Personal tools

Coexpression cluster:C1194: 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:0000481!1.77e-15!347;UBERON:0000119!5.25e-13!312;UBERON:0000483!1.52e-12!309;UBERON:0003103!2.89e-12!69;UBERON:0005256!3.35e-12!143;UBERON:0000468!9.03e-12!659;UBERON:0000475!2.90e-11!365;UBERON:0002553!5.70e-10!70;UBERON:0003886!1.87e-09!63;UBERON:0000064!3.17e-09!219;UBERON:0000477!4.09e-09!286;UBERON:0004876!4.22e-09!20;UBERON:0000914!5.99e-09!83;UBERON:0002329!5.99e-09!83;UBERON:0003077!5.99e-09!83;UBERON:0003059!5.99e-09!83;UBERON:0007282!5.99e-09!83;UBERON:0009618!5.99e-09!83;UBERON:0007285!5.99e-09!83;UBERON:0000080!1.71e-08!18;UBERON:0002120!1.71e-08!18;UBERON:0004875!1.71e-08!18;UBERON:0005721!1.71e-08!18;UBERON:0005754!1.71e-08!18;UBERON:0007297!1.71e-08!18;UBERON:0002100!2.34e-08!216;UBERON:0006555!3.49e-08!17;UBERON:0005103!3.49e-08!17;UBERON:0000083!3.49e-08!17;UBERON:0009201!3.49e-08!17;UBERON:0004819!3.49e-08!17;UBERON:0006553!3.49e-08!17;UBERON:0003074!3.49e-08!17;UBERON:0003060!3.49e-08!17;UBERON:0000922!4.32e-08!612;UBERON:0004111!6.12e-08!241;UBERON:0007100!8.40e-08!27;UBERON:0004211!1.42e-07!16;UBERON:0001285!1.42e-07!16;UBERON:0007684!1.42e-07!16;UBERON:0003220!1.42e-07!16;UBERON:0004208!1.42e-07!16;UBERON:0003887!2.36e-07!21;UBERON:0003064!2.44e-07!37;UBERON:0000464!3.48e-07!104;UBERON:0000924!5.64e-07!173;UBERON:0006601!5.64e-07!173;UBERON:0007023!5.69e-07!115;UBERON:0002050!6.98e-07!605;UBERON:0005423!6.98e-07!605;UBERON:0003135!8.15e-07!11;UBERON:0004290!9.70e-07!70
|ontology_enrichment_uberon=UBERON:0000481!1.77e-15!347;UBERON:0000119!5.25e-13!312;UBERON:0000483!1.52e-12!309;UBERON:0003103!2.89e-12!69;UBERON:0005256!3.35e-12!143;UBERON:0000468!9.03e-12!659;UBERON:0000475!2.90e-11!365;UBERON:0002553!5.70e-10!70;UBERON:0003886!1.87e-09!63;UBERON:0000064!3.17e-09!219;UBERON:0000477!4.09e-09!286;UBERON:0004876!4.22e-09!20;UBERON:0000914!5.99e-09!83;UBERON:0002329!5.99e-09!83;UBERON:0003077!5.99e-09!83;UBERON:0003059!5.99e-09!83;UBERON:0007282!5.99e-09!83;UBERON:0009618!5.99e-09!83;UBERON:0007285!5.99e-09!83;UBERON:0000080!1.71e-08!18;UBERON:0002120!1.71e-08!18;UBERON:0004875!1.71e-08!18;UBERON:0005721!1.71e-08!18;UBERON:0005754!1.71e-08!18;UBERON:0007297!1.71e-08!18;UBERON:0002100!2.34e-08!216;UBERON:0006555!3.49e-08!17;UBERON:0005103!3.49e-08!17;UBERON:0000083!3.49e-08!17;UBERON:0009201!3.49e-08!17;UBERON:0004819!3.49e-08!17;UBERON:0006553!3.49e-08!17;UBERON:0003074!3.49e-08!17;UBERON:0003060!3.49e-08!17;UBERON:0000922!4.32e-08!612;UBERON:0004111!6.12e-08!241;UBERON:0007100!8.40e-08!27;UBERON:0004211!1.42e-07!16;UBERON:0001285!1.42e-07!16;UBERON:0007684!1.42e-07!16;UBERON:0003220!1.42e-07!16;UBERON:0004208!1.42e-07!16;UBERON:0003887!2.36e-07!21;UBERON:0003064!2.44e-07!37;UBERON:0000464!3.48e-07!104;UBERON:0000924!5.64e-07!173;UBERON:0006601!5.64e-07!173;UBERON:0007023!5.69e-07!115;UBERON:0002050!6.98e-07!605;UBERON:0005423!6.98e-07!605;UBERON:0003135!8.15e-07!11;UBERON:0004290!9.70e-07!70
