Personal tools

Coexpression cluster:C1866: 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:0002390!1.87e-17!102;UBERON:0003061!1.87e-17!102;UBERON:0002193!2.34e-16!112;UBERON:0002371!4.58e-09!80;UBERON:0002405!6.14e-09!115;UBERON:0000178!1.03e-08!15;UBERON:0000179!1.03e-08!15;UBERON:0000463!1.03e-08!15;UBERON:0001474!8.27e-08!86
|ontology_enrichment_uberon=UBERON:0002390!1.87e-17!102;UBERON:0003061!1.87e-17!102;UBERON:0002193!2.34e-16!112;UBERON:0002371!4.58e-09!80;UBERON:0002405!6.14e-09!115;UBERON:0000178!1.03e-08!15;UBERON:0000179!1.03e-08!15;UBERON:0000463!1.03e-08!15;UBERON:0001474!8.27e-08!86
|tfbs_overrepresentation=0.23317,0.0958562,0.877965,0.078254,0.310241,0.43203,0.0706464,0.5903,0.0539364,0.0424746,0.221396,0.346629,0.294377,0.201017,0.235304,0.101024,0.223746,0.158251,0.0865245,0.173528,0.29418,0.211047,0.13286,0.153106,0.0683222,0.332688,0.324018,0.146582,0.227906,0.150721,0.31768,0.182756,0.0298713,0.322378,0.108398,0.136785,0.856615,0.070583,0.192426,0.108683,0.155571,0.0406818,0.222325,0.287476,0.193292,0.0596699,0.0625547,0.28382,0.178503,0.193726,0.243359,0.0886583,0.114185,0.150136,0.308837,0.0632035,0.172598,0.328738,0.127101,0.169687,0.0485674,0.236408,0.174369,0.123348,0.0892839,0.0827236,0.515105,0.0980005,0.139298,0.262613,0.547889,0.110232,0.143944,0.190944,0.012429,0.0283664,0.155593,0.0717582,0.0613084,0.0120583,0.0125594,0.348799,0.0698251,0.183986,0.436695,0.38341,0.104918,0.323505,0.790836,0.102375,0.138802,0.0812726,0.153861,0.0777027,0.138224,0.184264,0.769004,0.242703,0.149747,0.413729,0.0939617,0.416542,0.225088,0.0610111,0.337778,0.0672793,0.109136,0.497282,0.228612,0.407248,0.285407,0.0560173,0.23661,0.0293017,0.162943,0.0556189,0.0336673,0.0926302,0.220791,0.13579,0.262107,0.331577,0.222452,0.138843,0.164723,0.277102,0.146529,0.0245339,0.136609,0.214614,0.0973103,0.121587,0.0935301,0.0376876,0.200735,0.173595,0.105753,0.0905147,0.0544577,0.0065834,0.037671,0.203496,0.316207,0.246229,0.779726,0.112838,0.159217,0.1364,0.0640569,0.193163,0.311509,0.227801,0.282656,0.0439093,0.070163,0.188135,0.121467,0.350865,0.0846706,0.0555742,0.349932,0.153706,0.186743,0.23397,0.412853,0.183121,0.065826,0.203135,0.0663482,0.463935,0.281162,0.218835,0.646289,0.0885874,0.129639,0.145577,0.22277,0.284267,0.0432639,0.0586816,0.250461,0.195671,0.0452583,0.185103,0.11983,0.190123,0.286036,0.0660586,0.134265,0.272191,0.172119,0.292239,0.196376,0.351465,0.18064,0.0772176,0.126988,0.0984435,0.110187,0.176022,0.144361,0.0986228,0.0508565,0.0989516,0.21691,0.393782,0.412989,0.240045,0.319604,0.279218,0.0752697,0.167805,0.193654,0.180992,0.464566,0.265567,0.258402,0.162511,0.102771,0.165687,0.225173,0.540012,0.246322,0.253699,0.120044,0.201982,0.220536,0.139142,0.0987108,0.09782,0.754769,0.554981,0.0687568,0.124225,0.1547,0.150448,0.0774663,0.398789,0.257365,0.331711,0.285222,0.511,0.158559,0.134615,0.186192,0.217494,0.132125,0.179065,0.540443,0.187334,0.250769,0.289141,0.289982,0.157983,0.158078,0.251693,0.172268,0.313249,0.113261,0.766691,0.101058,0.274448,0.25718,0.204241,0.0568578,0.131428,0.131579,0.148683,0.188945,0.122666,0.419402,0.103245,0.387442,0.627158,0.14011,0.0626022,0.2074,0.769028,0.875285,0.467941,0.814323,0.748392,0.784283,0.935701,0.493893,0.808889,0.396701,0.626645,0.541514,0.460217,0.675971,0.487888,0.568246,0.486439,0.720623,0.473154,0.410803,0.43779,0.579996,0.569955,0.766049,0.780281,0.292173,0.528152,0.284119,0.601223,0.176