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Coexpression cluster:C182: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002113!4.34e-09!26;UBERON:0003918!4.34e-09!26;UBERON:0011143!4.34e-09!26;UBERON:0005095!4.34e-09!26;UBERON:0007687!4.34e-09!26;UBERON:0000489!7.41e-08!31
|ontology_enrichment_uberon=UBERON:0002113!4.34e-09!26;UBERON:0003918!4.34e-09!26;UBERON:0011143!4.34e-09!26;UBERON:0005095!4.34e-09!26;UBERON:0007687!4.34e-09!26;UBERON:0000489!7.41e-08!31
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64,0.985094,0.597185,0.999994,0.866008,0.711053,0.943156,0.830256,0.99236,0.808159,0.982196,0.960164,0.815185,0.949817,0.924733,0.903322,0.916331,0.934951,0.931208,0.950932,0.998757,0.959825,0.991597,0.978246,0.95019,0.946026,0.999991,0.993385,0.780932,0.818566,0.999773,0.988526,0.919979,0.701311,0.928776,0.987916,1,0.99995,0.496711,0.962387,0.799791,0.593937,0.914577,0.812636,0.86438,0.661937,0.910637,0.938967,1,0.998619,0.947336,0.998447,0.906761,0.901099,0.984621,1,0.844,0.782995,0.987618,0.860232,0.156897,0.785505,0.901572,0.896947,0.842064,0.313859,0.790513,0.939409,1,1,0.994119,0.982805,0.873403,0.887485,0.972876,0.213448,0.387923,0.928875,0.914776,0.768731,0.974241,0.898041,0.958583,0.966378,0.699958,0.988415,0.763737,0.823875,0.977654,0.809202,0.934835,0.86134,0.996555,0.841896,0.966949,0.915932,0.98017,0.994371,0.965415,0.999554,0.96517,0.984315,0.844378,0.989705,0.887517,0.868407,0.990137,0.960891,1,0.995046,0.903445,0.803905,0.857252,0.718162,0.884745,0.959655,0.967972,0.23557,0.998822,0.990193,0.906711,0.994134,0.832547,0.757605,0.935771,0.995078,0.889372,0.976361,0.956093,0.938879,0.818395,0.996185,0.993638,0.33943,0.962876,0.995234,0.665863,0.976707,0.555659,0.97869,0.797511,0.999962,0.924523,0.638252,0.930052,0.953939,0.995126,0.975645,0.999958,0.851711,0.993261,0.984832,0.882786,0.912959,0.999999,1,0.68386,0.993253,0.987759,0.75148,0.938603,0.999993,0.995897,0.97838,0.472977,0.99758,0.974087,0.72445,0.996006,0.998433,0.998115,0.257125,0.618331,0.969319,0.999687,0.537685,0.690312,0.991972,0.897748,0.999836,0.994481,0.986968,0.968951,0.997684,0.543234,1,1,0.999688,0.990424,0.999998,0.999321,0.998158,0.999805,0.979196,1,0.993798,0.918765,0.81389,0.272419,0.999998,0.9912,0.823578,0.601623,0.904451,0.997952,0.998439,1,0.998082,0.999999,0.99999,0.973942,1,0.999996,0.94071,1,0.99889,1,0.859863,1,1,1,0.924573,0.970612,0.114185,0.785153,0.328818,0.569512,0.056505,0.549144,0.285647,0.344423,0.774109,0.95789,0.518693,0.506636,0.996325,0.310141,0.909405,0.172838,0.741852,0.518648,0.749736,0.977361,0.99997,0.998074,0.965368,0.94301,0.981907,0.999981,0.98921,0.995113,0.985293,0.772721,1,0.99901,0.00315656,0.999798,0.986429,0.950488,0.999986,0.999609,0.576903,0.963157,0.990764,0.999954,0.924398,0.998999,0.934658,0.750646,0.996338,0.983165,0.936441,0.91815,0.991923,0.937336,0.995339,0.94319,0.998075,0.833434,0.145847,0.107904,0.780422,0.996718,0.95702,0.997488,0.972428,0.999861,0.996479,0.931842,0.989855,0.938923,0.87757,0.999713,0.984965,0.710479,0.979574,0.999232,0.983352,0.999429,0.996376,0.999952,0.531289,0.653968,0.999975,0.999984,0.99999,0.864646,0.998079,0.860512,0.897699,0.977812,0.970787,0.999651,0.997407,0.99927,0.999804,0.114388,0.537622,0.387281,0.971669,0.940378,0.98678,0.99313,0.986544,0.999836,0.928294,0.941528