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Coexpression cluster:C3785: Difference between revisions

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|full_id=C3785_Osteoblast_Adipocyte_Mesenchymal_Melanocyte_embryonic_melanoma_Smooth
|full_id=C3785_Osteoblast_Adipocyte_Mesenchymal_Melanocyte_embryonic_melanoma_Smooth
|id=C3785
|id=C3785
|ontology_enrichment_celltype=CL:0002321!1.38e-13!248;CL:0000220!1.79e-13!246;CL:0000222!8.11e-12!119;CL:0000183!2.89e-11!59;CL:0000055!2.15e-10!180;CL:0000187!1.12e-09!54;CL:0000393!1.29e-09!60;CL:0000211!1.29e-09!60;CL:0000680!1.39e-09!57;CL:0000056!1.39e-09!57;CL:0000355!1.39e-09!57;CL:0000192!7.76e-09!42;CL:0000514!7.76e-09!42;CL:0000359!1.30e-07!32
|ontology_enrichment_celltype=CL:0002321!6.42e-12!250;CL:0000222!1.24e-10!121;CL:0000183!2.70e-10!59;CL:0000393!3.26e-09!61;CL:0000211!3.26e-09!61;CL:0000055!4.32e-09!106;CL:0000187!4.57e-09!55;CL:0000680!6.66e-09!58;CL:0000056!6.66e-09!58;CL:0000355!6.66e-09!58;CL:0000192!1.39e-08!43;CL:0000514!1.39e-08!43;CL:0000359!2.19e-07!32
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002100!2.47e-13!216;UBERON:0000486!1.16e-12!82;UBERON:0004290!9.01e-12!70;UBERON:0004872!2.15e-11!84;UBERON:0000490!5.23e-11!138;UBERON:0005256!1.04e-10!143;UBERON:0001134!1.12e-10!61;UBERON:0002036!1.12e-10!61;UBERON:0003082!1.12e-10!61;UBERON:0002385!1.71e-10!63;UBERON:0001015!1.71e-10!63;UBERON:0000383!1.71e-10!63;UBERON:0003914!1.78e-10!118;UBERON:0001637!2.09e-10!42;UBERON:0003509!2.09e-10!42;UBERON:0004572!2.09e-10!42;UBERON:0001981!4.62e-10!60;UBERON:0007500!4.62e-10!60;UBERON:0004537!4.62e-10!60;UBERON:0006965!4.62e-10!60;UBERON:0003104!4.75e-10!238;UBERON:0009142!4.75e-10!238;UBERON:0000055!5.75e-10!69;UBERON:0000914!6.01e-09!83;UBERON:0002329!6.01e-09!83;UBERON:0003077!6.01e-09!83;UBERON:0003059!6.01e-09!83;UBERON:0007282!6.01e-09!83;UBERON:0009618!6.01e-09!83;UBERON:0007285!6.01e-09!83;UBERON:0002049!8.95e-09!79;UBERON:0007798!8.95e-09!79;UBERON:0004573!7.04e-08!33;UBERON:0004571!7.04e-08!33;UBERON:0000926!3.05e-07!448;UBERON:0004120!3.05e-07!448;UBERON:0006603!3.05e-07!448
|ontology_enrichment_uberon=UBERON:0002100!2.32e-13!199;UBERON:0007503!1.06e-12!78;UBERON:0000475!1.33e-11!264;UBERON:0000486!1.39e-11!83;UBERON:0005256!2.71e-11!122;UBERON:0002329!3.73e-11!71;UBERON:0003059!3.73e-11!71;UBERON:0007282!3.73e-11!71;UBERON:0004290!3.73e-11!71;UBERON:0009618!3.73e-11!71;UBERON:0000490!7.51e-11!148;UBERON:0007524!8.52e-11!73;UBERON:0003077!8.65e-11!72;UBERON:0007285!8.65e-11!72;UBERON:0004872!8.82e-11!83;UBERON:0003104!9.62e-11!160;UBERON:0009142!9.62e-11!160;UBERON:0002385!2.98e-10!64;UBERON:0001015!2.98e-10!64;UBERON:0000383!2.98e-10!64;UBERON:0001134!3.34e-10!62;UBERON:0002036!3.34e-10!62;UBERON:0003082!3.34e-10!62;UBERON:0001637!5.32e-10!42;UBERON:0003509!5.32e-10!42;UBERON:0004572!5.32e-10!42;UBERON:0007500!9.49e-10!59;UBERON:0001981!9.49e-10!59;UBERON:0004537!9.49e-10!59;UBERON:0006965!9.49e-10!59;UBERON:0000055!1.47e-09!68;UBERON:0003914!2.92e-09!117;UBERON:0002049!1.30e-08!78;UBERON:0007798!1.30e-08!78;UBERON:0000926!1.93e-08!315;UBERON:0004120!1.93e-08!315;UBERON:0006603!1.93e-08!315;UBERON:0004573!1.89e-07!33;UBERON:0004571!1.89e-07!33
|tfbs_overrepresentation=0.0114172,0.0586687,0.35968,0.0477154,0.199763,0.0050633,0.0430074,0.414564,0.03272,0.0257057,0.139423,0.225367,0.188771,0.125978,0.0116452,0.0619003,0.140982,0.0982016,0.0528514,0.108057,0.188635,0.132577,0.081977,0.0948982,0.0415721,0.215492,0.209392,0.0907212,0.143747,0.0933697,0.204953,0.114046,0.0180314,0.208242,0.0665252,0.00367271,0.688181,0.0429682,0.120351,0.0667043,0.0964797,0.0246116,0.140039,0.184019,0.120917,0.0362416,0.0380166,0.18151,0.111283,0.121201,0.154071,0.0541794,0.0701653,0.0929951,0.198787,0.0384161,0.107455,0.212709,0.0783235,0.105572,0.0294301,0.0117644,0.108602,0.00295997,0.054569,0.0504887,0.352278,0.0600088,0.0860723,0.0148026,0.378921,0.067678,0.089036,0.119383,0.00747605,0.0171177,0.0964936,0.0436945,0.0372495,0.00725252,0.0956287,0.0279481,0.0425,0.114846,0.291327,0.251834,0.064341,0.209032,0.608896,0.062747,0.0857568,0.0495878,0.0953825,0.0473737,0.0853887,0.115028,0.58489,0.153631,0.0927458,0.27413,0.0574857,0.276221,0.141874,0.0370665