Personal tools

Coexpression cluster:C864: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 5: Line 5:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000475!8.16e-18!365;UBERON:0000468!5.10e-17!659;UBERON:0003102!2.33e-14!95;UBERON:0000467!5.65e-13!625;UBERON:0000481!7.90e-13!347;UBERON:0000480!1.06e-12!626;UBERON:0000486!4.72e-11!82;UBERON:0000922!1.38e-10!612;UBERON:0000914!2.27e-10!83;UBERON:0002329!2.27e-10!83;UBERON:0003077!2.27e-10!83;UBERON:0003059!2.27e-10!83;UBERON:0007282!2.27e-10!83;UBERON:0009618!2.27e-10!83;UBERON:0007285!2.27e-10!83;UBERON:0002050!2.37e-10!605;UBERON:0005423!2.37e-10!605;UBERON:0000923!4.85e-10!604;UBERON:0005291!4.85e-10!604;UBERON:0006598!4.85e-10!604;UBERON:0002532!4.85e-10!604;UBERON:0002199!6.07e-10!45;UBERON:0002416!6.07e-10!45;UBERON:0002097!9.95e-09!40;UBERON:0005256!2.86e-08!143;UBERON:0004290!5.43e-08!70;UBERON:0002100!1.03e-07!216;UBERON:0000483!1.66e-07!309;UBERON:0000119!2.79e-07!312;UBERON:0000924!6.41e-07!173;UBERON:0006601!6.41e-07!173;UBERON:0000062!9.92e-07!511
|ontology_enrichment_uberon=UBERON:0000475!8.16e-18!365;UBERON:0000468!5.10e-17!659;UBERON:0003102!2.33e-14!95;UBERON:0000467!5.65e-13!625;UBERON:0000481!7.90e-13!347;UBERON:0000480!1.06e-12!626;UBERON:0000486!4.72e-11!82;UBERON:0000922!1.38e-10!612;UBERON:0000914!2.27e-10!83;UBERON:0002329!2.27e-10!83;UBERON:0003077!2.27e-10!83;UBERON:0003059!2.27e-10!83;UBERON:0007282!2.27e-10!83;UBERON:0009618!2.27e-10!83;UBERON:0007285!2.27e-10!83;UBERON:0002050!2.37e-10!605;UBERON:0005423!2.37e-10!605;UBERON:0000923!4.85e-10!604;UBERON:0005291!4.85e-10!604;UBERON:0006598!4.85e-10!604;UBERON:0002532!4.85e-10!604;UBERON:0002199!6.07e-10!45;UBERON:0002416!6.07e-10!45;UBERON:0002097!9.95e-09!40;UBERON:0005256!2.86e-08!143;UBERON:0004290!5.43e-08!70;UBERON:0002100!1.03e-07!216;UBERON:0000483!1.66e-07!309;UBERON:0000119!2.79e-07!312;UBERON:0000924!6.41e-07!173;UBERON:0006601!6.41e-07!173;UBERON:0000062!9.92e-07!511
|tfbs_overrepresentation=1.48631e-06,0.182524,0.790672,0.150384,0.524232,0.105982,0.136302,0.265274,0.104964,0.00355655,0.393776,0.573106,0.0338198,0.010804,0.00225705,0.191841,0.39743,0.0473332,0.165563,0.0565777,0.0337522,0.377553,0.00312385,0.0443926,0.131976,0.194445,0.543049,0.0407911,0.0157332,0.000366169,0.0424568,0.332112,0.0588503,0.0443577,0.205046,0.0356521,0.979441,0.136184,0.347824,0.205554,0.28694,0.0797086,0.0910825,0.492309,0.349222,0.115779,0.121196,6.96556e-05,0.325142,0.0699578,0.427495,0.169456,0.215332,0.277731,0.0390261,0.122412,0.315406,0.549408,0.000183321,0.0541814,0.094776,0.102393,0.0571086,0.231481,0.170596,0.158604,0.17813,0.186397,0.259191,0.000422738,0.213456,0.208314,0.267169,0.345428,0.0247035,0.0559282,0.0458026,0.138367,0.118858,0.0239712,0.000402241,0.0561008,0.134775,0.0082875,0.318455,0.619817,0.0212247,0.542355