507,0.488132,0.336705,0.604733,0.545464,0.645432,0.824163,0.714193,0.706516,0.537972,0.591562,0.668584,0.385794,0.417358,0.450485,0.665656,0.470142,0.344006,0.32506,0.785741,0.426591,0.467379,0.762263,0.437202,0.628658,0.761311,0.592924,0.438692,0.660225,0.619033,0.541742,0.762222,0.790857,0.285074,0.870229,0.943261,0.899362,0.415372,0.362164,0.289863,0.507647,0.721501,0.409489,0.80581,0.688223,0.699429,0.707862,0.379008,0.423719,0.655494,0.256985,0.109234,0.11883,0.288602,0.779806,0.69124,0.42637,0.588284,0.553251,0.732646,0.737273,0.628596,0.337121,0.464864,0.861932,0.0740433,0.121457,0.351733,0.826323,0.773103,0.323752,0.441154,0.15612,0.660832,0.43388,0.483295,0.852766,0.418989,0.935814,0.606622,0.350461,0.495024,0.307173,0.246694,0.752605,0.598317,0.666615,0.597346,0.702113,0.411276,0.493489,0.229501,0.230597,0.555864,0.544572,0.627794,0.641833,0.383956,0.241286,0.0764074,0.217887,0.393543,0.214395,0.158849,0.732038,0.439833,0.427746,0.504398,0.456725,0.455709,0.784142,0.688249,0.349388,0.427794,0.398041,0.524026,0.347879,0.58021,0.593219,0.529253,0.279717,0.903142,0.319495,0.711229,0.524241,0.616333,0.407113,0.498776,0.738012,0.423517,0.224914,0.636791,0.706243,0.251608,0.365107,0.539805,0.356278,0.295455,0.144104,0.0972855,0.710825,0.80526,0.508875,0.725283,0.512109,0.658411,0.578577,0.818493,0.493686,0.469232,0.113555,0.0910724,0.299839,0.126587,0.0940929,0.22877,0.343849,0.315824,0.622796,0.621499,0.29873,0.179502,0.43406,0.0715061,0.452515,0.201779,0.214491,0.171725,0.412647,0.102448,0.550877,0.029672,0.453305,0.421335,0.561724,0.0762646,0.266371,0.183582,0.168118,0.145381,0.140277,0.251925,0.172066,0.0720324,0.00647589,0.19738,0.205854,0.32541,0.301472,0.507714,0.0818982,0.134306,0.108669,0.284804,0.178494,0.338195,0.490571,0.304235,0.210475,0.294266,0.0790025,0.310539,0.580279,0.203728,0.275452,0.288155,0.265827,0.141761,0.153627,0.0186891,0.342497,0.171961,0.415228,0.00800917,0.272406,0.223952,0.327153,0.0496113,0.20949,0.0730994,0.0857377,0.323267,0.24204,0.129414,0.157037,0.252398,0.197279,0.146467,0.0912686,0.425114,0.7034,0.218241,0.0242146,0.10708,0.327369,0.339826,0.12998,0.123097,0.254847,0.300809,0.0898207,0.126545,0.0918749,0.0686325,0.0569043,0.0639461,0.387306,0.267408,0.312064,0.080156,0.274185,0.53753,0.0545112,0.160961,0.33844,0.0649137,0.0974216,0.595767,0.195675,0.174786,0.176557,0.0917509,0.0472148,0.735114,0.229138,0.0639045,0.141461,0.0900204,0.228387,0.0134722,0.334921,0.296227,0.208788,0.566117,0.36304,0.110119,0.123626,0.270619,0.132705,0.285556,0.493429,0.233835,0.224471,0.262929,0.223204,0.143824,0.460679,0.431098,0.0775891,0.153079,0.62577,0.211515,0.125701,0.175283,0.204954,0.209341,0.855975,0.629422,0.084895,0.160115,0.0819954,0.10091,0.122658,0.151161,0.228398,0.056055,0.120552,0.41771,0.893893,0.830533,0.335207,0.434016,0.190688,0.299739,0.278645,0.733648,0.0940982,0.0780533,0.564811,0.0993772,0.0417776,0.448923,0.11602,0.344528,0.436413,0.0585992,0.20045,0.274438,0.98236,0.989834,0.319826,0.336512,0.173868,0.109708,0.174594,0.0809806,0.154589,0.318794,0.122767,0.0749261,0.176858,0.114361,0.347759,0.242462,0.0620267,0.211111,0.0738743,0.0882327,0.183058,0.150073,0.270522,0.16872,0.341388,0.0934526,0.359135,0.123404,0.430769,0.240825,0.3033,0.336623,0.163542,0.483244,0.27134,0.500871,0.239667,0.10226,0.29809,0.235147,0.689826,0.245965,0.116923,0.148426,0.0983658,0.228743,0.238223,0.156976,0.244789,0.267391,0.301441,0.21807