,0.921229,0.793604,0.724107,0.65856,0.989566,0.905825,0.998549,0.903541,0.986589,0.651602,0.961283,0.97512,0.983452,0.976524,0.794425,0.820854,0.819161,0.994274,0.991848,0.704044,0.976179,0.997999,0.946213,0.903766,0.999599,0.674876,0.756756,0.384902,0.982707,0.262809,0.988519,0.00990475,0.91671,0.645924,0.810966,0.984235,0.742556,0.903878,0.941381,0.939347,0.641223,0.976775,0.665865,0.797447,0.887427,0.976845,0.987259,0.976726,0.725615,0.987923,0.97439,0.908477,0.979256,0.707708,0.361896,0.813586,0.767954,0.281494,0.706217,0.999304,0.967883,0.763711,0.961425,0.972602,0.854001,0.945431,0.971249,0.8882,0.998892,0.984327,0.907489,0.996719,0.998053,0.793582,0.995184,0.885043,0.644594,0.918501,0.987528,0.954441,0.904864,0.999117,0.911884,0.925259,0.94231,0.932124,0.85688,0.799904,0.978418,0.741029,0.985911,0.939824,0.935891,0.827805,0.693134,0.99189,0.930728,0.969376,0.933835,0.982925,0.996694,0.981402,0.984017,0.828113,0.972009,0.999295,0.944548,0.882605,0.932045,0.993156,0.867949,0.822063,0.823053,0.886184,0.921537,0.728205,0.822829,0.956188,0.995862,0.995038,0.777994,0.726072,0.893903,0.92981,0.960668,0.874724,0.982984,0.873565,0.860036,0.883555,0.916695,0.986674,0.973277,0.756716,0.885977,0.791959,0.690576,0.989359,0.973828,0.995036,0.999707,0.999207,0.704074,0.99993,0.99496,0.970273,0.905268,0.995452,0.981062,0.984467,0.992595,0.917195,0.98805,0.910856,0.975236,0.999053,0.903109,0.846877,0.923656,0.897353,0.882318,0.803151,0.97846,0.807563,0.897495,0.997955,0.816318,0.677523,0.996435,0.996862,0.953972,0.99964,0.997026,0.999323,0.957491,0.771489,0.999451,0.701603,0.97158,0.999461,0.900871,0.996962,0.964452,0.954288,0.997673,0.782111,0.995745,0.89204,0.929278,0.998265
|tfbs_overrepresentation_for_novel_motifs=0.00323033,0.0146036,0.0117389,0.160657,1.1562,0.158551,0.0476733,1.40302,1.61043,0.025419,0.0159132,0.350119,0.117804,0.121379,1.14517,0.632196,0.0530718,1.41171,0.673787,1.1713,2.16949,0.30807,0.020758,1.11521,0.0233944,0.0799078,0.666963,0.445104,0.383628,0.117732,0.0411602,0.500473,0.194482,0.258378,0.375473,0.003952,0.000464336,0.294895,1.10808,0.00162881,0.369945,0.0339833,1.45608,1.68196,0.701958,0.0189301,0.133208,0.110983,0.6063,0.725743,0.0881756,0.501852,0.248975,0.314174,0.170454,0.0442306,1.49136,0.00596611,0.236206,0.00589558,0.080043,0.00977208,3.78033,0.171694,0.309255,0.14336,0.635836,0.498371,0.481635,0.368516,0.0079397,0.196877,0.00598898,0.505664,0.0103873,0.0491058,0.194942,0.0404412,0.0604472,1.53746,4.965,0.0446863,1.12001,0.0745055,0.141464,6.35795e-10,0.713888,0.104668,0.024481,0.582901,0.286009,0.127791,0.0709906,1.15117,0.375008,0.662954,0.146776,0.0873537,0.0253628,0.20738,0.00136419,0.891149,0.288317,0.199792,0.316063,0.00238919,0.0494214,0.247034,0.0062012,0.0129103,0.271146,0.0840011,0.230396,0.057585,0.704779,1.86786,4.55302e-07,0.32913,0.0354784,0.597177,0.164683,0.47452,0.155056,0.165226,0.331034,0.158078,0.452272,0.0728124,0.189179,0.259959,0.801338,2.82889,0.197779,0.323104,0.295073,0.0563784,0.317355,0.0644893,0.265608,0.999777,0.628714,0.240679,1.3489,0.0859284,0.318703,0.194055,0.859689,0.849695,1.46477,0.00826185,0.0393852,5.34167e-06,0.402934,0.222618,0.0489064,0.392118,0.234251,0.823528,0.06142,0.000491975,0.239883,0.11932,0.820902,0.0446253,0.0375947,0.307194,0.108508,0.464996,0.0464016
}}
}}