,0.381704,0.19427,0.258338,0.0128451,0.284049,0.149368,0.257343,0.334576,0.0301355,0.426502,0.00447152,0.656286,0.017091,0.0241173,0.399512,0.00729093,0.199971,0.130032,0.206361,0.0133062,0.40496,0.0889461,0.489357,0.108897,0.102559,0.0577447,0.299336,0.108144,0.0662012,0.17668,0.0143083,0.0351485,0.124514,0.00929883,0.0146331,0.258409,0.302313,0.477418,0.271588,0.0484658,0.254556,0.383168,0.185151,0.22839,0.178312,0.0739549,0.0749017,0.317054,0.200322,0.0158798,0.10595,0.0131235,0.00280223,0.0768918,0.176978,0.43183,0.951479,0.212944,0.293085,0.254195,0.12401,0.349014,0.525981,0.0157115,0.143529,0.0858906,0.135403,0.340875,0.228181,0.0117648,0.162172,0.10806,0.011635,0.283786,0.338614,0.413198,0.0926295,0.332708,0.127319,0.00123592,0.128294,0.0379897,0.483272,0.389782,0.157321,0.169327,0.242471,0.0402492,0.00180316,0.487726,0.000585453,0.11392,0.0208662,0.353055,0.0884684,0.335943,0.2253,0.3441,0.490255,0.127753,0.250503,0.133701,0.314612,0.152786,0.010074,0.215131,0.328649,0.148473,0.00272796,0.187196,0.208233,0.32106,0.00400657,0.187519,0.0991267,0.188112,0.0135686,0.00367566,0.0927205,0.105408,0.180524,0.480474,0.144874,0.307452,0.349806,0.329227,0.71331,0.460609,0.450032,0.298612,0.194981,0.0517376,0.00188424,0.788411,0.43197,0.0216836,0.0276313,0.0109601,0.392435,0.0368587,0.0188299,0.0184976,0.154059,0.801958,0.132786,0.00255383,0.285467,0.278261,7.94765e-07,0.0835707,0.448494,0.55339,0.489092,0.418748,0.291976,0.251108,7.03472e-05,0.387685,0.00307234,0.326065,0.0727324,0.065583,0.438653,0.149767,0.0323338,0.0052498,0.291167,0.000338185,0.000630711,0.528373,0.213694,0.556528,0.191903,0.473575,0.448218,0.0774328,0.00634129,0.245583,0.0330548,0.27526,0.34219,0.230285,0.662906,0.195831,0.624772,0.860989,0.0373601,0.121285,0.371785,0.0771144,0.597792,0.747662,0.434524,0.146112,0.828645,0.796984,0.0128063,0.118305,0.63603,0.0155207,0.461937,0.349329,0.191337,0.386728,0.0901911,0.00252012,0.00477077,0.104063,0.0912712,0.00122119,0.252038,0.815061,0.169081,0.583677,0.152721,0.191705,0.0304198,0.115007,0.321859,0.737991,0.0505,0.0119206,4.06433e-05,0.343265,0.139283,0.0423476,0.443781,0.000205878,0.833179,0.0734473,0.622751,0.0956616,0.119958,0.00730845,0.71925,0.0108364,0.207201,0.0923187,0.305477,0.0391977,0.943481,0.319111,0.0509784,0.779791,0.536422,0.000199712,0.63531,0.00374986,0.0215763,0.547724,0.381749,0.145841,0.914384,0.978307,0.673062,0.65821,4.32057e-05,0.495706,0.0149398,0.116522,0.283926,0.23338,0.0028051,0.431373,0.704618,0.246912,0.30182,0.16731,0.447928,0.206535,0.223539,0.0318764,0.0866121,0.0103738,0.945321,0.262652,0.0826469,0.128057,0.280026,0.0158852,0.560592,0.355533,0.10655,0.142604,0.228163,0.57975,0.274765,0.795794,0.0313318,0.112751,0.408793,0.36722,0.314821,0.380446,0.0417267,0.662427,0.797386,0.556501,0.214005,0.0129713,0.