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Coexpression cluster:C1814: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0007094!mitotic cell cycle spindle assembly checkpoint!0.00721118461964618!10459$GO:0031577!spindle checkpoint!0.00721118461964618!10459$GO:0007093!mitotic cell cycle checkpoint!0.0185375871898384!10459$GO:0000075!cell cycle checkpoint!0.0275841519794159!10459$GO:0007088!regulation of mitosis!0.0275841519794159!10459
|gostat_on_coexpression_clusters=GO:0007094!mitotic cell cycle spindle assembly checkpoint!0.00721118461964618!10459$GO:0031577!spindle checkpoint!0.00721118461964618!10459$GO:0007093!mitotic cell cycle checkpoint!0.0185375871898384!10459$GO:0000075!cell cycle checkpoint!0.0275841519794159!10459$GO:0007088!regulation of mitosis!0.0275841519794159!10459
|id=C1814
|id=C1814
|ontology_enrichment_celltype=CL:0002319!7.31e-14!25;CL:0000133!4.18e-11!59;CL:0000066!2.59e-09!254;CL:0000095!2.67e-08!17;CL:0000123!2.67e-08!17;CL:0000221!1.58e-07!71;CL:0000047!1.70e-07!8;CL:0000333!3.17e-07!41;CL:0000243!5.24e-07!15;CL:0000125!5.24e-07!15;CL:0000030!5.24e-07!15;CL:0000339!5.24e-07!15
|ontology_enrichment_celltype=CL:0002319!1.51e-26!25;CL:0000133!5.68e-21!59;CL:0000221!1.62e-15!72;CL:0000047!6.66e-15!8;CL:0000095!2.25e-14!17;CL:0000123!2.25e-14!17;CL:0000333!3.22e-12!41;CL:0000540!1.09e-11!6;CL:0000031!1.09e-11!6;CL:0000404!1.09e-11!6;CL:0000128!1.26e-11!7;CL:0000126!1.26e-11!7;CL:0000127!1.26e-11!7;CL:0002453!1.26e-11!7;CL:0000243!1.33e-11!15;CL:0000125!1.33e-11!15;CL:0000030!1.33e-11!15;CL:0000339!1.33e-11!15;CL:0002322!3.98e-10!5
|ontology_enrichment_disease=DOID:3095!2.35e-11!22;DOID:2994!2.35e-11!22;DOID:171!1.71e-07!10;DOID:0050687!3.88e-07!143
|ontology_enrichment_disease=DOID:3095!6.07e-17!22;DOID:2994!6.07e-17!22;DOID:171!1.24e-12!10;DOID:169!4.20e-07!6
|ontology_enrichment_uberon=UBERON:0000073!7.94e-12!94;UBERON:0001016!7.94e-12!94;UBERON:0005743!1.08e-09!86;UBERON:0000924!2.49e-09!173;UBERON:0006601!2.49e-09!173;UBERON:0001017!1.88e-08!82;UBERON:0004121!4.40e-08!169;UBERON:0002346!7.23e-08!90;UBERON:0002104!5.68e-07!21;UBERON:0000119!6.80e-07!312
|ontology_enrichment_uberon=UBERON:0004121!1.49e-13!171;UBERON:0000924!1.49e-13!171;UBERON:0006601!1.49e-13!171;UBERON:0001016!1.53e-13!89;UBERON:0001017!1.08e-11!81;UBERON:0007625!2.08e-08!11;UBERON:0000922!1.27e-07!592;UBERON:0011216!2.85e-07!223;UBERON:0002346!3.21e-07!86;UBERON:0000473!4.35e-07!8;UBERON:0000970!4.68e-07!21;UBERON:0002104!4.68e-07!21