|tfbs_overrepresentation=0.31043,0.131575,0.175552,0.107813,0.405466,0.00877505,0.0974871,0.131367,0.0746874,0.0589549,0.295561,3.74038e-05,0.386236,0.269614,0.313114,0.138515,0.298536,0.214302,0.119001,0.234193,0.385995,0.282418,0.180923,0.20757,0.0943256,0.432377,0.422025,0.199011,0.303793,0.204444,6.13662e-09,0.246136,0.0415685,0.104091,0.148393,0.186108,0.511045,0.097401,1.55882e-05,0.0116605,0.210798,0.0564873,0.296737,0.377815,0.259708,0.0825288,0.0864669,0.0120333,0.0316035,0.260266,0.323223,0.12188,0.156121,0.203677,0.403772,0.0873518,0.232986,0.427667,0.173296,0.229205,0.0673274,0.314503,0.235283,0.168316,0.122724,0.113864,0.637,0.134457,0.189423,0.34721,0.00566941,0.150845,0.195543,0.25669,0.0173573,0.0394864,0.210826,0.0989984,0.0847661,0.0168408,0.209062,0.451469,0.0963703,0.247724,0.0479284,0.491847,0.143736,0.421411,0.000455356,0.140328,0.18877,0.111901,0.208559,0.107066,0.188008,0.248084,1.04894e-05,0.322402,0.203166,0.00721151,0.129026,0.00743578,0.300234,0.0843602,0.438429,0.0929061,0.149379,0.618184,0.304684,0.519136,0.375285,0.0775356,0.314757,0.0407805,0.220427,0.0769904,0.0468147,0.127234,0.294794,0.184794,0.346582,0.431052,0.296899,0.188824,0.222747,0.365096,0.198942,0.034178,0.185876,0.286955,0.133529,0.165976,0.128445,0.0523619,0.269253,0.234279,0.144853,0.124383,0.0754012,0.00920461,0.052339,0.272785,0.412653,0.326814,1.40333e-05,0.154324,0.215565,0.1856,0.0885156,0.259543,0.406997,0.30366,0.371915,0.0609284,0.0968299,0.253074,0.165818,0.00345707,0.116496,0.0769293,0.452804,0.208356,0.251281,0.311437,0.525489,0.246608,0.0909267,0.272323,0.0916381,0.217617,0.370083,0.292316,0.0165359,0.121785,0.17666,0.197691,0.297301,0.00138115,0.367859,0.00338793,0.062524,0.262763,0.0627829,0.249166,0.16364,0.255634,0.376054,0.0912436,0.18278,0.35905,0.232364,0.38363,0.263667,0.45461,0.243403,0.106408,0.173147,0.135052,0.150784,0.237426,0.196091,0.135293,0.0704675,0.135734,0.289872,0.503773,0.525644,0.319069,0.416735,0.367697,0.103767,0.226759,0.260173,0.243859,0.58295,0.350868,0.341984,0.219863,0.140859,0.224003,0.300341,0.662833,0.32693,0.336135,0.163924,0.270849,0.294471,0.189218,0.135411,0.134214,0.860233,0.00614594,0.0949171,0.169481,0.209657,0.00167201,0.106746,0.160103,0.000901249,0.110275,0.375058,0.264811,0.214704,0.183242,0.25057,0.290614,0.179951,0.241366,0.663276,0.252043,0.332484,0.37985,0.380877,0.213951,0.214075,0.333636,0.232558,0.409093,0.154888,0.0561044,0.138561,0.361831,0.340466,0.273737,0.0786852,0.179028,0.179229,0.201771,0.254117,0.16741,0.0420038,0.141494,0.496492,0.748734,0.190495,0.0865316,0.27777,0.0185004,1.19859e-05,0.000339443,0.0905838,0.575229,1.24823e-08,1.39231e-07,0.614575,0.901417,0.507115,0.74825,0.664373,0.5782,0.793549,0.608158,0.691446,0.606605,0.832249,0.653093,0.523169,0.553463,0.342602,0.693154,0.86915,0.356189,0.38355,0.0900213,0.373708,0.723928,0.238054,0.60842,0.437154,0.727324,0.668415,0.00381025,0.0124206,0.523159,0.247087,0.660738,0.132335,0.00110048,0.494595,0.530579,0.567514,0.78429,0.589017,0.445808,0.485483,0.0229101,0.54096,0.586014,0.144908,0.552809,0.750148,0.324848,0.358319