0384017,0.11102,0.529004,0.275863,0.0247633,0.111838,0.0370178,0.988958,0.394427,0.0967724,0.0162957,0.802743,0.209697,0.861463,0.0185733,0.00320461,0.018662,0.146977,0.388299,0.019003,0.382825,0.292464,0.0182719,0.111754,0.0269659,0.0541732,0.035555,0.12412,0.090746,0.412192,0.705796,0.00577794,0.269808,0.187344,0.0113534,0.0319597,0.2691,0.000174828,0.158373,0.191194,1.31227e-07,0.106727,0.277193,0.57077,0.0888589,0.748774,0.501197,0.667667,0.399242,0.0175036,0.702287,0.000337588,0.230665,0.0211413,0.0597611,0.000787558,0.000305118,0.185106,0.451419,0.634956,0.171872,0.000358248,0.000126105,0.0670228,0.00862662,0.258222,0.643887,0.135325,0.214215,0.173851,0.160298,0.23715,0.179332,0.00201075,0.0537615,0.531903,0.309776,0.856737,0.0353355,0.326782,0.0286824,0.137899,0.0341903,0.0756517,0.382976,0.31396,0.0924928,0.1944,0.475365,0.0584635,0.122193,0.0983912,0.491009,0.146713,0.461789,0.333461,0.307972,0.269627,0.000273526,0.115525,0.314525,0.138876,0.0129098,0.0102291,0.369332,0.18665,0.512058,0.757654,0.157089,0.250573,0.205529,0.488495,0.325128,0.562014,0.390411,0.0373156,0.0123988,0.154774,0.000657228,0.524643,0.823834,0.36595,0.47503,0.493277,0.460991,0.263426,0.283652,0.0370288,0.0531341,0.314351,0.658042,0.0159542,0.470608,0.0923592,0.00879434,0.0967614,0.375094,0.140855,0.164124,0.0447238,0.107079,0.242079,0.289413,0.441091,0.355638,0.271481,0.174207,0.669506,0.438303,0.388852,0.0478428,0.202693,0.188736,0.202212,0.243065,0.231042,0.444747,0.511132,0.00096578,0.237076,0.175309,0.132555,0.00635158,0.000348568,0.0177734,0.129308,0.526744,0.153887,0.135551,0.786122,0.106051,0.760589,0.0512797,0.125614,0.185352,0.540584,0.353062,0.319022,0.00732493,0.635845,0.0922004,0.929835,0.405772,0.123725,0.262911,0.0157097,0.0158328,0.255191,0.557671,0.156709,0.0121035,0.0887482,0.594282,0.676166,0.231968,0.0263007,0.00311292,0.48957,0.394344,0.100283,0.398555,0.456726,0.396589,0.266963,0.709133,0.67635,0.149158,0.282725,0.0153598,0.0828031,0.235602,0.319841,0.367901,0.374858,0.743087,0.590023,0.162583,0.294593,0.157267,0.191637,0.230272,0.043304,0.404631,0.108968,0.00233403,0.660939,0.938228,0.284066,0.00972931,0.679662,0.345014,0.160198,0.139728,0.929056,0.179342,0.000633828,0.81061,0.188879,0.136095,0.334393,0.218579,0.0540788,0.0293433,0.113765,0.0107131,0.47356,0.959721,0.994596,0.537364,0.559783,0.317505,0.20738,0.318705,0.155403,0.28528,0.0429027,0.230462,0.144238,0.322438,0.215644,0.210984,0.426136,0.00753299,0.377654,0.0106409,0.16868,0.000807968,0.0427007,0.467862,0.0535858,0.203928,0.178172,0.589292,0.23158,0.310821,0.00248255,0.0369741,0.198712,0.300338,0.380376,0.132915,0.164039,0.105093,0.194062,0.158556,0.0172771,0.903792,0.00270763,0.220174,0.00435439,0.187056,0.405162,0.00237424,0.289311,0.000292287,0.463283,0.000875971,0.00165231,0.21408,7.97531