Coexpression cluster:C1658: Difference between revisions

Revision as of 15:01, 26 November 2012

Full id: C1658_Osteoblast_Adipocyte_immature_MCF7_blood_Neurons_Neutrophils

Phase1 CAGE Peaks

Hg19::chr12:120729581..120729615,+	p@chr12:120729581..120729615 +
Hg19::chr12:120730915..120730919,+	p@chr12:120730915..120730919 +
Hg19::chr13:114133384..114133388,-	p1@RNU1-16P
Hg19::chr3:142139202..142139209,-	p1@ENST00000365255
Hg19::chr3:169482623..169482634,-	p4@TERC

Enriched pathways on this co-expression clusterSummary: 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. Analyst: Emmanuel Dimont link to source dataset data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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. Analyst: Erik Arner link to source dataset data

No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji links to source dataset

Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon link to source data Novel motifs data Jaspar motifs data

Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysisSummary: 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. Analyst: Erik Arner link to source dataset data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
BCL11A#53335	2	11.3477820414428	0.0115705693374132	0.0422849286524633
BCL3#602	2	13.8188411214953	0.00790282333228084	0.0324345882029347
BRF2#55290	2	429.83023255814	8.59403212503946e-06	0.000233494308300467
CHD2#1106	3	6.20641370047011	0.00777455012627559	0.0319470507018451
ETS1#2113	3	5.8372565533214	0.00925327904563143	0.0349664668299696
GATA3#2625	2	10.8946065428824	0.012515829121883	0.0452783497059248
GTF2B#2959	2	12.7775319737297	0.0091993608955972	0.0347853748216972
GTF2F1#2962	3	7.64379652605459	0.0042841549641205	0.0203434054877594
JUNB#3726	2	12.2442530639285	0.00999049059334596	0.0374662230987992
KAT2A#2648	2	246.436	2.61735683904979e-05	0.000564081987027489
MEF2C#4208	2	16.5245417970496	0.00557985007798205	0.0252394630470946
MXI1#4601	3	5.97694297725558	0.00865300488936688	0.0329424845128344
NR2C2#7182	2	13.0458443620963	0.0088363641276826	0.0335451649569642
PBX3#5090	3	13.1487076120465	0.000886046932280843	0.00660183031750581
POU2F2#5452	3	5.46367443464551	0.0111565009446978	0.0410041456279311
RDBP#7936	3	92.183042394015	2.72385929271434e-06	9.43539438380738e-05
SETDB1#9869	3	24.1920157068063	0.000146849435300907	0.00189577356902242
SRF#6722	3	8.27830695730069	0.00340484607377615	0.0173547447095709
TAF7#6879	3	6.85984164295435	0.00584328640701904	0.026240142282438
TCF12#6938	3	6.38067894131185	0.00718516865325884	0.029824403997365
ZBTB33#10009	3	18.9988350179887	0.000300098236334237	0.00309794995596634

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. Analyst:NA link to data source data

This analysis result is provided for C0 - C305 clusters.

