Personal tools

Coexpression cluster:C793: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 5: Line 5:
|ontology_enrichment_disease=DOID:162!4.01e-15!235;DOID:2531!5.60e-15!51;DOID:0060083!5.60e-15!51;DOID:14566!6.07e-14!239;DOID:1240!1.04e-11!39;DOID:0050686!3.19e-09!137;DOID:8692!1.30e-08!31;DOID:0050687!6.61e-08!143
|ontology_enrichment_disease=DOID:162!4.01e-15!235;DOID:2531!5.60e-15!51;DOID:0060083!5.60e-15!51;DOID:14566!6.07e-14!239;DOID:1240!1.04e-11!39;DOID:0050686!3.19e-09!137;DOID:8692!1.30e-08!31;DOID:0050687!6.61e-08!143
|ontology_enrichment_uberon=UBERON:0001049!6.75e-13!57;UBERON:0005068!6.75e-13!57;UBERON:0006241!6.75e-13!57;UBERON:0007135!6.75e-13!57;UBERON:0000073!1.29e-10!94;UBERON:0001016!1.29e-10!94;UBERON:0001017!3.72e-10!82;UBERON:0005743!3.75e-10!86;UBERON:0002346!8.56e-10!90;UBERON:0002020!1.73e-09!34;UBERON:0003528!1.73e-09!34;UBERON:0000955!1.78e-09!69;UBERON:0006238!1.78e-09!69;UBERON:0001893!1.93e-09!34;UBERON:0002791!5.85e-09!33;UBERON:0003075!7.81e-09!86;UBERON:0007284!7.81e-09!86;UBERON:0002616!9.35e-09!59;UBERON:0002780!1.31e-08!41;UBERON:0001890!1.31e-08!41;UBERON:0006240!1.31e-08!41;UBERON:0001869!2.33e-08!32;UBERON:0003080!4.40e-08!42;UBERON:0007023!2.21e-07!115
|ontology_enrichment_uberon=UBERON:0001049!6.75e-13!57;UBERON:0005068!6.75e-13!57;UBERON:0006241!6.75e-13!57;UBERON:0007135!6.75e-13!57;UBERON:0000073!1.29e-10!94;UBERON:0001016!1.29e-10!94;UBERON:0001017!3.72e-10!82;UBERON:0005743!3.75e-10!86;UBERON:0002346!8.56e-10!90;UBERON:0002020!1.73e-09!34;UBERON:0003528!1.73e-09!34;UBERON:0000955!1.78e-09!69;UBERON:0006238!1.78e-09!69;UBERON:0001893!1.93e-09!34;UBERON:0002791!5.85e-09!33;UBERON:0003075!7.81e-09!86;UBERON:0007284!7.81e-09!86;UBERON:0002616!9.35e-09!59;UBERON:0002780!1.31e-08!41;UBERON:0001890!1.31e-08!41;UBERON:0006240!1.31e-08!41;UBERON:0001869!2.33e-08!32;UBERON:0003080!4.40e-08!42;UBERON:0007023!2.21e-07!115
|tfbs_overrepresentation=0.411972,0.182524,0.985107,0.150384,0.524232,0.67741,0.136302,0.832146,0.104964,0.0831451,0.393776,0.573106,0.502096,0.361626,0.41524,0.191841,0.39743,0.291459,0.165563,0.316944,0.501818,0.377553,0.248068,0.282771,0.131976,0.554695,0.543049,0.271678,0.403871,0.278725,0.534439,0.332112,0.0588503,0.540828,0.205046,0.254859,0.979441,0.136184,0.347824,0.205554,0.28694,0.0797086,0.395221,0.492309,0.00960756,0.115779,0.121196,0.487087,0.325142,0.349923,0.427495,0.169456,0.215332,0.277731,0.522294,0.122412,0.315406,0.549408,0.238047,0.31058,0.094776,0.416928,0.318333,0.231481,0.170596,0.158604,0.764877,0.186397,0.259191,0.456261,0.00127866,0.208314,0.267169,0.345428,0.0247035,0.0559282,0.286976,0.138367,0.118858,0.0239712,0.284698,0.575937,0.134775,0.33412,0.682688,0.619817,0.198829,0.542355,0.95625,0.19427,0.258338,0.15594,0.284049,0.149368,0.257343,0.334576,0.946641,0.426502,0.277069,0.656286,0.179095,0.659577,0.399512,0.1183,0.561462,0.130032,0.206361,0.747274,0.40496,0.648645,0.489357,0.108897,0.417236,0.0577447,0.299336,0.108144,0.0662012,0.17668,0.392833,0.25314,0.455514,0.55321,0.39542,0.258409,0.302313,0.477418,0.271588,0.0484658,0.254556,0.383168,0.185151,0.22839,0.178312,0.0739549,0.361175,0.317054,0.200322,0.172836,0.10595,0.0131235,0.0739229,0.365582,0.532426,0.43183,0.951479,0.212944,0.293085,0.254195,0.12401,0.349014,0.525981,0.403708,0.485418,0.0858906,0.135403,0.340875,0.228181,0.578624,0.162172,0.10806,0.577411,0.283786,0.338614,0.413198,0.655258,0.332708,0.127319,0.365006,0.128294,0.712634,0.483272,0.389782,0.874888,0.169327,0.242471,0.269962,0.395914,0.487726,0.480664,0.11392,0.438191,0.353055,0.0884684,0.335943,0.2253,0.3441,0.490255,0.127753,0.250503,0.470294,0.314612,0.499075,0.354188,0.579402,0.328649,0.148473,0.23785,0.187196,0.208233,0.32106,0.267881,0.187519,0.0991267,0.188112,0.38677,0.632499,0.655419,0.422468,0.537062,0.480474,0.144874,0.307452,0.349806,0.329227,0.71331,0.460609,0.450032,