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Coexpression cluster:C2639: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001637!9.72e-35!42;UBERON:0003509!9.72e-35!42;UBERON:0004572!9.72e-35!42;UBERON:0001981!1.43e-34!60;UBERON:0007500!1.43e-34!60;UBERON:0004537!1.43e-34!60;UBERON:0006965!1.43e-34!60;UBERON:0000055!5.33e-33!69;UBERON:0004872!7.96e-31!84;UBERON:0002049!2.96e-30!79;UBERON:0007798!2.96e-30!79;UBERON:0004573!1.06e-27!33;UBERON:0004571!1.06e-27!33;UBERON:0003914!9.05e-27!118;UBERON:0004535!1.88e-24!110;UBERON:0001009!3.58e-23!113;UBERON:0000490!1.00e-19!138;UBERON:0000947!7.22e-16!21;UBERON:0010191!7.22e-16!21;UBERON:0000025!1.63e-14!194;UBERON:0001986!1.71e-14!18;UBERON:0004638!1.71e-14!18;UBERON:0004852!1.71e-14!18;UBERON:0001134!8.70e-14!61;UBERON:0002036!8.70e-14!61;UBERON:0003082!8.70e-14!61;UBERON:0002385!9.33e-14!63;UBERON:0001015!9.33e-14!63;UBERON:0000383!9.33e-14!63;UBERON:0004111!7.64e-13!241;UBERON:0004290!7.95e-13!70;UBERON:0000914!2.54e-12!83;UBERON:0002329!2.54e-12!83;UBERON:0003077!2.54e-12!83;UBERON:0003059!2.54e-12!83;UBERON:0007282!2.54e-12!83;UBERON:0009618!2.54e-12!83;UBERON:0007285!2.54e-12!83;UBERON:0000487!5.68e-12!22;UBERON:0003081!2.13e-11!216;UBERON:0000486!3.22e-11!82;UBERON:0004237!5.29e-11!10;UBERON:0004695!5.29e-11!10;UBERON:0002111!5.29e-11!10;UBERON:0004178!5.29e-11!10;UBERON:0006914!5.35e-11!25;UBERON:0000477!7.73e-11!286;UBERON:0003915!2.44e-10!9;UBERON:0004700!2.44e-10!9;UBERON:0001917!2.44e-10!9;UBERON:0000119!1.20e-09!312;UBERON:0005256!1.94e-09!143;UBERON:0000483!3.12e-09!309;UBERON:0000926!6.89e-09!448;UBERON:0004120!6.89e-09!448;UBERON:0006603!6.89e-09!448;UBERON:0002204!1.03e-08!167;UBERON:0001135!1.17e-08!15;UBERON:0002100!3.38e-07!216
|ontology_enrichment_uberon=UBERON:0001637!9.72e-35!42;UBERON:0003509!9.72e-35!42;UBERON:0004572!9.72e-35!42;UBERON:0001981!1.43e-34!60;UBERON:0007500!1.43e-34!60;UBERON:0004537!1.43e-34!60;UBERON:0006965!1.43e-34!60;UBERON:0000055!5.33e-33!69;UBERON:0004872!7.96e-31!84;UBERON:0002049!2.96e-30!79;UBERON:0007798!2.96e-30!79;UBERON:0004573!1.06e-27!33;UBERON:0004571!1.06e-27!33;UBERON:0003914!9.05e-27!118;UBERON:0004535!1.88e-24!110;UBERON:0001009!3.58e-23!113;UBERON:0000490!1.00e-19!138;UBERON:0000947!7.22e-16!21;UBERON:0010191!7.22e-16!21;UBERON:0000025!1.63e-14!194;UBERON:0001986!1.71e-14!18;UBERON:0004638!1.71e-14!18;UBERON:0004852!1.71e-14!18;UBERON:0001134!8.70e-14!61;UBERON:0002036!8.70e-14!61;UBERON:0003082!8.70e-14!61;UBERON:0002385!9.33e-14!63;UBERON:0001015!9.33e-14!63;UBERON:0000383!9.33e-14!63;UBERON:0004111!7.64e-13!241;UBERON:0004290!7.95e-13!70;UBERON:0000914!2.54e-12!83;UBERON:0002329!2.54e-12!83;UBERON:0003077!2.54e-12!83;UBERON:0003059!2.54e-12!83;UBERON:0007282!2.54e-12!83;UBERON:0009618!2.54e-12!83;UBERON:0007285!2.54e-12!83;UBERON:0000487!5.