@@ Line 8: / Line 8: @@
 |tf_chipseq_enrich=BCL11A#53335;2:11.3477820414428:0.0115705693374132:0.0422849286524633!BCL3#602;2:13.8188411214953:0.00790282333228084:0.0324345882029347!BRF2#55290;2:429.83023255814:8.59403212503946e-06:0.000233494308300467!CHD2#1106;3:6.20641370047011:0.00777455012627559:0.0319470507018451!ETS1#2113;3:5.8372565533214:0.00925327904563143:0.0349664668299696!GATA3#2625;2:10.8946065428824:0.012515829121883:0.0452783497059248!GTF2B#2959;2:12.7775319737297:0.0091993608955972:0.0347853748216972!GTF2F1#2962;3:7.64379652605459:0.0042841549641205:0.0203434054877594!JUNB#3726;2:12.2442530639285:0.00999049059334596:0.0374662230987992!KAT2A#2648;2:246.436:2.61735683904979e-05:0.000564081987027489!MEF2C#4208;2:16.5245417970496:0.00557985007798205:0.0252394630470946!MXI1#4601;3:5.97694297725558:0.00865300488936688:0.0329424845128344!NR2C2#7182;2:13.0458443620963:0.0088363641276826:0.0335451649569642!PBX3#5090;3:13.1487076120465:0.000886046932280843:0.00660183031750581!POU2F2#5452;3:5.46367443464551:0.0111565009446978:0.0410041456279311!RDBP#7936;3:92.183042394015:2.72385929271434e-06:9.43539438380738e-05!SETDB1#9869;3:24.1920157068063:0.000146849435300907:0.00189577356902242!SRF#6722;3:8.27830695730069:0.00340484607377615:0.0173547447095709!TAF7#6879;3:6.85984164295435:0.00584328640701904:0.026240142282438!TCF12#6938;3:6.38067894131185:0.00718516865325884:0.029824403997365!ZBTB33#10009;3:18.9988350179887:0.000300098236334237:0.00309794995596634
 |tfbs_overrepresentation=0.23317,0.0958562,0.877965,0.078254,0.310241,0.43203,0.0706464,0.5903,0.0539364,0.0424746,0.221396,0.346629,0.294377,0.201017,0.235304,0.101024,0.223746,0.158251,0.0865245,0.173528,0.29418,0.211047,0.13286,0.153106,0.0683222,0.332688,0.324018,0.146582,0.227906,0.0119764,0.31768,0.182756,0.0298713,0.322378,0.108398,0.136785,0.856615,0.070583,0.192426,0.108683,0.155571,0.0406818,0.222325,0.287476,0.193292,0.0596699,0.0625547,0.28382,0.178503,0.193726,0.243359,0.0886583,0.114185,0.150136,0.308837,0.0632035,0.172598,0.328738,0.127101,0.169687,0.0485674,0.236408,0.174369,0.123348,0.0892839,0.0827236,0.515105,0.0980005,0.139298,0.0379738,0.547889,0.110232,0.143944,0.190944,0.012429,0.0283664,0.155593,0.0717582,0.0613084,0.0120583,0.154245,0.348799,0.0698251,0.183986,0.436695,0.38341,0.104918,0.323505,0.790836,0.102375,0.138802,0.0812726,0.153861,0.0777027,0.138224,0.184264,0.769004,0.242703,0.149747,0.413729,0.0939617,0.416542,0.225088,0.0610111,0.0648403,0.0672793,0.109136,0.497282,0.228612,0.097251,0.285407,0.0560173,0.23661,0.0293017,0.162943,0.0556189,0.0336673,0.0926302,0.220791,0.13579,0.262107,0.331577,0.222452,0.138843,0.164723,0.277102,0.146529,0.0245339,0.136609,0.214614,0.0973103,0.121587,0.0935301,0.0376876,0.200735,0.173595,0.105753,0.0905147,0.0544577,0.0065834,0.037671,0.203496,0.316207,0.246229,0.446477,0.112838,0.159217,0.1364,0.0640569,0.193163,0.311509,0.227801,0.0443545,0.0439093,0.070163,0.018925,0.121467,0.350865,0.0846706,0.0555742,0.0699617,0.153706,0.186743,0.23397,0.412853,0.183121,0.065826,0.203135,0.0663482,0.129698,0.281162,0.218835,0.278686,0.0885874,0.129639,0.145577,0.22277,0.284267,0.27935,0.0586816,0.250461,0.195671,0.0452583,0.185103,0.11983,0.190123,0.286036,0.0660586,0.0094464,0.