e-06,0.106257,0.00918396,0.253271,0.0474175,0.329845,0.328599,0.151851,0.472883,0.00477121,0.640164,0.615079,0.396379,0.295573,0.0789966,0.305672,0.0615411,0.0826755,0.458123,0.271514,0.338354,0.124854,0.00566471,0.246465,0.494232,0.43242,0.712293,0.427809,0.183756,0.244778,0.480538,0.050437,0.583498,0.520128,0.960223,0.115301,0.528526,0.080776,0.137664,0.380034,0.538684,0.454236,0.0160974,0.520278,0.0592012,0.737067,9.49096e-07,0.785712,0.000135279,0.319401,0.00675271,0.239113,0.440562,0.00881344,0.797945,0.329297,0.263385,0.122855,0.423567,0.807884,0.38586,0.0854381,0.000940576,0.0398393,0.992418,0.99156,0.576288,0.699475,0.959502,0.22404,0.672575,0.415161,0.280644,0.931173,0.314592,0.121202,0.019248,0.028147,0.160091,0.368713,0.74495,0.0207209,0.262649,0.0501609,0.605312,0.385302,0.00160378,0.284291,0.338341,0.117811,0.0982686,0.452501,0.0819078,0.445426,0.021494,0.405981,0.885,0.749512,0.989751,0.992758,0.176229,0.525677,0.17945,0.696179,0.0781485,0.551933,0.761127,0.80035,0.0198673,0.398215,0.829626,0.0454954,0.358365,0.181328,0.44921,0.582609,0.347515,0.671987,0.936383,0.35835,0.486888,0.668993,0.879258,0.827981,0.00912938,0.225977,0.371904,0.870127,0.00300805,0.956775,0.225152,0.000248261,0.995488,0.257328,0.566957,0.108129,0.107829,0.342462,0.45286,0.551059,0.534174,0.865681,0.39248,0.976031,0.0239826,0.520391,0.251906,0.135628,0.0707695,0.473785,0.00267812,0.00115343,0.105091,0.522835,0.195263,0.25328,0.001601,0.192231,0.0133278,0.53157,0.655131,0.000230624,0.860856,0.42238,0.291273,0.437687,0.0352678,4.96718e-05,0.45798,0.344871,0.339766,0.665244,0.224107,0.421039,0.0736633,0.800335,0.150336,0.903869,0.0517112,0.42282,0.518685,0.158818,0.344207,0.19663,7.15942e-10,0.871557,0.00101836,0.146743,0.0219332,0.0932428,0.654945,0.783476,0.290837,0.0247017,0.0233557,0.773185,0.749346,0.520341,0.205852,0.804399,0.39035,0.713696,0.0327696,0.431501,0.535337,0.00437327,0.0305786,2.18938e-08,0.000146153,0.00605696,0.156154,0.631577,0.00562007,0.220257,0.0850998,0.446439,0.00594529,0.0224616,0.562098,0.183097,0.269945,0.284002,0.023669,0.620409,0.0767128,0.626018,0.000155978,0.00101593,0.48269,0.000874808,0.564853,0.205997,0.164947,0.00176726,0.19831,0.521951,0.0328499,0.355143,0.170385,0.10457,0.043009,0.35692,0.142386,3.20866e-07,0.663478,0.257808,9.8457e-06,0.001256,0.245207,0.205005,0.023156,0.54127,0.276486,0.329711,0.408394,0.580521,0.445508,0.0574856,0.127222,0.122652,0.203837,0.163644,0.143933,0.0884347,0.0405712,0.175823,0.429455,0.00944426,0.0053503,0.317977,0.185106,0.195115,0.437378,0.563762,0.515166,0.00112061,0.632866,0.706798,0.485196,0.440503,0.00353145,0.41993,0.196929,0.356596,6.14911e-07,0.000705606,0.221402,0.263106,0.26849,0.0417913,0.0476962,0.539507,0.0151563,0.0359792,0.615167,0.0644956,0.571636,0.610026,0.469149,0.525556,0.394627,0