,0.554465,0.193985,0.741035,0.664607,0.596959,0.888154,0.374876,1.71206e-09,1.19849e-06,0.0172425,0.528337,0.131722,0.380732,0.62916,0.266616,0.521679,0.00924878,0.0832367,0.00763591,7.91707e-05,0.486761,0.00803386,0.775056,0.340223,0.14951,0.162309,0.379192,3.93108e-07,0.965193,9.71571e-06,0.352637,0.122101,0.550958,0.846076,0.000588636,0.437649,0.583275,0.00227743,0.102102,0.0145752,0.454926,1.5714e-10,6.32248e-05,1.61544e-07,0.557198,0.625165,0.194616,0.0469249,0.603229,0.28195,0.532418,0.00018816,0.144312,0.12325,0.61578,0.401761,0.327395,0.000201657,0.364981,0.20071,0.720163,0.816485,2.4148e-05,0.614145,0.305806,0.307188,0.0285046,0.00545818,0.749333,0.421029,0.492476,0.320625,0.10531,0.291113,0.0341622,0.286678,0.215083,0.841765,0.555733,0.542255,0.257904,0.574375,0.57326,0.632169,0.804417,0.514993,0.542308,0.508647,0.646316,0.450384,0.70335,0.716139,0.284394,0.0605919,1.89056e-06,0.416603,0.032158,0.0393875,0.387693,0.518983,0.0743294,0.0420981,0.537511,0.300014,0.414327,0.511399,0.33353,0.470604,0.662621,0.460268,0.0872721,0.195754,0.133496,0.823955,0.898787,0.630454,0.836153,0.633856,0.777717,0.0346222,0.908283,3.20492e-05,0.588029,0.15528,0.125135,0.0143138,0.172615,0.129203,0.304883,0.445623,0.412193,0.39601,0.00278282,0.39153,0.241931,0.54931,0.0986558,0.569749,0.270589,0.2868,0.00251305,0.0398415,0.140425,0.0010635,0.0412928,0.570618,0.535059,0.321004,0.105116,0.351863,0.247203,0.227166,0.197433,0.190714,0.0632636,0.232295,0.0993709,0.00905448,0.264955,0.275796,0.42369,0.394858,0.261362,0.112748,0.182834,0.148755,0.00012856,0.240628,0.438923,0.61103,0.398206,0.00471955,0.3861,0.108827,0.405826,0.123876,0.273081,0.363066,0.378645,0.00979049,0.192669,0.208253,0.0260665,0.444023,0.232159,0.040658,0.0111948,0.359315,0.298797,0.425775,0.0687597,0.280435,0.10082,0.117938,0.104673,0.321571,0.176362,0.212715,0.334514,0.264825,0.19886,0.125399,0.539304,0.0934171,0.0473683,0.0337354,0.146629,0.426032,0.440859,0.177111,0.167984,0.337564,0.394053,0.123448,0.17256,0.126216,0.0947479,0.0787488,0.0883646,6.6156e-07,0.353144,0.407665,0.11039,0.361507,0.660283,0.0754745,0.632378,0.00294979,0.0896836,0.133679,0.000348514,0.262768,0.235824,0.23812,0.158285,0.0654706,0.28545,0.305348,0.0883079,0.0197985,0.123717,0.3044,7.86653e-05,0.0203465,0.388488,0.27954,0.689314,0.468189,0.545823,0.168686,0.35711,0.180717,0.375467,0.00046087,0.000599002,0.299453,0.347601,0.297851,0.195385,0.578705,0.546003,0.106912,0.207535,0.000562912,0.283013,0.17144,0.236468,0.274647,0.280244,1.93391e-07,0.0525779,0.1168,0.216736,0.112879,0.138362,0.1674,0.205022,0.304414,0.0775871,0.1646,0.530976,0.0152373,0.239252,0.435374,0.54926,0.25636,0.392755,0.366993,0.0117982,0.12921,0.107541,0.688004,0.136306,0.362226,0.0524702,0.158567,0.0222704,0.00918791,0.0810658,0.268889,0.361819,0.000269589,1.36574e-05,0.417001,0.436925,0.234633,0.150144,0.235575,0.111506,0.209512,0.415762,0.167545,0.1033,0.238509,0.156356,0.450242,0.322099,0.0857464,0.282499,0.101873,0.121306,0.246526,0.203595,0.356991,0.227948,0.44271,