Revision as of 13:42, 26 November 2012


Full id: C182_renal_mature_mesothelioma_lung_Mammary_Adipocyte_acute



Phase1 CAGE Peaks

Hg19::chr10:26621582..26621588,+p@chr10:26621582..26621588
+
Hg19::chr10:61530889..61530896,-p@chr10:61530889..61530896
-
Hg19::chr10:64280228..64280239,+p11@ZNF365
Hg19::chr11:74751521..74751532,+p@chr11:74751521..74751532
+
Hg19::chr12:110032559..110032564,+p@chr12:110032559..110032564
+
Hg19::chr12:110032567..110032577,+p@chr12:110032567..110032577
+
Hg19::chr12:16109519..16109568,+p6@DERA
Hg19::chr12:16115719..16115725,+p8@DERA
Hg19::chr12:49730970..49731010,-p1@C1QL4
Hg19::chr12:5198337..5198341,+p@chr12:5198337..5198341
+
Hg19::chr12:5198350..5198359,+p@chr12:5198350..5198359
+
Hg19::chr12:5198401..5198415,+p@chr12:5198401..5198415
+
Hg19::chr13:42975929..42975949,+p@chr13:42975929..42975949
+
Hg19::chr13:49164719..49164734,-p@chr13:49164719..49164734
-
Hg19::chr14:74296806..74296828,-p1@ENST00000555539
p1@uc001xov.1
Hg19::chr14:98792210..98792215,-p@chr14:98792210..98792215
-
Hg19::chr15:67351518..67351557,-p1@ENST00000558071
Hg19::chr15:67351586..67351591,-p2@ENST00000558071
Hg19::chr15:85201423..85201439,-p1@NMB
Hg19::chr16:53780145..53780169,+p@chr16:53780145..53780169
+
Hg19::chr16:81516526..81516531,+p@chr16:81516526..81516531
+
Hg19::chr17:38877280..38877286,-p3@KRT223P
Hg19::chr17:38877316..38877317,-p4@KRT223P
Hg19::chr18:57877275..57877283,+p@chr18:57877275..57877283
+
Hg19::chr19:15160130..15160142,+p3@CASP14
Hg19::chr19:15160255..15160260,+p4@CASP14
Hg19::chr19:15160267..15160278,+p2@CASP14
Hg19::chr19:15160280..15160296,+p1@CASP14
Hg19::chr19:15166954..15166967,+p@chr19:15166954..15166967
+
Hg19::chr19:15167325..15167344,+p@chr19:15167325..15167344
+
Hg19::chr19:29492197..29492204,+p@chr19:29492197..29492204
+
Hg19::chr1:105010925..105010935,-p@chr1:105010925..105010935
-
Hg19::chr1:115771931..115771941,+p@chr1:115771931..115771941
+
Hg19::chr1:152140591..152140604,+p@chr1:152140591..152140604
+
Hg19::chr1:152140624..152140650,+p@chr1:152140624..152140650
+
Hg19::chr1:152140653..152140680,+p@chr1:152140653..152140680
+
Hg19::chr1:241790873..241790886,-p@chr1:241790873..241790886
-
Hg19::chr1:25046836..25046839,+p@chr1:25046836..25046839
+
Hg19::chr1:25046846..25046851,+p@chr1:25046846..25046851
+
Hg19::chr1:25046857..25046871,+p@chr1:25046857..25046871
+
Hg19::chr1:25046892..25046903,+p@chr1:25046892..25046903
+
Hg19::chr1:69983683..69983707,+p@chr1:69983683..69983707
+
Hg19::chr20:52784969..52785020,+p@chr20:52784969..52785020
+
Hg19::chr22:18404843..18404853,-p@chr22:18404843..18404853
-
Hg19::chr22:30951607..30951613,-p@chr22:30951607..30951613
-
Hg19::chr22:30951996..30952007,-p@chr22:30951996..30952007
-
Hg19::chr22:30956754..30956769,-p2@GAL3ST1
Hg19::chr22:30960863..30960867,-p12@GAL3ST1
Hg19::chr22:30960879..30960895,-p1@GAL3ST1
Hg19::chr22:30961419..30961468,-p10@GAL3ST1
Hg19::chr22:30968796..30968805,-p11@GAL3ST1
Hg19::chr22:30968813..30968829,-p9@GAL3ST1
Hg19::chr22:30968839..30968859,-p6@GAL3ST1
Hg19::chr2:10529417..10529422,+p@chr2:10529417..10529422
+
Hg19::chr2:120234198..120234212,+p1@ENST00000457436
Hg19::chr2:166790331..166790338,+p2@LOC100506134
Hg19::chr2:166790366..166790383,+p1@LOC100506134
Hg19::chr2:166790396..166790405,+p1@ENST00000443032
p1@ENST00000446624
Hg19::chr2:58109118..58109152,-p@chr2:58109118..58109152
-
Hg19::chr2:9519004..9519013,+p@chr2:9519004..9519013
+
Hg19::chr3:122694165..122694189,-p7@SEMA5B
Hg19::chr3:122694215..122694221,-p10@SEMA5B
Hg19::chr3:129375556..129375570,-p16@TMCC1
Hg19::chr3:187225661..187225665,-p@chr3:187225661..187225665
-
Hg19::chr4:69915736..69915762,-p@chr4:69915736..69915762
-
Hg19::chr5:10502761..10502785,-p2@ENST00000515243
Hg19::chr5:10502793..10502819,-p1@ENST00000515243
Hg19::chr5:10502847..10502857,-p3@ENST00000515243
Hg19::chr5:150006500..150006508,-p@chr5:150006500..150006508
-
Hg19::chr5:31911541..31911549,-p@chr5:31911541..31911549
-
Hg19::chr5:31995212..31995260,+p@chr5:31995212..31995260
+
Hg19::chr5:31995297..31995305,+p@chr5:31995297..31995305
+
Hg19::chr5:31995382..31995392,+p@chr5:31995382..31995392
+
Hg19::chr5:31995396..31995404,+p@chr5:31995396..31995404
+
Hg19::chr6:12314642..12314666,+p@chr6:12314642..12314666
+
Hg19::chr6:154799214..154799219,-p@chr6:154799214..154799219
-
Hg19::chr6:25868678..25868683,-p3@SLC17A3
Hg19::chr7:112740700..112740737,+p1@ENST00000441928
Hg19::chr7:125077880..125077889,+p4@ENST00000458437
Hg19::chr7:125077895..125077898,+p5@ENST00000458437
Hg19::chr7:125077915..125077928,+p1@ENST00000458437
Hg19::chr7:125077931..125077940,+p3@ENST00000458437
Hg19::chr7:17414360..17414389,+p1@ENST00000419463
Hg19::chr7:46213508..46213536,+p@chr7:46213508..46213536
+
Hg19::chr7:46213564..46213575,+p@chr7:46213564..46213575
+
Hg19::chr7:46213607..46213616,+p@chr7:46213607..46213616
+
Hg19::chr7:46213930..46213940,+p@chr7:46213930..46213940
+
Hg19::chr7:46214057..46214073,+p@chr7:46214057..46214073
+
Hg19::chr7:46214090..46214099,+p@chr7:46214090..46214099
+
Hg19::chr7:46214112..46214115,+p@chr7:46214112..46214115
+
Hg19::chr7:57639694..57639702,+p@chr7:57639694..57639702
+
Hg19::chr8:39542555..39542568,+p3@ADAM18
Hg19::chrX:144963106..144963110,-p@chrX:144963106..144963110
-
Hg19::chrY:18943864..18943891,+p@chrY:18943864..18943891
+