,0.219088,0.0409286,0.0669887,0.0649715,0.144217,0.269326,0.182599,0.0339971,0.149552,0.0176855,0.101221,0.0337525,0.0203386,0.0566549,0.139021,0.00361707,0.16671,0.214708,0.0103109,0.0857827,0.102368,0.176912,0.0906875,0.0147934,0.0843604,0.134932,0.0595773,0.0748346,0.0572164,0.0227861,0.125792,0.108101,0.0648644,0.0553359,0.0330399,0.00395526,0.022776,0.127606,0.203923,0.155998,0.596561,0.0693171,0.0988228,0.0842275,0.0389418,0.120833,0.200647,0.143677,0.180712,0.0265818,0.0427088,0.117549,0.0747594,0.0283286,0.0516985,0.0337251,0.00237216,0.0952829,0.116642,0.147788,0.273479,0.00679439,0.0400322,0.127369,0.0403542,0.312091,0.179689,0.137725,0.46397,0.0541353,0.0799324,0.090079,0.140334,0.181817,0.0169639,0.0356339,0.158844,0.122474,0.0274061,0.115574,0.0737247,0.118847,0.183031,0.0401756,0.0828697,0.173562,0.107145,0.187297,0.122935,0.228812,0.112671,0.0470731,0.0782523,0.0602859,0.0676496,0.109673,0.0893019,0.060398,0.0308319,0.0606036,0.136451,0.037005,0.27358,0.15185,0.206299,0.178359,0.0458667,0.104357,0.121154,0.1129,0.312578,0.169057,0.164202,0.100942,0.062995,0.10299,0.14193,0.37245,0.0128655,0.161026,0.0738599,0.126611,0.138852,0.085973,0.060453,0.059896,0.569726,0.384785,0.0418404,0.0765029,0.0959204,0.0931946,0.0472272,0.263087,0.163502,0.214803,0.182472,0.348993,0.0983991,0.0830921,0.116283,1.73724e-05,0.0815104,0.111647,0.372804,0.117027,0.159052,0.0183114,0.185743,0.0980288,0.0980899,0.159674,0.00596775,0.201859,0.0695832,0.21774,0.0619218,0.0163125,0.163376,0.128096,0.0345133,0.0810678,0.0811639,0.0920653,0.118078,0.0755168,0.278352,0.063292,0.254773,0.446759,0.0865903,0.0380459,0.130174,0.219944,0.355018,0.451377,0.268011,0.563047,0.517782,0.0853552,0.335423,0.261644,0.261553,0.446302,0.373681,0.053682,0.147559,0.330703,0.0146881,0.329568,0.53472,0.615744,0.271958,0.292154,0.405773,0.39729,0.0121013,0.230901,0.187251,0.362792,0.181715,0.423979,0.109988,0.0620388,0.218329,0.427027,0.0821552,0.463191,0.647576,0.173877,0.168255,0.0792797,0.101703,0.142924,0.253571,0.276829,0.301787,0.481778,0.00695027,0.0270783,0.0340949,0.603208,0.283727,0.314747,0.577664,0.0474194,0.120054,0.576651,0.416816,0.292835,0.476744,0.0210941,0.373868,0.57762,0.608919,0.18237,0.706298,0.248484,0.0512465,0.0419647,0.236471,0.185661,0.346319,0.535598,0.270984,0.258117,0.503058,0.0367769,0.0389686,0.248634,0.281576,0.472384,0.163244,0.0670502,0.0730934,0.0182356,0.230427,0.421596,0.217247,0.1002,0.305671,0.546839,0.0477082,0.448039,0.218623,0.312808,0.695172,0.0451077,0.0747529,0.229003,0.28275,0.061213,0.154921,0.294698,0.0671437,0.138202,0.0465597,0.327108,0.683186,0.278044,0.490301,0.428671,0.228096,0.336314,0.19763,0.15631,0.20495,0.421464,0.48267,0.420626,0.516462,0.582303,0.335105,0.144809,0.0111455,0.0134194,0.0818086,0.447325,0.127215,0.252232,0.152681,0.0465712,0.137098,0.259235,0.134788,0.0985856,0.546222,0.293698,0.284593,0.343734,0.306556,0.305777,0.601433,0.503082,0.522888,0.284629,0.262537,0.0741332,0.226257,0.405955,0.41707,0.363685,0.130283,0.0538047,0.206222,0.525396,0.651524,0.113671,0.269226,0.339277,0.552319,0.281425,0.141758,0.124432,0.168058,0.159617,0.238587,0.372281,0.0293409,0.189515,0.0891382,0.0595618,0.524997,0.625309,0.347298,0.182325,0.34988,0.136757,0.404569,0.273024,0.630264,0.316179,0.0697683,0.0556835,0.192544,0.0779981,0.0575676,0.010955,0.223391,0.0223093,0.442884,0.441735,0.191777,0.111931,0.28934,0.0435386,0.0515253,0.126478,0.134852,0.10689,0.273326,0.0627924,0.381386,0.0179103,0.303939,0.279795,0.390395,0.0464827,0.169603,0.114583,0.00566743,0.0899537,0.0866966,0.15983,0.107111,0.0438639,0.00389058,0.123593,0.129156,0.210369,0.0200986,0.346372,0.0499762,0.0828956,0.0666953,0.182185,0.111277,0.00210526,0.062811,0.19559,0.132201,0.188694,0.0481795,0.199971,0.406014,0.127758,0.175785,0.184486,0.015204,0.0876426,0.0952322,0.0112557,0.222432,0.107043,0.275244,0.00481323,0.173708,0.141119,0.211595,0.0300692,0.131551,0.0445237,0.052362,0.208866,0.000676703,0.0797897,0.0974211,0.160149,0.123526,0.