0.298612,0.194981,0.303923,0.399643,0.788411,0.43197,0.443035,0.225677,0.363167,0.392435,0.258923,0.187678,0.186071,0.939862,0.801958,0.132786,0.233018,0.285467,0.278261,0.148932,0.638546,0.448494,0.55339,0.489092,0.760879,0.291976,0.251108,0.337716,0.387685,0.246793,0.326065,0.788808,0.339574,0.438653,0.49468,0.495874,0.291007,0.291167,0.440037,0.31486,0.528373,0.213694,0.945567,0.191903,0.473575,0.448218,0.366768,0.110483,0.245583,0.245846,0.27526,0.34219,0.230285,0.662906,0.195831,0.624772,0.860989,0.26059,0.121285,0.371785,0.946652,0.984446,0.2514,0.965524,0.936693,0.996929,0.995866,0.743856,0.963476,0.63603,0.315327,0.78979,0.708635,0.895005,0.737741,0.0901911,0.736255,0.921949,0.958752,0.652847,0.68392,0.823597,0.815061,0.945267,0.951723,0.498981,0.777359,0.487515,0.840977,0.321859,0.737991,0.56004,0.843764,0.793397,0.874281,0.969081,0.918314,0.913867,0.78653,0.833179,0.890163,0.622751,0.660529,0.698033,0.888214,0.71925,0.569672,0.902904,0.954093,0.671202,0.716315,0.943481,0.683259,0.862105,0.943028,0.834289,0.684934,0.884553,0.854864,0.79,0.943461,0.956259,0.48888,0.98316,0.996781,0.989872,0.65821,0.593166,7.98077e-05,0.0149398,0.922438,0.651297,0.96229,0.902795,0.909657,0.914656,0.61437,0.6679,0.881316,0.447928,0.206535,0.223539,0.493913,0.951514,0.857183,0.945321,0.83049,0.97551,0.928522,0.930974,0.588808,0.560592,0.71363,0.980937,0.142604,0.228163,0.57975,0.969836,0.948518,0.902202,0.687691,0.75385,0.36722,0.679508,0.733016,0.978322,0.662427,0.99588,0.845253,0.578099,0.744999,0.519991,0.43253,0.938796,0.83865,0.888855,0.83787,0.911264,0.998533,0.743447,0.406331,0.408019,0.802743,0.792585,0.861463,0.871716,0.620489,0.424353,0.146977,0.388299,0.632209,0.382825,0.292464,0.928196,0.686213,0.672526,0.754378,0.704853,0.703747,0.953405,0.902811,0.915134,0.67258,0.637646,0.773449,0.574738,0.823777,0.834529,0.778397,0.875588,0.990618,0.536913,0.916612,0.970221,0.8528,0.648485,0.748774,0.931362,0.667667,0.399242,0.868079,0.913707,0.43991,0.596911,0.788221,0.585622,0.503617,0.267443,0.185106,0.916378,0.962076,0.758797,0.924531,0.761963,0.883317,0.822402,0.967055,0.643887,0.718286,0.214215,0.173851,0.509775,0.23715,0.179332,0.405204,0.569466,0.531903,0.857717,0.856737,0.508221,0.326782,0.679712,0.137899,0.70026,0.362844,0.382976,0.31396,0.655017,0.1944,0.798288,0.0584635,0.122193,0.665147,0.807914,0.146713,0.461789,0.333461,4.15133e-05,0.269627,0.260877,0.440384,0.314525,0.138876,0.0129098,0.355801,0.369332,0.544928,0.512058,0.757654,0.157089,0.250573,0.205529,0.0306393,0.325128,0.562014,0.740483,0.515911,0.376651,0.501939,0.151764,0.524643,0.823834,0.36595,0.47503,0.493277,0.460991,0.263426,0.283652,0.0370288,0.56769,0.314351,0.658042,0.0159542,0.470608,0.397749,0.547278,0.0967614,0.375094,0.140855,0.164124,0.542033,0.425497,0.242079,0.289413,0.441091,0.355638,0.271481,0.174207,0.669506,0.912029,0.388852,0.0478428,0.202693,0.547567,0.564171,0.243065,0.231042,0.444747,0.511132,0.171574,0.237076,0.175309,0.132555,0.110571,0.123803,0.624606,0.463308,0.526744,0.153887,0.473193,0.786122,0.106051,1.91513e-05,0.562338,0.125614,0.185352,0.836596,0.353062,0.319022,0.321942,0.635845,0.0922004,0.929835,0.405772,0.123725,0.262911,0.171937,0.404613,0.622957,0.557671,0.504704,0.373984,0.497369,0.594282,0.311036,0.231968,0.468003,0.247799,0.48957,0.743386,0.412992,0.398555,0.456726,0.396589,0.266963,0.709133,0.67635,0.149158,0.282725,0.859952,0.378291,0.235602,0.319841,0.367901,0.374858,0.979257,0.862672,0.162583,0.294593,0.157267,0.191637,0.230272,0.279473,0.404631,0.108968,0.22657,0.660939,0.988741,0.971281,0.55805,0.679662,0.345014,0.509635,0.479648,0.929056,0.179342,0.150014,0.81061,0.188879,0.47404,0.696314,0.218579,0.570357,0.68237,0.113765,0.36072,0.47356,0.815551,0.999897,0.00800524,0.559783,0.317505,0.20738,0.318705,0.155403,0.28528,0.535959,0.230462,0.144238,0.322438,0.215644,0.574582,0.426136,0.120