0.180412,MA0058.1;0.0904678,MA0059.1;0.0968666,MA0060.1;0.521938,MA0061.1;0.0375479,MA0063.1;0,MA0066.1;4.4537,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;0.0141106,MA0074.1;1.13719,MA0076.1;0.950765,MA0077.1;0.466808,MA0078.1;0.275441,MA0081.1;0.353705,MA0083.1;0.568641,MA0084.1;1.11388,MA0087.1;0.530004,MA0088.1;0.0121376,MA0089.1;0,MA0090.1;0.392445,MA0091.1;0.153118,MA0092.1;0.39292,MA0093.1;0.854934,MA0095.1;0,MA0098.1;0,MA0100.1;0.584206,MA0101.1;0.681587,MA0103.1;0.921027,MA0105.1;0.784323,MA0106.1;0.281418,MA0107.1;0.899134,MA0108.2;0.348212,MA0109.1;0,MA0111.1;0.132626,MA0113.1;0.259904,MA0114.1;4.19335,MA0115.1;0.571881,MA0116.1;0.788841,MA0117.1;0.542889,MA0119.1;1.13093,MA0122.1;1.37834,MA0124.1;0.748494,MA0125.1;0.67944,MA0130.1;0,MA0131.1;0.326061,MA0132.1;0,MA0133.1;0,MA0135.1;0.602346,MA0136.1;1.19199,MA0139.1;0.0199785,MA0140.1;0.201717,MA0141.1;3.31804,MA0142.1;0.389844,MA0143.1;0.748833,MA0144.1;1.38717,MA0145.1;0.371879,MA0146.1;0.00945061,MA0147.1;0.0420513,MA0148.1;3.59359,MA0149.1;1.68628,MA0062.2;1.1429,MA0035.2;0.205003,MA0039.2;0.167402,MA0138.2;0.319705,MA0002.2;0.227684,MA0137.2;0.981229,MA0104.2;0.103917,MA0047.2;1.26469,MA0112.2;1.38655,MA0065.2;2.97885,MA0150.1;3.36305,MA0151.1;0,MA0152.1;0.243327,MA0153.1;6.31343,MA0154.1;1.13479,MA0155.1;0.00328539,MA0156.1;0.558833,MA0157.1;0.363212,MA0158.1;0,MA0159.1;0.174007,MA0160.1;3.61569,MA0161.1;0,MA0162.1;0.0144065,MA0163.1;0.0113989,MA0164.1;0.224368,MA0080.2;0.90228,MA0018.2;0.231394,MA0099.2;3.21056,MA0079.2;0.117761,MA0102.2;1.16504,MA0258.1;0.895773,MA0259.1;0.0383313,MA0442.1;0}}

Latest revision as of 15:09, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:20353102..20353117,+p@chr11:20353102..20353117
+
Mm9::chr12:85741801..85741850,-p2@Entpd5
Mm9::chr12:85741861..85741875,-p4@Entpd5
Mm9::chr12:85741879..85741896,-p3@Entpd5
Mm9::chr12:85741912..85741923,-p7@Entpd5
Mm9::chr14:17082189..17082203,-p3@Oxsm
Mm9::chr17:12868608..12868641,-p2@Slc22a1
Mm9::chr19:3986564..3986579,+p1@Acy3
Mm9::chr2:162813163..162813172,+p4@Sgk2
Mm9::chr2:162813210..162813222,+p2@Sgk2
Mm9::chr2:162813240..162813245,+p6@Sgk2
Mm9::chr2:162813255..162813273,+p1@Sgk2
Mm9::chr2:162813283..162813296,+p3@Sgk2
Mm9::chr4:116323994..116324014,-p3@Akr1a1
Mm9::chr4:118199834..118199852,+p2@2610528J11Rik
Mm9::chr7:150660999..150661020,+p4@Slc22a18
Mm9::chr7:150661025..150661067,+p2@Slc22a18
Mm9::chr7:36341052..36341089,-p4@Nudt19
Mm9::chr9:15105893..15105993,-p2@4931406C07Rik
Mm9::chr9:15105999..15106015,-p3@4931406C07Rik
Mm9::chr9:15110539..15110558,-p4@4931406C07Rik
Mm9::chr9:15110560..15110603,-p1@4931406C07Rik


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:0019807aspartoacylase activity0.0347567648091107
GO:00043153-oxoacyl-[acyl-carrier-protein] synthase activity0.0347567648091107
GO:0004046aminoacylase activity0.0347567648091107
GO:0004312fatty-acid synthase activity0.0347567648091107
GO:0015101organic cation transmembrane transporter activity0.0347567648091107
GO:0042895antibiotic transporter activity0.0347567648091107
GO:0008493tetracycline transporter activity0.0347567648091107
GO:0015904tetracycline transport0.0347567648091107
GO:0015307drug:hydrogen antiporter activity0.0347567648091107
GO:0015520tetracycline:hydrogen antiporter activity0.0347567648091107
GO:0008514organic anion transmembrane transporter activity0.0347567648091107
GO:0046677response to antibiotic0.0347567648091107
GO:0017110nucleoside-diphosphatase activity0.0458029772383249