272191,0.172119,0.292239,0.196376,0.351465,0.18064,0.0772176,0.126988,0.0984435,0.110187,0.176022,0.144361,0.0986228,0.0508565,0.0989516,0.21691,0.393782,0.412989,0.240045,0.319604,0.279218,0.0752697,0.167805,0.193654,0.180992,0.464566,0.265567,0.258402,0.162511,0.102771,0.165687,0.225173,0.540012,0.246322,0.253699,0.120044,0.201982,0.220536,0.139142,0.0987108,0.09782,0.754769,0.554981,0.0687568,0.00805688,0.1547,0.150448,0.0774663,0.398789,0.257365,0.331711,0.285222,0.511,0.158559,0.134615,0.186192,0.217494,0.132125,0.179065,0.540443,0.187334,0.250769,0.289141,0.289982,0.157983,0.158078,0.251693,0.172268,0.313249,0.113261,0.766691,0.101058,0.274448,0.25718,0.204241,0.0568578,0.131428,0.131579,0.148683,0.188945,0.122666,0.419402,0.103245,0.387442,0.259312,0.14011,0.0626022,0.2074,0.430549,0.875285,0.921608,0.814323,0.748392,0.944588,0.517141,0.493893,0.808889,0.0918284,0.626645,0.541514,0.460217,0.675971,0.487888,0.568246,0.486439,0.720623,0.473154,0.410803,0.43779,0.579996,0.569955,0.426202,0.780281,0.292173,0.528152,0.284119,0.601223,0.176507,0.488132,0.336705,0.604733,0.545464,0.645432,0.824163,0.356237,0.346724,0.537972,0.225841,0.302575,0.385794,0.417358,0.450485,0.665656,0.133604,0.344006,0.32506,0.785741,0.426591,0.467379,0.762263,0.437202,0.628658,0.761311,0.592924,0.438692,0.660225,0.619033,0.541742,0.420673,0.790857,0.285074,0.870229,0.943261,0.402961,0.415372,0.362164,0.289863,0.507647,0.721501,0.409489,0.80581,0.688223,0.699429,0.707862,0.379008,0.423719,0.655494,0.256985,0.109234,0.11883,0.288602,0.779806,0.429909,0.766165,0.588284,0.284078,0.732646,0.737273,0.0184091,0.337121,0.464864,0.861932,0.0740433,0.121457,0.351733,0.826323,0.436555,0.687274,0.441154,0.503865,0.660832,0.43388,0.483295,0.852766,0.418989,0.935814,0.606622,0.350461,0.495024,0.307173,0.246694,0.407051,0.598317,0.666615,0.597346,0.702113,0.836729,0.493489,0.229501,0.230597,0.555864,0.544572,0.627794,0.641833,0.383956,0.241286,0.0764074,0.217887,0.393543,0.214395,0.158849,0.732038,0.439833,0.427746,0.504398,0.456725,0.455709,0.784142,0.688249,0.349388,0.427794,0.398041,0.524026,0.347879,0.58021,0.593219,0.529253,0.279717,0.903142,0.319495,0.711229,0.827435,0.616333,0.407113,0.498776,0.738012,0.423517,0.224914,0.636791,0.706243,0.251608,0.365107,0.539805,0.356278,0.295455,0.144104,0.0972855,0.710825,0.80526,0.508875,0.725283,0.512109,0.658411,0.578577,0.818493,0.493686,0.469232,0.113555,0.0910724,0.299839,0.126587,0.0940929,0.22877,0.343849,0.315824,0.622796,0.621499,0.29873,0.179502,0.43406,0.0715061,0.452515,0.201779,0.214491,0.171725,0.412647,0.102448,0.550877,0.029672,0.453305,0.421335,0.561724,0.0762646,0.266371,0.183582,0.168118,0.145381,0.140277,0.251925,0.172066,0.0720324,0.00647589,0.19738,0.0228128,0.32541,0.301472,0.158833,0.0818982,0.134306,0.108669,0.284804,0.178494,0.338195,0.490571,0.304235,0.210475,0.294266,0.0790025,0.310539,0.580279,0.203728,0.275452,0.288155,0.265827,0.141761,0.153627,0.0186891,0.342497,0.0157141,0.415228,0.00800917,0.272406,0.223952,0.327153,0.0496113,0.20949,0.0730994,0.0857377,0.323267,0.24204,0.129414,0.157037,0.252398,0.197279,0.146467,0.0912686,0.425114,0.7034,0.218241,0.0242146,0.10708,0.327369,0.339826,0.12998,0.123097,0.254847,0.300809,0.0898207,0.126545,0.0918749,0.