Personal tools

Coexpression cluster:C3141: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 5: Line 5:
|ontology_enrichment_disease=DOID:2394!2.24e-08!14
|ontology_enrichment_disease=DOID:2394!2.24e-08!14
|ontology_enrichment_uberon=UBERON:0000914!8.62e-21!83;UBERON:0002329!8.62e-21!83;UBERON:0003077!8.62e-21!83;UBERON:0003059!8.62e-21!83;UBERON:0007282!8.62e-21!83;UBERON:0009618!8.62e-21!83;UBERON:0007285!8.62e-21!83;UBERON:0004290!4.49e-20!70;UBERON:0000486!3.58e-19!82;UBERON:0001134!6.77e-18!61;UBERON:0002036!6.77e-18!61;UBERON:0003082!6.77e-18!61;UBERON:0002385!1.40e-16!63;UBERON:0001015!1.40e-16!63;UBERON:0000383!1.40e-16!63;UBERON:0005256!5.93e-16!143;UBERON:0000475!2.65e-14!365;UBERON:0002049!6.51e-14!79;UBERON:0007798!6.51e-14!79;UBERON:0002100!4.65e-13!216;UBERON:0000481!1.33e-12!347;UBERON:0000119!2.24e-12!312;UBERON:0000483!3.85e-12!309;UBERON:0000490!5.85e-12!138;UBERON:0000055!2.46e-10!69;UBERON:0004872!3.92e-10!84;UBERON:0003104!8.46e-10!238;UBERON:0009142!8.46e-10!238;UBERON:0001637!1.74e-09!42;UBERON:0003509!1.74e-09!42;UBERON:0004572!1.74e-09!42;UBERON:0000468!3.38e-09!659;UBERON:0001981!3.66e-09!60;UBERON:0007500!3.66e-09!60;UBERON:0004537!3.66e-09!60;UBERON:0006965!3.66e-09!60;UBERON:0004535!2.04e-08!110;UBERON:0004573!3.03e-08!33;UBERON:0004571!3.03e-08!33;UBERON:0000477!6.05e-08!286;UBERON:0003914!7.11e-08!118;UBERON:0001009!8.42e-08!113
|ontology_enrichment_uberon=UBERON:0000914!8.62e-21!83;UBERON:0002329!8.62e-21!83;UBERON:0003077!8.62e-21!83;UBERON:0003059!8.62e-21!83;UBERON:0007282!8.62e-21!83;UBERON:0009618!8.62e-21!83;UBERON:0007285!8.62e-21!83;UBERON:0004290!4.49e-20!70;UBERON:0000486!3.58e-19!82;UBERON:0001134!6.77e-18!61;UBERON:0002036!6.77e-18!61;UBERON:0003082!6.77e-18!61;UBERON:0002385!1.40e-16!63;UBERON:0001015!1.40e-16!63;UBERON:0000383!1.40e-16!63;UBERON:0005256!5.93e-16!143;UBERON:0000475!2.65e-14!365;UBERON:0002049!6.51e-14!79;UBERON:0007798!6.51e-14!79;UBERON:0002100!4.65e-13!216;UBERON:0000481!1.33e-12!347;UBERON:0000119!2.24e-12!312;UBERON:0000483!3.85e-12!309;UBERON:0000490!5.85e-12!138;UBERON:0000055!2.46e-10!69;UBERON:0004872!3.92e-10!84;UBERON:0003104!8.46e-10!238;UBERON:0009142!8.46e-10!238;UBERON:0001637!1.74e-09!42;UBERON:0003509!1.74e-09!42;UBERON:0004572!1.74e-09!42;UBERON:0000468!3.38e-09!659;UBERON:0001981!3.66e-09!60;UBERON:0007500!3.66e-09!60;UBERON:0004537!3.66e-09!60;UBERON:0006965!3.66e-09!60;UBERON:0004535!2.04e-08!110;UBERON:0004573!3.03e-08!33;UBERON:0004571!3.03e-08!33;UBERON:0000477!6.05e-08!286;UBERON:0003914!7.11e-08!118;UBERON:0001009!8.42e-08!113
|tfbs_overrepresentation=0.147255,0.0586687,0.35968,0.0477154,0.199763,0.287811,0.0430074,0.414564,0.03272,0.0257057,0.139423,0.225367,0.188771,0.125978,0.148679,0.0619003,0.140982,0.0982016,0.0528514,0.108057,0.188635,0.132577,0.081977,0.0948982,0.0415721,0.215492,0.209392,0.0907212,0.143747,0.0933697,0.204953,0.114046,0.0180314,0.208242,0.0665252,0.0844722,0.113083,0.0429682,0.120351,0.0667043,0.0964797,0.0246116,0.140039,0.184019,0.120917,0.0362416,0.0380166,0.18151,0.111283,0.121201,0.154071,0.0541794,0.0701653,0.0929951,0.198787,0.0384161,0.107455,0.212709,0.0783235,0.105572,0.0294301,0.149417,0.108602,0.0759481,0.054569,0.0504887,0.352278,0.0600088,0.0860723,0.167053,0.378921,0.067678,0.089036,0.119383,0.00747605,0.0171177,0.0964936,0.0436945,0.0372495,0.00725252,0.0956287,0.226912,0.0425,0.114846,0.291327,0.000234347,0.064341,0.209032,0.241734,0.062747,0.0857568,0.0495878,0.0953825,0.0473737,0.0853887,0.115028,0.21992,0.153631,0.0927458,0.27413,0.0574857,0.276221,0.141874,0.0370665,0.219088,0.0409286,0.0669887,0.338096,0.144217,0.0400