68e-12!22;UBERON:0003081!2.13e-11!216;UBERON:0000486!3.22e-11!82;UBERON:0004237!5.29e-11!10;UBERON:0004695!5.29e-11!10;UBERON:0002111!5.29e-11!10;UBERON:0004178!5.29e-11!10;UBERON:0006914!5.35e-11!25;UBERON:0000477!7.73e-11!286;UBERON:0003915!2.44e-10!9;UBERON:0004700!2.44e-10!9;UBERON:0001917!2.44e-10!9;UBERON:0000119!1.20e-09!312;UBERON:0005256!1.94e-09!143;UBERON:0000483!3.12e-09!309;UBERON:0000926!6.89e-09!448;UBERON:0004120!6.89e-09!448;UBERON:0006603!6.89e-09!448;UBERON:0002204!1.03e-08!167;UBERON:0001135!1.17e-08!15;UBERON:0002100!3.38e-07!216
|tfbs_overrepresentation=0.191353,0.0774498,0.814139,0.0631091,0.00350459,0.363996,0.0569281,0.510252,0.043387,0.0341265,0.181435,0.00510754,0.0323727,0.164339,0.193153,0.0034297,0.183412,0.00866795,0.0698403,6.04891e-07,0.243245,4.63254e-05,0.000226999,0.124486,0.0550418,0.276459,1.93855e-05,0.119094,0.186914,0.122514,0.26347,0.149094,0.0239693,0.267529,0.0877018,0.111013,0.788552,0.00164905,0.157159,0.0879352,0.126525,0.0326801,0.182216,0.2375,0.157881,2.35099e-07,0.0503649,0.234372,0.0111479,0.158244,0.19996,0.0715789,0.0924421,0.12203,0.00345151,0.00131748,1.94865e-05,0.00426281,0.103044,0.138225,0.0390464,0.194086,0.142115,0.0999599,0.0720888,0.0667453,0.439574,0.0792005,0.00664966,0.216289,0.470097,0.00410253,0.116917,0.155921,0.00995563,0.0227583,0.126543,0.0578308,0.0493551,0.00965832,0.125428,0.290468,0.0562614,0.150119,0.368178,0.320801,0.0848546,0.0397921,0.131915,0.0827752,3.65931e-09,0.0655645,0.12511,0.0626609,0.112199,0.150351,0.690341,0.199405,0.121709,0.000988309,0.0759036,0.0700593,0.184542,0.0491142,0.280878,0.00149586,0.0883058,0.0184799,0.187509,0.34189,0.23573,0.0450707,0.194256,0.0235108,0.00921236,0.0447483,0.000368532,0.0748174,0.180926,0.110194,0.025182,0.275495,0.0177346,0.000260628,0.00942364,0.228632,0.0073858,0.0196757,0.110868,1.91332e-06,0.00317628,0.0985137,0.0755515,0.0302655,0.0142686,0.141472,0.085537,1.3015e-06,0.0438087,0.0052702,0.0302521,0.166414,0.262198,0.202388,0.701894,0.0913381,0.129544,0.110696,0.0515825,0.157774,0.258146,0.186826,0.233377,0.0352845,0.0565357,0.153577,0.0984158,0.0476129,0.0683304,0.0447121,0.291455,0.124982,0.152417,0.192028,0.346873,0.149398,0.0530169,0.166112,0.0534404,0.0142968,0.2321,0.017128,0.202544,0.0715212,0.105131,0.118265,0.182591,0.0300065,0.230552,0.0472274,5.63088e-09,0.000773546,0.0363736,0.15105,0.0970713,0.155237,0.236268,0.0532055,0.108938,0.224443,0.140245,0.241581,0.160458,0.00535618,0.000599085,0.0622664,0.102951,0.0795624,0.0891668,0.14349,0.117261,0.0797088,0.0408965,0.0799774,0.177664,0.000779202,0.000979785,0.197158,0.265132,0.230439,0.00187964,0.136664,0.158184,0.0114764,0.0901258,0.218801,5.34491e-06,0.132273,0.0830988,0.00045518,0.184613,0.462724,0.202467,0.208718,0.0972471,0.0144563,0.180711,0.112956,0.0797807,0.0790532,0