,0.350528,0.382904,0.432408,0.190404,0.135865,0.145815,0.18137,0.180609,0.291283,0.273972,0.153023,0.400137,0.37958,0.22307,0.160699,0.391307,0.166736,0.181253,0.0422294,0.263877,0.146486,0.769574,0.262486,0.294204,0.131936,0.288826,0.246621,0.463617,0.697373,0.0965376,0.377203,0.279263,0.336564,0.35463,0.581771,0.800557,0.0594155,0.587524,0.208795,0.0713793,0.212621,0.594469,0.53612,0.629713,0.0583216,0.355154,0.730614,0.619037,0.537088,0.603804,0.629445,0.306963,0.569605,0.526495,0.580285,0.550495,0.764863,0.820986,0.610475,0.881697,0.561689,0.672416,0.685628,0.623136,0.708698,0.458608,0.855024,0.0695904,0.70429,0.798758,0.557035,0.427789,0.689998,0.737642,0.886619,0.433702,0.258394,0.644878,0.432123,0.759415,0.661773,0.494975,0.651196,0.392155,0.626931,0.371758,0.91821,0.562417,0.890566,0.85279,0.0355603,0.901563,0.821811,0.680843,0.931136,0.541378,0.922893,0.29416,0.922144,0.898765,0.914902,0.315485,0.311289,0.318577,0.4488,0.389888,0.603509,0.511254,0.553178,0.246387,0.224252,0.587237,0.155054,0.466978,0.518234,0.257848,0.353942,0.192234,0.427276,0.747776,0.466967,0.283682,0.424668,0.919825,0.797471,0.583101,0.702164,0.477016,0.831202,0.498956,0.792095,0.55798,0.708394,0.50651,0.723248,0.34194,0.592696,0.592314,0.644904,0.89036,0.763919,0.317485,0.633504,0.220564,0.845182,0.262394,0.307462,0.135076,0.469588,0.298027,0.274593,0.490712,0.541363,0.709432,0.583627,0.531474,0.364391,0.562305,0.528646,0.361524,0.31558,0.412744,0.54408,0.259136,0.513592,0.415367,0.815658,0.45585,0.36864,0.181824,0.456862,0.453004,0.316163,0.557093,0.693441,0.382214,0.553161,0.639572,0.68995,0.339393,0.694478,0.306231,0.298354,0.278436,0.784543,0.457741,0.641611,0.426239,0.748909,0.289012,0.572661,0.412586,0.534679,0.41502,0.55475,0.294859,0.170461,0.499347,0.307426,0.462582,0.196912,0.490527,0.714189,0.119992,0.499536,0.318338,0.276338,0.126433,0.417412,0.318174,0.0555558,0.295666,0.393022,0.293641,0.116969,0.401231,0.255983,0.297663,0.256708,0.338258,0.322052,0.145568,0.153833,0.261242,0.38389,0.54721,0.388459,0.0582761,0.259785,0.280757,0.301366,0.340343,0.343265,0.501812,0.462092,0.336254,0.308589,0.291523,0.19697,0.309816,0.0537285,0.15063,0.198077,0.281455,0.348739,0.419895,0.138495,0.208834,0.32256,0.377566,0.342366,0.109684,0.322704,0.403482,0.181288,0.230841,0.352328,0.255358,0.351665,0.265112,0.0633313,0.10772,0.0854747,0.0747609,0.406458,0.312881,0.512825,0.244656,0.192188,0.158985,0.174153,0.0972854,0.333309,0.249919,0.339517,0.303699,0.198326,0.394084,0.458518,0.282501,0.252005,0.390891,0.238377,0.334983,0.197875,0.287909,0.289389,0.117618,0.392533,0.396962,0.316002,0.330317,0.321404,0.0274786,0.300542,0.379651,0.185715,0.345505,0.375521,0.271405,0.311201,0.221943,0.306427,0.367733,0.246925,0.208775,0.390438,0.343014,0.270094,0.276922,0.156279,0.313647,0.461742,0.422872,0.336468,0.13327,0.313545,0.17149,0.0877361,0.0880065,0.238969,0.126615,0.0669467,0.0879453,0.474066,0.396935,0.326779,0.292869,0.0735747,0.29552,0.131776,0.158116,0.104606,0.194814,0.104167,0.168186,0.108081,0.123829,0.205215,0.175247,0.0724304,0.109077,0.144842,0.0604892,0.214671,0.316879,0.442567,0.430541,0.508546,0.224871,0.398887,0.389061,0.310732,0.349611,0.445995,0.385709,0.278202,0.426488,0.400591,0.209809,0.253154,0.319519,0.309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.184651,0.303359,0.297596,0.42392,0.425912,0.380826,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476
}}
}}