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0906475,0.0558058,0.28262,0.0377931,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.00330134,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.00160873,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.0178982,0.000337112,0.108872,0.11002,0.0376172,0.0286025,0.549354,0.0109933,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.217069,0.190048,0.131088,0.394069,0.237101,0.286988,0.0761239,0.172491,0.0818785,0.182701,0.335058,0.147698,0.141463,0.0148418,0.140622,0.0889592,0.309588,0.0458479,0.0473033,0.094881,0.118532,0.132886,0.0774373,0.109194,0.128564,1.46889e-05,0.112518,0.448776,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.739716,0.655293,0.21727,0.289306,0.119215,0.192475,0.177967,0.547859,0.057571,0.047591,0.0899568,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.175094,0.43617,0.519327,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.00631005,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.0298844,0.0759837,0.286863,0.152372,0.194941,0.218271,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.148574,0.504592,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.0126914,0.170295,0.193653,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.01625,0.0948451,0.264079,0.0339656,0.140533,0.0997756,0.0364628,0.103667,0.113069,0.025556,0.16791,0.09066,0.585505,0.0147868,0.188651,0.0813902,0.184948,0.156261,0.311847,0.511859,0.0590944,0.247324,0.178389,0.218229,0.231073,0.407281,0.619906,0.0360851,0.0998546,0.131093,0.0434602,0.133616,0.418146,0.36927,0.120614,0.407369,0.231447,0.544776,0.115047,0.37006,0.10748,0.448797,0.197484,0.0919774,0.36145,0.406019,0.381071,0.580441,0.643768,0.432035,0.722159,0.390366,0.48809,0.50058,0.443185,0.522904,0.3468,0.871256,0.227104,0.518585,0.617852,0.38649,0.284625,0.504757,0.192225,0.729153,0.28907,0.164197,0.462688,0.287881,0.574635,0.478174,0.336276,0.468444,0.258219,0.119142,0.243383,0.442897,0.390974,0.382874,0.683217,0.161598,0.405056,0.277094,0.496032,0.476802,0.37357,0.454657,0.477353,0.78384,0.746954,0.43491,0.20342,0.200493,0.20558,0.300504,0.25656,0.425963,0.349197,0.383291,0.156104,0.141318,0.0168417,0.0961477,0.314438,0.354789,0.163828,0.230581,0.120226,0.28424,0.0513026,0.0556238,0.181415,0.282286,0.446891,0.24884,0.0978616,0.165147,0.322213,0.656109,0.33942,0.243065,0.0871388,0.169614,0.481611,0.537348,0.222037,0.416621,0.10205,0.462712,0.382478,0.579431,0.204817,0.452428,0.138871,0.673493,0.166905,0.0210039,0.0833851,0.056391,0.48065,0.175199,0.0628556,0.373557,0.0393909,0.408861,0.365487,0.534741,0.0140668,0.363192,0.236011,0.203486,0.0413386,0.0816179,0.119167,0.351067,0.275347,0.269604,0.305885,0.241132,0.371414,0.30666,0.303709,0.495883,0.386538,0.035296,0.250964,0.383276,0.125961,0.504711,0.220231,0.509064,0.196976,0.191517,0.0254647,0.235208,0.307334,0.459728,0.283463,0.201728,0.0272975,0.399569,0.0413011,0.368095,0.275089,0.0858306,0.138622,0.359231,0.339729,0.197805,0.608187,0.0870376,0.0627969,0.173874,0.299887,0.634365,0.0227114,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.0269454,0.0664606,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.00449563,0.12405,0.179889,0.226869,0.27872,0.0855609,0.131118,0.20837,0.0335483,0.222339,0.0673329,0.20847,0.0391817,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.350452,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.0132793,0.220319,0.195218,0.00805527,0.0370716,0.30793,0.180606,0.159884,0.0363723,0.150733,0.0254879,0.123917,0.0181384,0.185335,0.0723291,0.00356871,0.261744,0.203781,0.21382,0.207559,0.141867,0.193031,0.0339803,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.0315594,0.156465,0.000416207,0.256963,0.0269005,0.172134,0.176789,0.0969345,0.202137,0.0541163,0.0437875,0.218161,0.0822373,0.0219487,0.106739,0.0536053,0.0537737,0.0120432,0.078016,0.0407233,0.0537355,0.0577193,0.261724,0.211332,0.187731,0.0297055,0.189559,0.0812887,0.00497886,0.00210274,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.0488311,0.286691,0.347036,0.141729,0.0037817,0.255956,0.200105,0.227491,0.00569858,0.0352561,0.177664,0.0446853,0.264413,0.131761,0.160658,0.206239,0.0015491,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.0607319,0.225752,0.0232618,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.0406636,0.071111,0.0404514,0.1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}}
}}