206,0.377654,0.142291,0.16868,0.332605,0.277625,0.467862,0.308973,0.56623,0.178172,0.589292,0.23158,0.675976,0.423653,0.514609,0.559931,0.300338,0.732963,0.469054,0.750871,0.421894,0.194062,0.507323,0.415,0.903792,0.431432,0.220174,0.274822,0.187056,0.405162,0.419696,0.289311,0.429656,0.463283,0.512016,0.388586,0.578187,0.619193,0.67784,0.344554,0.253271,0.738717,0.329845,0.328599,0.49772,0.472883,0.28263,0.640164,0.615079,0.396379,0.295573,0.629492,0.305672,0.329653,0.0826755,0.458123,0.271514,0.946904,0.456073,0.501852,0.246465,0.494232,0.43242,0.712293,0.908417,0.183756,0.612124,0.480538,0.559853,0.583498,0.825084,0.960223,0.115301,0.829864,0.373995,0.137664,0.380034,0.835545,0.784815,0.862888,0.825171,0.584173,0.927431,0.854868,0.785712,0.843029,0.862689,0.5197,0.81476,0.775793,0.823839,0.797945,0.944711,0.967954,0.84827,0.986004,0.807884,0.18698,0.90117,0.857974,0.915143,0.543705,0.909108,0.576288,0.912555,0.959502,0.803782,0.672575,0.903899,0.931168,0.987145,0.679307,0.45002,0.873888,0.677516,0.942119,0.885602,0.74495,0.878336,0.630525,0.86082,0.605312,0.99331,0.808521,0.988024,0.978329,0.444299,0.99031,0.669771,0.898139,0.995258,0.789666,0.994054,0.000416141,0.993938,0.989751,0.992758,0.53144,0.525677,0.535663,0.696179,0.627764,0.842795,0.419104,0.80035,0.432068,0.398215,0.829626,0.286066,0.715888,0.767901,0.44921,0.582609,0.347515,0.671987,0.936383,0.715876,0.486888,0.668993,0.993572,0.618789,0.826195,0.911294,0.726487,0.971507,0.748955,0.820992,0.804619,0.914966,0.178473,0.923408,0.566957,0.834104,0.833792,0.873907,0.987979,0.944266,0.534174,0.865681,0.39248,0.976031,0.455938,0.520391,0.251906,0.718663,0.887402,0.473785,0.740625,0.789652,0.448942,0.826633,0.780483,0.92196,0.808423,0.777825,0.592348,0.53157,0.655131,0.792137,0.860856,0.763408,0.658205,0.966018,0.703901,0.601385,0.787244,0.705001,0.700795,0.898038,0.803833,0.906021,0.618341,0.800335,0.870092,0.903869,0.563598,0.906657,0.518685,0.507693,0.874718,0.953578,0.705956,0.871557,0.670798,0.936954,0.881728,0.817382,0.654945,0.783476,0.657798,0.801753,0.885438,0.773185,0.749346,0.520341,0.955985,0.804399,0.740437,0.918312,0.695285,0.965046,0.535337,0.476313,0.236882,0.660591,0.535113,0.108025,0.503913,0.631577,0.501058,0.220257,0.641475,0.446439,0.506723,0.447516,0.562098,0.540386,0.269945,0.284002,0.454236,0.620409,0.794982,0.626018,0.53945,0.861346,0.48269,0.51191,0.564853,0.568699,0.751808,0.710655,0.559441,0.521951,0.498061,0.355143,0.523646,0.10457,0.278571,0.35692,0.483693,0.575859,0.663478,0.257808,0.374056,0.541075,0.612576,0.567518,0.207337,0.54127,0.644166,0.329711,0.408394,0.580521,0.445508,0.579662,0.459939,0.122652,0.203837,0.163644,0.143933,0.647708,0.527867,0.762661,0.429455,0.347441,0.292694,0.317977,0.185106,0.555523,0.437378,0.563762,0.515166,0.357319,0.632866,0.706798,0.485196,0.440503,0.628986,0.41993,0.557752,0.356596,0.492927,0.495033,0.221402,0.630984,0.636345,0.532147,0.551524,0.539507,2.06483e-10,0.510758,0.615167,0.33694,0.571636,0.610026,0.469149,0.525556,0.394627,0.518957,0.600238,0.432878,0.373963,0.628435,0.568369,0.467238,0.477159,0.288135,0.52892,0.710278,0.666923,0.559725,0.248778,0.528779,0.313572,0.167775,0.168268,0.420832,0.237199,0.129411,0.168156,0.723393,0.636312,0.546774,0.499966,0.588091,0.503708,0.246187,0.291231,0.198269,0.351675,0.197483,0.308086,0.20448,0.232324,0.368317,0.319783,0.139615,0.206257,0.268704,0.117319,0.383259,0.533346,0.689269,0.675716,0.758473,0.399175,0.638663,0.626754,0.52491,0.576995,0.693079,0.622646,0.479007,0.671084,0.640709,0.375599,0.44222,0.536945,0.523194,0.676017,0.593153,0.730416,0.336551,0.559521,0.570279,0.335207,0.514691,0.506629,0.668131,0.670422,0.616624,0.450988,0.571064,0.279276,0.733696,0.573814,0.539957,0.285349,0.2588,0.719228,0.46627,0.438198,0.65176,0.217989,0.650689,0.298817,0.567905,0.475347,0.434688,0.555097,0.621443,0.536392,0.775775
}}
}}