.00670401,4.8717e-05,0.0199974,0.373963,0.628435,0.568369,0.131768,0.477159,0.288135,0.52892,0.000303535,0.300745,0.0503938,0.248778,0.528779,0.0553007,0.167775,0.168268,0.104512,0.237199,0.129411,0.168156,0.0416287,0.268457,0.546774,0.499966,0.0607256,0.15601,0.0331512,0.291231,0.198269,0.00983596,0.00150616,0.308086,0.20448,0.0293601,0.368317,0.0576659,0.139615,0.206257,0.0398545,0.117319,0.0851841,0.00770367,0.0311281,2.37325e-05,0.415318,1.13343e-06,0.638663,0.258913,0.00102932,0.00193292,0.116454,0.0756841,6.12316e-05,0.0266336,0.640709,0.375599,0.44222,0.00797335,0.523194,0.000172373,0.013425,0.377025,0.0643356,2.42186e-05,0.570279,0.335207,0.000905965,0.00593979,0.100192,0.00563987,0.0728705,0.00335085,0.207992,0.279276,0.148243,3.26556e-06,0.0440945,0.285349,0.2588,0.362588,0.13116,0.11426,0.0225382,0.0257031,0.0223296,0.0499067,0.0532096,0.0277956,0.112247,0.0488565,0.253717,0.180009,0.000908836
}}
}}

Revision as of 20:55, 8 August 2012


Full id: C864_Chondrocyte_peripheral_Fibroblast_Adipocyte_mesenchymal_Neural_neuroectodermal



Phase1 CAGE Peaks

Hg19::chr9:117783091..117783132,-p@chr9:117783091..117783132
-
Hg19::chr9:117783287..117783299,-p@chr9:117783287..117783299
-
Hg19::chr9:117783514..117783525,-p@chr9:117783514..117783525
-
Hg19::chr9:117783537..117783549,-p@chr9:117783537..117783549
-
Hg19::chr9:117786308..117786326,-p@chr9:117786308..117786326
-
Hg19::chr9:117840275..117840294,-p@chr9:117840275..117840294
-
Hg19::chr9:117840455..117840470,-p@chr9:117840455..117840470
-
Hg19::chr9:117844157..117844171,-p@chr9:117844157..117844171
-
Hg19::chr9:117880424..117880443,-p1@TNC
Hg19::chr9:117880477..117880491,-p2@TNC


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>


Cell Type
Ontology termp-valuen
non-terminally differentiated cell9.94e-21180
fibroblast2.11e-1175
skin fibroblast1.28e-0823
Uber Anatomy
Ontology termp-valuen
organism subdivision8.16e-18365
multi-cellular organism5.10e-17659
surface structure2.33e-1495
anatomical system5.65e-13625
multi-tissue structure7.90e-13347
anatomical group1.06e-12626
multilaminar epithelium4.72e-1182
embryo1.38e-10612
somite2.27e-1083
paraxial mesoderm2.27e-1083
presomitic mesoderm2.27e-1083
presumptive segmental plate2.27e-1083
trunk paraxial mesoderm2.27e-1083
presumptive paraxial mesoderm2.27e-1083
embryonic structure2.37e-10605
developing anatomical structure2.37e-10605
germ layer4.85e-10604
embryonic tissue4.85e-10604
presumptive structure4.85e-10604
epiblast (generic)4.85e-10604
integument6.07e-1045
integumental system6.07e-1045
skin of body9.95e-0940
trunk mesenchyme2.86e-08143
dermomyotome5.43e-0870
trunk1.03e-07216
epithelium1.66e-07309
cell layer2.79e-07312
ectoderm6.41e-07173
presumptive ectoderm6.41e-07173
organ9.92e-07511


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.