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
intestine4.67e-1731
digestive tract diverticulum4.86e-1523
sac4.86e-1523
gastrointestinal system1.11e-1447
liver3.25e-1422
epithelial sac3.25e-1422
digestive gland3.25e-1422
epithelium of foregut-midgut junction3.25e-1422
anatomical boundary3.25e-1422
hepatobiliary system3.25e-1422
foregut-midgut junction3.25e-1422
hepatic diverticulum3.25e-1422
liver primordium3.25e-1422
septum transversum3.25e-1422
liver bud3.25e-1422
abdomen element5.06e-1349
abdominal segment element5.06e-1349
abdominal segment of trunk5.06e-1349
abdomen5.06e-1349
exocrine gland2.32e-1225
exocrine system2.32e-1225
endoderm-derived structure4.15e-12118
endoderm4.15e-12118
presumptive endoderm4.15e-12118
digestive system1.99e-11116
digestive tract1.99e-11116
primitive gut1.99e-11116
subdivision of digestive tract1.71e-10114
mucosa1.91e-1015
intestinal mucosa3.39e-0913
anatomical wall3.39e-0913
wall of intestine3.39e-0913
gastrointestinal system mucosa3.39e-0913
mesenchyme1.10e-0861
entire embryonic mesenchyme1.10e-0861
trunk region element1.50e-0779
subdivision of trunk2.07e-0766
organ component layer3.83e-0724


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)
MA0003.10.0850171
MA0004.10.873644
MA0006.10.2064
MA0007.10.834271
MA0009.10.483331
MA0014.10.0349653
MA0017.11.84562
MA0019.10.329708
MA0024.10.445298
MA0025.10.694475
MA0027.12.07936
MA0028.11.25253
MA0029.10.426655
MA0030.12.88295
MA0031.11.83155
MA0038.10.243815
MA0040.10.494317
MA0041.10.678341
MA0042.10.0939798
MA0043.10.569356
MA0046.18.25179
MA0048.10.844903
MA0050.10.169675
MA0051.10.250459
MA0052.10.501416
MA0055.11.0714
MA0056.10
MA0057.10.180412
MA0058.10.0904678
MA0059.10.0968666
MA0060.10.521938
MA0061.10.0375479
MA0063.10
MA0066.14.4537
MA0067.10.798606
MA0068.10.00518327
MA0069.10.501715
MA0070.10.493176
MA0071.10.169125
MA0072.10.485733
MA0073.10.0141106
MA0074.11.13719
MA0076.10.950765
MA0077.10.466808
MA0078.10.275441
MA0081.10.353705
MA0083.10.568641
MA0084.11.11388
MA0087.10.530004
MA0088.10.0121376
MA0089.10
MA0090.10.392445
MA0091.10.153118
MA0092.10.39292
MA0093.10.854934
MA0095.10
MA0098.10
MA0100.10.584206
MA0101.10.681587
MA0103.10.921027
MA0105.10.784323
MA0106.10.281418
MA0107.10.899134
MA0108.20.348212
MA0109.10
MA0111.10.132626
MA0113.10.259904
MA0114.14.19335
MA0115.10.571881
MA0116.10.788841
MA0117.10.542889
MA0119.11.13093
MA0122.11.37834
MA0124.10.748494
MA0125.10.67944
MA0130.10
MA0131.10.326061
MA0132.10
MA0133.10
MA0135.10.602346
MA0136.11.19199
MA0139.10.0199785
MA0140.10.201717
MA0141.13.31804
MA0142.10.389844
MA0143.10.748833
MA0144.11.38717
MA0145.10.371879
MA0146.10.00945061
MA0147.10.0420513
MA0148.13.59359
MA0149.11.68628
MA0062.21.1429
MA0035.20.205003
MA0039.20.167402
MA0138.20.319705
MA0002.20.227684
MA0137.20.981229
MA0104.20.103917
MA0047.21.26469
MA0112.21.38655
MA0065.22.97885
MA0150.13.36305
MA0151.10
MA0152.10.243327
MA0153.16.31343
MA0154.11.13479
MA0155.10.00328539
MA0156.10.558833
MA0157.10.363212
MA0158.10
MA0159.10.174007
MA0160.13.61569
MA0161.10
MA0162.10.0144065
MA0163.10.0113989
MA0164.10.224368
MA0080.20.90228
MA0018.20.231394
MA0099.23.21056
MA0079.20.117761
MA0102.21.16504
MA0258.10.895773
MA0259.10.0383313
MA0442.10
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