492,0.182599,0.0339971,0.149552,0.0176855,0.101221,0.0337525,0.0203386,0.0566549,0.139021,0.0838393,0.16671,0.214708,0.140123,0.0857827,0.102368,0.176912,0.0906875,0.0147934,0.0843604,0.134932,0.0595773,0.0748346,0.0572164,0.0227861,0.125792,0.108101,0.0648644,0.0553359,0.0330399,0.00395526,0.022776,0.127606,0.203923,0.155998,0.596561,0.0693171,0.0988228,0.0842275,0.0389418,0.120833,0.200647,0.143677,0.180712,0.0265818,0.0427088,0.117549,0.0747594,0.228385,0.0516985,0.0337251,0.227719,0.0952829,0.116642,0.147788,0.0413643,0.114283,0.0400322,0.127369,0.0403542,0.312091,0.179689,0.137725,0.46397,0.0541353,0.0799324,0.090079,0.140334,0.181817,0.178449,0.0356339,0.158844,0.122474,0.0274061,0.115574,0.0737247,0.118847,0.183031,0.0401756,0.0828697,0.173562,0.107145,0.187297,0.122935,0.228812,0.112671,0.0470731,0.0782523,0.0602859,0.0676496,0.109673,0.0893019,0.060398,0.0308319,0.0606036,0.136451,0.259411,0.27358,0.15185,0.206299,0.178359,0.0458667,0.104357,0.121154,0.1129,0.312578,0.169057,0.164202,0.100942,0.062995,0.10299,0.14193,0.37245,0.15606,0.161026,0.0738599,0.126611,0.138852,0.085973,0.060453,0.059896,0.206862,0.384785,0.0418404,0.0765029,0.0959204,0.0931946,0.0472272,0.263087,0.163502,0.214803,0.182472,0.348993,0.0983991,0.0830921,0.116283,0.136838,0.0815104,0.111647,0.372804,0.117027,0.159052,0.185164,0.185743,0.0980288,0.0980899,0.159674,0.107242,0.201859,0.0695832,0.21774,0.0619218,0.1751,0.163376,0.128096,0.0345133,0.0810678,0.0811639,0.0920653,0.118078,0.0755168,0.278352,0.063292,0.254773,0.00320178,0.0865903,0.0380459,0.130174,0.584917,0.355018,0.0691572,0.635872,0.20128,0.517782,0.00156905,0.0638737,0.629514,0.261553,0.118991,0.373681,0.309233,0.49143,0.330703,0.395854,0.329568,0.53472,0.615744,0.271958,0.292154,0.405773,0.39729,0.581713,0.597171,0.187251,0.362792,0.181715,0.423979,0.109988,0.330894,0.218329,0.427027,0.376924,0.129235,0.280025,0.528324,0.520763,0.370782,0.415647,0.484505,0.253571,0.276829,0.301787,0.481778,0.316882,0.223503,0.503224,0.603208,0.283727,0.314747,0.577664,0.291709,0.448095,0.576651,0.416816,0.292835,0.476744,0.439556,0.373868,0.57762,0.608919,0.18237,0.126021,0.513427,0.0133926,0.275351,0.236471,0.185661,0.346319,0.535598,0.270984,0.625945,0.503058,0.0367769,0.169228,0.248634,0.281576,0.472384,0.163244,0.0670502,0.0730934,0.184794,0.0641718,0.762864,0.581837,0.412837,0.671377,0.546839,0.551561,0.0225539,0.218623,0.312808,0.695172,0.0451077,0.0747529,0.229003,0.0222308,0.0129683,0.154921,0.294698,0.34331,0.477304,0.289204,0.327108,0.109738,0.278044,0.085507,0.428671,0.0282539,0.336314,0.19763,0.15631,0.567452,0.421464,0.48267,0.420626,0.516462,0.000957476,0.335105,0.144809,0.145539,0.385517,0.376191,0.119597,0.459928,0.252232,0.152681,0.0465712,0.137098,0.259235,0.134788,0.0985856,0.546222,0.293698,0.284593,0.343734,0.306556,0.305777,0.2348,0.503082,0.169823,0.284629,0.262537,0.359455,0.226257,0.405955,0.41707,0.363685,0.464871,0.166672,0.206222,0.525396,0.651524,0.437176,0.269226,0.339277,0.552319,0.281425,0.141758,0.455379,0.520495,0.159617,0.238587,0.372281,0.232251,0.189515,0.0891382,0.0595618,0.524997,0.625309,0.347298,0.539392,0.34988,0.475069,0.404569,0.6408,0.262389,0.316179,0.0697683,0.0556835,0.192544,0.0779981,0.0575676,0.144322,0.223391,0.203656,0.442884,0.441735,0.191777,0.111931,0.28934,0.0435386,0.303336,0.126478,0.134852,0.10689,0.273326,0.00201405,0.381386,0.0179103,0.303939,0.279795,0.390395,0.0464827,0.169603,0.114583,0.104559,0.0899537,0.0866966,0.15983,0.107111,0.0438639,0.00389058,0.123593,0.129156,0.210369,0.193675,0.346372,0.0499762,0.0828956,0.0666953,0.182185,0.111277,0.219383,0.332809,0