.675167,0.476758,0.0553945,0.10068,0.125804,0.000335506,0.0624687,0.334388,0.21183,0.000348425,0.235571,0.435782,0.128998,0.109226,0.151958,0.00108737,0.107176,0.146021,0.463127,0.000672883,0.00172865,0.238926,0.239646,0.000391478,0.00864814,0.207017,0.000515086,0.259646,0.0916845,0.687863,0.0816983,0.226367,0.0241753,0.167038,0.0457509,0.106603,0.106727,0.000323262,0.154253,0.00511249,0.00993324,0.0834863,0.324356,0.545829,0.113754,0.0504034,0.169684,0.690367,0.810881,0.869559,0.73998,0.668426,0.901171,0.888682,0.420045,0.148431,0.332539,0.545329,0.129819,0.389374,0.594055,0.017212,0.489273,0.00220562,0.639461,0.364388,0.0678774,0.00130219,0.153719,0.49089,0.687176,0.702495,0.241524,0.0232022,0.234628,0.0386001,0.143893,0.0172441,0.0434592,0.00704767,0.467825,0.563725,0.164225,0.0806606,0.624969,0.460819,0.511459,0.0126595,0.322903,0.350886,0.0128438,0.0590382,0.398372,0.286293,0.0683688,0.127626,0.359128,0.0018021,0.683133,0.368633,0.0463511,0.682118,0.0364944,0.369971,0.578349,0.537928,0.464342,0.00649908,0.00185115,0.235444,0.804772,0.899283,0.548076,0.349116,0.302142,0.239545,0.432689,0.640367,0.343881,0.730486,0.606382,0.617741,0.000547901,0.316925,0.356561,0.210197,0.00187336,0.0883859,0.00478831,0.238465,0.70198,0.571578,0.323783,0.508325,0.436735,0.284591,0.093482,0.54723,0.280307,0.001754,0.0228113,0.0596868,0.0984075,0.293026,0.753513,0.332526,0.605423,0.372182,0.109146,0.578951,0.365653,0.41035,0.784024,0.35234,0.644643,0.0071728,0.291917,0.104649,0.25441,0.202782,0.103116,0.0378508,0.584705,0.165503,0.000504427,0.926442,0.0023737,0.188259,0.189182,0.477589,0.131612,0.546448,2.45011e-05,0.321282,0.021087,0.0616078,0.178485,0.00793151,0.0163996,0.129238,0.000114507,0.370995,0.360161,0.0194906,0.00160583,0.385297,0.346931,0.239407,0.0778663,0.360203,0.0631823,0.447838,0.00517097,0.033464,0.513045,0.452694,0.0104311,0.845507,0.265037,8.00715e-05,0.754776,0.53531,0.341771,0.424526,0.290547,0.356381,0.0181543,0.55524,0.256884,0.206945,0.304719,0.462531,0.049262,0.244339,0.117049,0.0786167,0.629381,0.043986,0.433821,0.276604,0.020637,0.0563264,0.0330909,0.00283311,0.382579,0.397546,0.0919254,0.0735469,0.0336952,0.102621,0.0760107,0.187642,0.286156,0.261868,0.184029,0.540322,5.7038e-07,0.011279,0.365815,0.0576261,0.0130551,0.164977,0.175633,0.139918,0.34669,0.0828344,0.4729,0.0238089,0.383126,0.354433,0.0294482,0.0614918,0.219485,0.149782,5.10416e-07,0.00726614,0.00674695,0.207214,0.140201,0.0580534,0.00518407,0.161297,0.168389,0.0403091,0.0340965,0.432751,0.0660736,0.108971,0.0879235,0.235214,0.145546,0.00469494,0.102433,0.251882,0.172263,0.243319,0.0637178,0.036377,0.500692,0.166608,0.0280285,0.238082,0.219023,0.115115,0.124916,0.0149794,0.00490213,0.000512171,0.348988,0.00641248,0.000142533,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}}
}}