Revision as of 15:24, 19 October 2012


Full id: C3785_Osteoblast_Adipocyte_Mesenchymal_Melanocyte_embryonic_melanoma_Smooth



Phase1 CAGE Peaks

Hg19::chr19:3978083..3978133,-p@chr19:3978083..3978133
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Hg19::chr19:3983156..3983231,-p@chr19:3983156..3983231
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Hg19::chr22:24236927..24236999,+p3@MIF


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
trunk2.32e-13199
epithelial vesicle1.06e-1278
organism subdivision1.33e-11264
multilaminar epithelium1.39e-1183
trunk mesenchyme2.71e-11122
somite3.73e-1171
presomitic mesoderm3.73e-1171
presumptive segmental plate3.73e-1171
dermomyotome3.73e-1171
trunk paraxial mesoderm3.73e-1171
unilaminar epithelium7.51e-11148
dense mesenchyme tissue8.52e-1173
paraxial mesoderm8.65e-1172
presumptive paraxial mesoderm8.65e-1172
splanchnic layer of lateral plate mesoderm8.82e-1183
mesenchyme9.62e-11160
entire embryonic mesenchyme9.62e-11160
muscle tissue2.98e-1064
musculature2.98e-1064
musculature of body2.98e-1064
skeletal muscle tissue3.34e-1062
striated muscle tissue3.34e-1062
myotome3.34e-1062
artery5.32e-1042
arterial blood vessel5.32e-1042
arterial system5.32e-1042
epithelial tube open at both ends9.49e-1059
blood vessel9.49e-1059
blood vasculature9.49e-1059
vascular cord9.49e-1059
vessel1.47e-0968
epithelial tube2.92e-09117
vasculature1.30e-0878
vascular system1.30e-0878
mesoderm1.93e-08315
mesoderm-derived structure1.93e-08315
presumptive mesoderm1.93e-08315
systemic artery1.89e-0733
systemic arterial system1.89e-0733


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.

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