.19559,0.132201,0.188694,0.0481795,0.199971,0.406014,0.127758,0.175785,0.184486,0.169234,0.0876426,0.0952322,0.0112557,0.222432,0.107043,0.275244,0.00481323,0.173708,0.141119,0.211595,0.0300692,0.131551,0.0445237,0.052362,0.208866,0.153187,0.0797897,0.0974211,0.160149,0.123526,0.0906475,0.0558058,0.28262,0.517717,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.11002,0.26144,0.0286025,0.0470027,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.0353101,0.217069,0.190048,0.131088,0.0144628,0.237101,0.00501606,0.0761239,0.172491,0.0818785,0.182701,0.335058,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.0458479,0.0473033,0.094881,0.000364928,0.132886,0.0774373,0.109194,0.128564,0.131452,0.323837,0.0226843,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.047822,0.655293,0.21727,0.289306,0.119215,0.192475,0.177967,0.188967,0.057571,0.00115086,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.175094,0.00352878,0.00739585,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.000415994,0.152372,0.194941,0.218271,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.0116284,9.07794e-06,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.170295,0.193653,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.174776,0.0948451,0.264079,0.249049,0.140533,0.0997756,0.0364628,0.103667,0.113069,0.025556,0.16791,0.00423976,0.585505,0.166967,0.188651,0.0813902,0.184948,0.156261,0.311847,0.511859,0.0590944,0.247324,0.178389,0.0257622,0.231073,0.0972686,0.0743925,0.0360851,0.412187,0.131093,0.0434602,0.133616,0.418146,0.36927,0.449036,0.407369,0.231447,0.544776,0.43956,0.37006,0.42622,0.448797,0.197484,0.396996,0.36145,0.406019,0.381071,0.216033,0.643768,0.432035,0.138468,0.390366,0.145312,0.50058,0.443185,0.522904,0.158867,0.00516504,0.227104,0.0380245,0.250246,0.0867545,0.284625,0.00583062,0.55194,0.0437169,0.28907,0.164197,0.462688,0.287881,0.0556235,0.138768,0.336276,0.468444,0.258219,0.446557,0.243383,0.00448654,0.390974,0.0115792,0.683217,0.161598,0.0527155,0.277094,0.496032,0.0795555,0.37357,0.00500957,0.0282154,0.0201095,0.0508568,0.0175763,0.20342,0.200493,0.20558,0.300504,0.25656,0.0189087,0.0696455,0.383291,0.156104,0.141318,0.411941,0.0961477,0.314438,0.354789,0.163828,0.230581,0.120226,0.28424,0.562405,0.314429,0.181415,0.282286,0.194707,0.24884,0.408413,0.516511,0.322213,0.656109,0.33942,0.61031,0.387276,0.522605,0.00640674,0.180745,0.222037,0.416621,0.416292,0.462712,0.148994,0.215157,0.204817,0.452428,0.138871,0.00583733,0.166905,0.19783,0.0833851,0.316453,0.48065,0.175199,0.332919,0.373557,0.523625,0.408861,0.365487,0.534741,0.39088,0.363192,0.236011,0.203486,0.273398,0.375787,0.4466,0.351067,0.275347,0.637444,0.305885,0.241132,0.371414,0.30666,0.303709,0.0323359,0.386538,0.508064,0.250964,0.383276,0.457886,0.504711,0.220231,0.159791,0.196976,0.191517,0.129584,0.0663581,0.307334,0.459728,0.283463,0.0517073,0.472935,0.399569,0.273281,0.368095,0.275089,0.384593,0.47795,0.359231,0.339729,0.197805,0.24107,0.387069,0.332774,0.52832,0.299887,0.0814305,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.222977,0.0664606,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.000537001,0.0933115,0.12405,0.179889,0.226869,0.27872,0.0855609,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.0701861,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.0370716,0.30793,0.180606,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.00193951,0.207559,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.295769,0.286691,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.253509,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435
}}
}}