0686325,0.0569043,0.0639461,0.387306,0.267408,0.312064,0.080156,0.274185,0.180885,0.0545112,0.510703,0.33844,0.0649137,0.0974216,0.595767,0.195675,0.174786,0.176557,0.396547,0.0472148,0.383224,0.229138,0.0639045,0.141461,0.0900204,0.228387,0.385962,0.334921,0.0489921,0.208788,0.566117,0.36304,0.0196869,0.123626,0.270619,0.132705,0.285556,0.493429,0.233835,0.224471,0.262929,0.223204,0.143824,0.460679,0.431098,0.0775891,0.153079,0.62577,0.211515,0.125701,0.175283,0.204954,0.209341,0.855975,0.629422,0.084895,0.160115,0.0819954,0.10091,0.122658,0.151161,0.228398,0.056055,0.120552,0.41771,0.893893,0.529713,0.335207,0.434016,0.190688,0.299739,0.278645,0.733648,0.0940982,0.0780533,0.564811,0.0993772,0.274769,0.448923,0.11602,0.344528,0.436413,0.0585992,0.20045,0.274438,0.98236,0.943187,0.319826,0.336512,0.173868,0.109708,0.174594,0.0809806,0.154589,0.318794,0.122767,0.0749261,0.176858,0.114361,0.347759,0.242462,0.0620267,0.211111,0.0738743,0.0882327,0.183058,0.150073,0.270522,0.16872,0.341388,0.0934526,0.359135,0.123404,0.430769,0.240825,0.3033,0.336623,0.163542,0.483244,0.27134,0.500871,0.239667,0.10226,0.29809,0.235147,0.114205,0.245965,0.116923,0.148426,0.0983658,0.228743,0.238223,0.156976,0.244789,0.267391,0.301441,0.21807,0.350528,0.382904,0.432408,0.190404,0.135865,0.488841,0.18137,0.180609,0.291283,0.273972,0.153023,0.400137,0.37958,0.22307,0.160699,0.391307,0.166736,0.181253,0.0422294,0.263877,0.146486,0.769574,0.262486,0.294204,0.131936,0.288826,0.246621,0.463617,0.335656,0.0965376,0.377203,0.279263,0.336564,0.35463,0.581771,0.800557,0.0594155,0.222245,0.208795,0.0713793,0.0244015,0.594469,0.1798,0.629713,0.581874,0.355154,0.730614,0.619037,0.537088,0.603804,0.629445,0.0528459,0.569605,0.526495,0.580285,0.550495,0.424482,0.820986,0.24322,0.881697,0.561689,0.672416,0.685628,0.623136,0.708698,0.67506,0.663441,0.349068,0.70429,0.798758,0.557035,0.427789,0.689998,0.737642,0.886619,0.433702,0.258394,0.644878,0.432123,0.759415,0.661773,0.494975,0.651196,0.392155,0.626931,0.371758,0.91821,0.562417,0.890566,0.85279,0.254547,0.901563,0.51445,0.680843,0.931136,0.541378,0.922893,0.660884,0.723387,0.898765,0.705225,0.315485,0.311289,0.318577,0.4488,0.389888,0.603509,0.511254,0.553178,0.246387,0.224252,0.587237,0.155054,0.466978,0.518234,0.257848,0.353942,0.192234,0.427276,0.400353,0.466967,0.283682,0.424668,0.919825,0.797471,0.583101,0.702164,0.477016,0.530902,0.498956,0.465544,0.55798,0.708394,0.932831,0.723248,0.34194,0.592696,0.592314,0.644904,0.647996,0.763919,0.0567843,0.633504,0.220564,0.556368,0.262394,0.307462,0.135076,0.469588,0.664443,0.274593,0.490712,0.541363,0.350314,0.583627,0.531474,0.720644,0.562305,0.528646,0.361524,0.31558,0.412744,0.54408,0.62698,0.513592,0.415367,0.240393,0.124718,0.36864,0.538745,0.456862,0.453004,0.680686,0.557093,0.693441,0.382214,0.553161,0.639572,0.68995,0.339393,0.694478,0.306231,0.298354,0.646049,0.784543,0.457741,0.641611,0.426239,0.748909,0.289012,0.209347,0.412586,0.534679,0.41502,0.55475,0.66153,0.523749,0.499347,0.307426,0.790204,0.557732,0.490527,0.714189,0.44799,0.813041,0.318338,0.276338,0.126433,0.417412,0.318174,0.0555558,0.295666,0.393022,0.293641,0.116969,0.401231,0.255983,0.297663,0.256708,0.338258,0.322052,0.145568,0.153833,0.261242,0.38389,0.