Revision as of 17:43, 8 August 2012


Full id: C1866_acute_testis_mesothelioma_serous_CD4_Basophils_embryonic



Phase1 CAGE Peaks

Hg19::chr20:23102118..23102146,-p@chr20:23102118..23102146
-
Hg19::chr22:45688894..45688936,+p@chr22:45688894..45688936
+
Hg19::chr2:196411636..196411643,-p@chr2:196411636..196411643
-
Hg19::chr2:58938135..58938145,-p@chr2:58938135..58938145
-
Hg19::chr9:112199558..112199568,-p6@PTPN3


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
hematopoietic stem cell7.69e-23172
angioblastic mesenchymal cell7.69e-23172
hematopoietic cell9.60e-22182
leukocyte5.25e-19140
hematopoietic oligopotent progenitor cell7.43e-19165
hematopoietic multipotent progenitor cell7.43e-19165
nongranular leukocyte1.15e-18119
hematopoietic lineage restricted progenitor cell2.44e-14124
myeloid cell1.27e-13112
common myeloid progenitor1.27e-13112
mature alpha-beta T cell5.41e-1318
alpha-beta T cell5.41e-1318
immature T cell5.41e-1318
mature T cell5.41e-1318
immature alpha-beta T cell5.41e-1318
classical monocyte4.15e-1245
monopoietic cell4.69e-1263
monocyte4.69e-1263
monoblast4.69e-1263
promonocyte4.69e-1263
T cell1.07e-1125
pro-T cell1.07e-1125
macrophage dendritic cell progenitor2.13e-1165
granulocyte monocyte progenitor cell1.40e-1071
CD14-positive, CD16-negative classical monocyte3.64e-1042
myeloid leukocyte4.81e-1076
myeloid lineage restricted progenitor cell6.15e-1070
CD4-positive, alpha-beta T cell8.02e-096
dendritic cell2.55e-0710
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.87e-17102
blood island1.87e-17102
hemolymphoid system2.34e-16112
bone marrow4.58e-0980
immune system6.14e-09115
blood1.03e-0815
haemolymphatic fluid1.03e-0815
organism substance1.03e-0815
bone element8.27e-0886


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.