0.128341,0.463619,0.168391,0.545636,0.320047,0.397073,0.437057,0.221207,0.00262518,0.358,0.621995,0.318595,0.140173,0.390753,0.312917,0.226734,0.326484,0.15977,0.201434,0.134947,0.304849,0.316782,0.212636,0.325012,0.071344,0.394821,0.291345,0.123298,0.147446,0.00881004,0.255995,0.184894,0.609179,0.244347,0.243363,0.382464,0.361244,0.207462,0.51104,0.487422,0.0495039,0.0255826,0.500934,0.225368,0.244195,0.0586175,0.00100298,0.198885,0.152926,0.347052,0.0865271,0.0172108,0.00147932,0.00075124,0.058337,0.812383,0.132491,0.00476451,0.367752,0.436987,0.458334,0.704893,4.28473e-11,0.0821811,0.71056,0.0433289,0.0984834,0.284421,0.71736,0.0239625,0.751141,0.00163422,0.458949,0.000638234,0.741039,0.659829,0.371825,0.750889,0.401507,0.692805,0.648881,0.34295,0.308086,0.330529,0.910041,0.00240373,0.0827443,0.00123728,0.0054033,0.000282743,0.744931,0.00859285,3.79648e-06,1.14334e-05,0.451787,0.50853,0.00826896,0.680172,0.184591,0.226936,0.846379,0.0359763,0.54891,0.341975,0.765292,0.188404,0.863925,0.019419,0.016431,0.771117,0.501908,0.401378,0.478352,1.90228e-07,0.030166,2.23842e-05,2.48421e-05,0.0645985,1.97816e-09,0.434172,0.0236217,6.16223e-10,0.297799,2.61628e-07,0.0674092,0.152328,3.17739e-05,0.0248423,0.411785,0.40673,0.415502,0.00168957,0.499305,0.726141,0.632958,0.0278466,0.327011,0.299176,0.0088028,0.210121,0.00213841,1.19994e-05,0.341296,0.457524,0.258349,0.541728,0.130195,0.585566,0.373172,0.181869,1.3229e-09,0.00218063,0.125952,0.029342,0.0640951,0.240432,0.619962,0.072382,0.108385,0.514569,0.0891032,0.0103387,0.443364,0.715629,0.357569,0.00378415,9.51665e-05,0.599651,0.41419,0.409987,0.294507,0.00153254,8.22035e-05,0.40211,0.183851,0.0608535,0.198404,0.362009,0.611179,0.664218,0.516101,0.706724,0.654039,0.265466,0.321679,0.651111,0.466416,0.000226378,0.525367,0.667,0.748565,0.635414,0.528332,0.00307737,0.0551791,0.474724,0.661532,0.574524,0.570287,0.797742,2.58812e-05,0.00161631,0.490466,0.676249,0.760368,0.487711,0.115502,0.0873023,0.400622,0.391073,0.766374,0.001713,0.575489,0.175413,0.540565,0.576036,0.775603,0.695855,0.171531,0.657348,0.52794,0.67786,0.447731,0.646027,0.620377,0.402066,1.8702e-05,0.31638,0.070317,0.0331326,0.564763,0.904403,0.415214,0.364157,0.0157993,0.53064,0.415017,0.0769041,0.387804,0.502902,0.385339,0.159832,0.512288,0.338978,0.390233,0.339879,0.438999,0.41967,0.197678,0.208523,0.34551,0.4924,0.304359,7.98892e-06,0.418843,0.0135943,0.369586,0.394729,0.441472,0.444932,0.00329774,0.580249,0.436618,0.403472,0.382758,0.264429,0.404954,1.39972e-06,0.00167826,0.265849,0.370442,0.451398,0.00114376,0.188364,0.279598,0.420279,0.485091,0.443868,0.150111,0.420451,0.514853,0.244241,0.307495,0.455626,0.0086299,0.454846,0.350305,0.0875262,0.147486,0.117583,0.103076,0.518238,0.0979857,0.634608,0.324846,0.25829,0.215261,0.235004,0.133496,0.433115,0.331422,0.440492,1.52663e-05,0.266168,0.00079261,0.57634,0.0797171,0.334024,0.500457,0.316975,0.435107,0.26559,0.378345,0.380153,0.160696,0.155054,0.507413,0.412407,0.42955,0.418893,0.300222,0.393729,0.487504,0.249956