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

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0000267cell fraction0.0154189406315746
GO:0006682galactosylceramide biosynthetic process0.0165822834491149
GO:0019375galactolipid biosynthetic process0.0165822834491149
GO:0005624membrane fraction0.0237674954960085
GO:0046476glycosylceramide biosynthetic process0.0237674954960085
GO:0050694galactose 3-O-sulfotransferase activity0.0237674954960085
GO:0001733galactosylceramide sulfotransferase activity0.0237674954960085
GO:0006681galactosylceramide metabolic process0.0237674954960085
GO:0019374galactolipid metabolic process0.0237674954960085
GO:0004139deoxyribose-phosphate aldolase activity0.0237674954960085
GO:0007283spermatogenesis0.0237674954960085
GO:0048232male gamete generation0.0237674954960085
GO:0005436sodium:phosphate symporter activity0.0248470806030616
GO:0046513ceramide biosynthetic process0.0248470806030616
GO:0009264deoxyribonucleotide catabolic process0.0248470806030616
GO:0006677glycosylceramide metabolic process0.0248470806030616
GO:0007276gamete generation0.0248470806030616
GO:0046520sphingoid biosynthetic process0.0248470806030616
GO:0007275multicellular organismal development0.0280585067008458
GO:0019953sexual reproduction0.0310262213524435
GO:0015114phosphate transmembrane transporter activity0.0316026226003279
GO:0016832aldehyde-lyase activity0.0316026226003279
GO:0009247glycolipid biosynthetic process0.0323834920180048
GO:0030148sphingolipid biosynthetic process0.0434133450508024
GO:0009166nucleotide catabolic process0.0495824162942606
GO:0042552myelination0.0495824162942606



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
kidney cell4.22e-1317
kidney epithelial cell4.22e-1317
Uber Anatomy
Ontology termp-valuen
kidney4.34e-0926
kidney mesenchyme4.34e-0926
upper urinary tract4.34e-0926
kidney rudiment4.34e-0926
kidney field4.34e-0926
cavitated compound organ7.41e-0831


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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