Revision as of 20:49, 8 August 2012


Full id: C793_chronic_embryonic_spinal_medulla_pons_locus_corpus



Phase1 CAGE Peaks

Hg19::chr11:118559232..118559237,-p@chr11:118559232..118559237
-
Hg19::chr15:78535207..78535213,-p@chr15:78535207..78535213
-
Hg19::chr15:78538025..78538031,-p2@ACSBG1
Hg19::chr16:392073..392077,+p@chr16:392073..392077
+
Hg19::chr17:42447158..42447165,+p@chr17:42447158..42447165
+
Hg19::chr21:35240378..35240384,-p@chr21:35240378..35240384
-
Hg19::chr3:196325454..196325461,-p@chr3:196325454..196325461
-
Hg19::chr3:52025368..52025374,+p@chr3:52025368..52025374
+
Hg19::chr5:74630416..74630424,+p@chr5:74630416..74630424
+
Hg19::chr6:8165422..8165426,+p@chr6:8165422..8165426
+


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>


Cell Type
Ontology termp-valuen
hematopoietic stem cell5.51e-07172
angioblastic mesenchymal cell5.51e-07172
hematopoietic cell6.47e-07182
Uber Anatomy
Ontology termp-valuen
neural tube6.75e-1357
neural rod6.75e-1357
future spinal cord6.75e-1357
neural keel6.75e-1357
regional part of nervous system1.29e-1094
nervous system1.29e-1094
central nervous system3.72e-1082
neurectoderm8.56e-1090
gray matter1.73e-0934
brain grey matter1.73e-0934
brain1.78e-0969
future brain1.78e-0969
telencephalon1.93e-0934
regional part of telencephalon5.85e-0933
neural plate7.81e-0986
presumptive neural plate7.81e-0986
regional part of brain9.35e-0959
regional part of forebrain1.31e-0841
forebrain1.31e-0841
future forebrain1.31e-0841
cerebral hemisphere2.33e-0832
anterior neural tube4.40e-0842
adult organism2.21e-07115
Disease
Ontology termp-valuen
cancer4.01e-15235
hematologic cancer5.60e-1551
immune system cancer5.60e-1551
disease of cellular proliferation6.07e-14239
leukemia1.04e-1139
organ system cancer3.19e-09137
myeloid leukemia1.30e-0831
cell type cancer6.61e-08143


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.