Revision as of 18:28, 8 August 2012


Full id: C2639_Smooth_large_Endothelial_Aortic_osteosarcoma_Preadipocyte_Renal



Phase1 CAGE Peaks

Hg19::chr22:21134295..21134309,+p@chr22:21134295..21134309
+
Hg19::chr22:21138297..21138307,+p@chr22:21138297..21138307
+
Hg19::chr22:21138313..21138336,+p@chr22:21138313..21138336
+
Hg19::chr22:21138343..21138378,+p@chr22:21138343..21138378
+


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


No GOStat results

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>


Uber Anatomy
Ontology termp-valuen
artery9.72e-3542
arterial blood vessel9.72e-3542
arterial system9.72e-3542
blood vessel1.43e-3460
epithelial tube open at both ends1.43e-3460
blood vasculature1.43e-3460
vascular cord1.43e-3460
vessel5.33e-3369
splanchnic layer of lateral plate mesoderm7.96e-3184
vasculature2.96e-3079
vascular system2.96e-3079
systemic artery1.06e-2733
systemic arterial system1.06e-2733
epithelial tube9.05e-27118
cardiovascular system1.88e-24110
circulatory system3.58e-23113
unilaminar epithelium1.00e-19138
aorta7.22e-1621
aortic system7.22e-1621
tube1.63e-14194
endothelium1.71e-1418
blood vessel endothelium1.71e-1418
cardiovascular system endothelium1.71e-1418
skeletal muscle tissue8.70e-1461
striated muscle tissue8.70e-1461
myotome8.70e-1461
muscle tissue9.33e-1463
musculature9.33e-1463
musculature of body9.33e-1463
anatomical conduit7.64e-13241
dermomyotome7.95e-1370
somite2.54e-1283
paraxial mesoderm2.54e-1283
presomitic mesoderm2.54e-1283
presumptive segmental plate2.54e-1283
trunk paraxial mesoderm2.54e-1283
presumptive paraxial mesoderm2.54e-1283
simple squamous epithelium5.68e-1222
lateral plate mesoderm2.13e-11216
multilaminar epithelium3.22e-1182
blood vessel smooth muscle5.29e-1110
arterial system smooth muscle5.29e-1110
artery smooth muscle tissue5.29e-1110
aorta smooth muscle tissue5.29e-1110
squamous epithelium5.35e-1125
anatomical cluster7.73e-11286
endothelial tube2.44e-109
arterial system endothelium2.44e-109
endothelium of artery2.44e-109
cell layer1.20e-09312
trunk mesenchyme1.94e-09143
epithelium3.12e-09309
mesoderm6.89e-09448
mesoderm-derived structure6.89e-09448
presumptive mesoderm6.89e-09448
musculoskeletal system1.03e-08167
smooth muscle tissue1.17e-0815
trunk3.38e-07216


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


This analysis result is provided for C0 - C305 clusters.