,0.447581,0.482721,0.35808,0.406625,0.296254,0.400859,0.473667,0.327684,0.279523,0.153383,0.444635,0.356463,0.364875,0.211724,0.409573,0.579867,0.180313,0.436872,0.181464,0.40945,0.231548,0.120636,0.121001,0.317719,0.172653,0.0924531,0.120918,0.593272,0.000826149,0.425328,0.384398,0.462521,0.387627,0.179489,0.214126,0.143317,0.261663,0.000542575,0.227254,0.147968,0.168955,0.274981,0.236422,0.0999117,0.149301,0.196723,0.0836477,0.287028,0.413461,0.558766,0.545381,0.630108,0.299959,0.509613,0.498355,0.406059,0.452427,0.0101463,0.494497,0.366448,0.540845,0.00623574,0.280842,0.335456,0.0175128,0.404559,0.545676,0.467154,0.065788,0.249647,0.43669,0.446356,0.248584,0.397145,0.390152,0.537963,0.182951,0.488863,0.342785,0.0223821,0.20487,0.603936,0.449548,0.41929,0.209566,0.189123,0.588995,0.355645,0.332105,0.0389799,0.158122,0.521096,0.220023,0.0218866,0.363335,0.329186,0.111136,0.493369,0.416144,0.281368
}}
}}

Revision as of 16:59, 8 August 2012


Full id: C1194_skeletal_large_diaphragm_throat_trachea_testicular_tongue



Phase1 CAGE Peaks

Hg19::chr14:101398219..101398220,+p@chr14:101398219..101398220
+
Hg19::chrX:105066342..105066377,+p5@NRK
Hg19::chrX:105066381..105066395,+p6@NRK
Hg19::chrX:105066499..105066514,+p2@NRK
Hg19::chrX:105066524..105066552,+p1@NRK
Hg19::chrX:105066554..105066569,+p3@NRK
Hg19::chrX:105066764..105066790,+p4@NRK


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
epithelial cell of nephron1.42e-0716
Uber Anatomy
Ontology termp-valuen
multi-tissue structure1.77e-15347
cell layer5.25e-13312
epithelium1.52e-12309
compound organ2.89e-1269
trunk mesenchyme3.35e-12143
multi-cellular organism9.03e-12659
organism subdivision2.90e-11365
anatomical cavity5.70e-1070
body cavity precursor1.87e-0963
organ part3.17e-09219
anatomical cluster4.09e-09286
urogenital ridge4.22e-0920
somite5.99e-0983
paraxial mesoderm5.99e-0983
presomitic mesoderm5.99e-0983
presumptive segmental plate5.99e-0983
trunk paraxial mesoderm5.99e-0983
presumptive paraxial mesoderm5.99e-0983
mesonephros1.71e-0818
pronephros1.71e-0818
nephrogenic cord1.71e-0818
pronephric mesoderm1.71e-0818
rostral part of nephrogenic cord1.71e-0818
presumptive pronephric mesoderm1.71e-0818
trunk2.34e-08216
excretory tube3.49e-0817
mesonephric epithelium3.49e-0817
mesonephric tubule3.49e-0817
nephric duct3.49e-0817
kidney epithelium3.49e-0817
renal duct3.49e-0817
mesonephric duct3.49e-0817
pronephric duct3.49e-0817
embryo4.32e-08612
anatomical conduit6.12e-08241
primary circulatory organ8.40e-0827
nephron epithelium1.42e-0716
nephron1.42e-0716
uriniferous tubule1.42e-0716
metanephric mesenchyme1.42e-0716
nephrogenic mesenchyme1.42e-0716
intraembryonic coelom2.36e-0721
intermediate mesoderm2.44e-0737
anatomical space3.48e-07104
ectoderm5.64e-07173
presumptive ectoderm5.64e-07173
adult organism5.69e-07115
embryonic structure6.98e-07605
developing anatomical structure6.98e-07605
male reproductive organ8.15e-0711
dermomyotome9.70e-0770


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:C1194&oldid=1987676"