54721,0.388459,0.321362,0.627637,0.280757,0.301366,0.340343,0.343265,0.501812,0.462092,0.336254,0.308589,0.291523,0.19697,0.309816,0.0537285,0.15063,0.0210584,0.281455,0.348739,0.419895,0.138495,0.208834,0.32256,0.377566,0.342366,0.109684,0.0587975,0.403482,0.181288,0.230841,0.352328,0.255358,0.351665,0.265112,0.0633313,0.10772,0.0854747,0.0747609,0.406458,0.312881,0.512825,0.244656,0.192188,0.158985,0.174153,0.0972854,0.333309,0.249919,0.339517,0.303699,0.198326,0.394084,0.458518,0.282501,0.252005,0.390891,0.238377,0.334983,0.197875,0.287909,0.289389,0.117618,0.392533,0.0919602,0.316002,0.330317,0.321404,0.225079,0.300542,0.379651,0.185715,0.345505,0.375521,0.271405,0.311201,0.221943,0.306427,0.367733,0.246925,0.208775,0.390438,0.343014,0.270094,0.276922,0.156279,0.313647,0.461742,0.422872,0.336468,0.13327,0.313545,0.17149,0.0877361,0.0880065,0.238969,0.126615,0.0669467,0.0879453,0.0275302,0.396935,0.326779,0.292869,0.358198,0.29552,0.131776,0.158116,0.104606,0.194814,0.104167,0.168186,0.108081,0.123829,0.205215,0.175247,0.0724304,0.109077,0.144842,0.0604892,0.214671,0.316879,0.442567,0.430541,0.508546,0.224871,0.398887,0.389061,0.310732,0.349611,0.445995,0.385709,0.278202,0.426488,0.400591,0.209809,0.253154,0.319519,0.309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.184651,0.303359,0.297596,0.42392,0.425912,0.380826,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476
+|tfbs_overrepresentation_for_novel_motifs=0.508327,0.205703,0.500341,0.654974,0.454983,0.653236,0.733342,0.324142,0.321368,0.106358,0.621241,0.778743,0.274093,0.721271,0.453496,0.478935,0.963929,0.395009,0.287891,0.167776,0.500405,0.121147,1.55551,0.44943,0.549618,0.802434,0.25115,0.642741,0.458349,0.233785,0.598009,1.00172,0.359091,0.27659,0.417272,0.0526856,0.413782,1.57519,0.388123,0.301779,0.415749,0.580638,0.132849,1.14615,0.218848,0.533483,0.734485,0.609718,0.785708,0.458489,0.817229,0.746838,0.560115,1.08035,1.2359,0.724351,0.4631,0.689906,0.233662,0.688844,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.330474,0.189341,1.23387,0.269111,0.255232,0.240727,0.917983,0.987729,0.543014,0.293154,0.934302,0.755403,0.873042,1.18161,0.251545,0.166306,0.228496,0.844289,1.79645,1.41984,1.15413,1.01895,0.367039,0.455791,0.381528,0.28626,1.06255,0.849074,0.211081,0.389604,1.01316,1.05685,0.967698,0.88799,0.616433,0.951411,0.717647,0.549347,0.437618,0.512457,1.05402,0.494368,0.631235,1.37132,0.412056,0.597842,0.596731,0.897476,2.59175,1.22546,1.96265,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.221105,0.591636,0.643339,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,0.680988,0.87256,2.09294,0.577088,0.363423,0.177807,0.398598,1.15522,0.312599,0.736459,1.56426,0.827475,0.439798,0.54968,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.35004,0.731946,0.233587
 }}

Personal tools

Coexpression cluster:C1658: Difference between revisions - resource_browser

Search

Human

Mouse

Rat

Dog

Chicken

Macaque

Cross species

Other

Tools

Coexpression cluster:C1658: Difference between revisions

From FANTOM5_SSTAR

Revision as of 15:01, 26 November 2012

Phase1 CAGE Peaks

	FAQ
	Mozilla Cavendish skin modified by DaSch for the Web Community Wiki GitHub project page – Report a bug – Skin version: 2.6.0