Revision as of 18:56, 8 August 2012


Full id: C3141_small_mesenchymal_putamen_anaplastic_leiomyoma_gall_Smooth



Phase1 CAGE Peaks

Hg19::chr11:32112431..32112454,+p5@RCN1
Hg19::chr11:32112459..32112518,+p2@RCN1
Hg19::chr11:32112533..32112554,+p6@RCN1


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>disease_data<br>

Uber Anatomy
Ontology termp-valuen
somite8.62e-2183
paraxial mesoderm8.62e-2183
presomitic mesoderm8.62e-2183
presumptive segmental plate8.62e-2183
trunk paraxial mesoderm8.62e-2183
presumptive paraxial mesoderm8.62e-2183
dermomyotome4.49e-2070
multilaminar epithelium3.58e-1982
skeletal muscle tissue6.77e-1861
striated muscle tissue6.77e-1861
myotome6.77e-1861
muscle tissue1.40e-1663
musculature1.40e-1663
musculature of body1.40e-1663
trunk mesenchyme5.93e-16143
organism subdivision2.65e-14365
vasculature6.51e-1479
vascular system6.51e-1479
trunk4.65e-13216
multi-tissue structure1.33e-12347
cell layer2.24e-12312
epithelium3.85e-12309
unilaminar epithelium5.85e-12138
vessel2.46e-1069
splanchnic layer of lateral plate mesoderm3.92e-1084
mesenchyme8.46e-10238
entire embryonic mesenchyme8.46e-10238
artery1.74e-0942
arterial blood vessel1.74e-0942
arterial system1.74e-0942
multi-cellular organism3.38e-09659
blood vessel3.66e-0960
epithelial tube open at both ends3.66e-0960
blood vasculature3.66e-0960
vascular cord3.66e-0960
cardiovascular system2.04e-08110
systemic artery3.03e-0833
systemic arterial system3.03e-0833
anatomical cluster6.05e-08286
epithelial tube7.11e-08118
circulatory system8.42e-08113
Disease
Ontology termp-valuen
ovarian cancer2.24e-0814


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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C3141&oldid=1991251"