|tfbs_overrepresentation=0.23317,0.0958562,3.63206e-07,0.078254,0.310241,0.43203,0.0706464,0.224712,0.0539364,0.0424746,0.221396,0.346629,0.294377,0.201017,0.235304,0.101024,0.223746,0.158251,0.0865245,0.173528,0.29418,0.211047,0.13286,0.153106,0.0683222,0.332688,0.324018,0.146582,0.227906,0.150721,0.31768,0.182756,0.0298713,0.322378,0.108398,0.136785,0.578129,0.070583,0.192426,0.108683,0.155571,0.0406818,0.222325,0.287476,0.193292,0.0596699,0.0625547,0.28382,0.178503,0.193726,0.243359,0.0886583,0.114185,0.150136,0.308837,0.0632035,0.172598,0.328738,0.127101,0.169687,0.0485674,0.236408,0.174369,0.123348,0.0892839,0.0827236,0.164127,0.0980005,0.139298,0.262613,0.0465392,0.110232,0.143944,0.190944,0.012429,0.0283664,0.155593,0.0717582,0.0613084,0.0120583,0.154245,0.348799,0.0698251,0.183986,0.0206187,0.0131713,0.104918,0.323505,0.074015,0.102375,0.138802,0.0812726,0.153861,0.0777027,0.138224,0.184264,5.32145e-08,0.242703,0.149747,0.100676,0.0939617,0.416542,0.225088,0.0610111,0.337778,0.0672793,0.109136,0.497282,0.228612,0.097251,0.285407,0.0560173,0.23661,0.0293017,0.162943,0.0556189,0.0336673,0.0926302,0.220791,0.13579,0.262107,0.00807913,0.222452,0.138843,0.164723,0.277102,0.146529,0.0245339,0.136609,0.214614,0.0973103,0.121587,0.0935301,0.0376876,0.200735,0.173595,0.105753,0.0905147,0.0544577,0.0065834,0.037671,0.203496,0.316207,0.246229,4.41203e-06,0.112838,0.159217,0.1364,0.0640569,0.193163,0.0545278,0.227801,0.282656,0.0439093,0.070163,0.188135,0.121467,0.350865,0.0846706,0.0555742,0.349932,0.153706,0.186743,0.23397,0.412853,0.183121,0.065826,0.203135,0.0663482,0.463935,0.281162,0.218835,1.53675e-06,0.0885874,0.129639,0.145577,0.22277,0.284267,0.27935,0.0586816,0.250461,0.195671,0.0452583,0.185103,0.11983,0.190123,0.286036,0.0660586,0.134265,0.272191,0.172119,0.292239,0.196376,0.351465,0.18064,0.0772176,0.126988,0.0984435,0.110187,0.176022,0.144361,0.0986228,0.0508565,0.0989516,0.21691,0.0903603,0.412989,0.240045,0.319604,0.00458567,0.0752697,0.167805,0.193654,0.180992,0.464566,0.265567,0.258402,0.162511,0.102771,0.165687,0.225173,0.540012,0.246322,0.253699,0.120044,0.201982,0.220536,0.139142,0.0987108,0.00494849,0.167847,0.554981,0.0687568,0.124225,0.1547,0.150448,0.0774663,0.398789,0.257365,0.331711,0.285222,0.511,0.158559,0.134615,0.186192,0.217494,0.132125,0.179065,0.0442413,0.187334,0.250769,0.289141,0.289982,0.157983,0.158078,0.251693,0.172268,0.313249,0.113261,5.4914e-09,0.101058,0.274448,0.0363385,0.204241,0.0568578,0.131428,0.131579,0.148683,0.188945,0.122666,0.0179186,0.103245,0.387442,0.259312,0.14011,0.0626022,0.2074,0.00398762,3.23747e-07,1.37161e-08,0.00765365,0.0514824,4.44836e-11,2.23165e-07,0.00523095,0.808889,0.396701,0.00343837,0.183975,0.460217,0.310815,0.487888,0.568246,0.486439,0.720623,0.0233572,0.410803,0.43779,0.215646,0.569955,0.766049,6.08817e-07,0.292173,0.528152,0.284119,0.234606,0.176507,0.488132,0.336705,0.604733,0.187073,0.277796,0.252893,0.714193,0.00166895,0.537972,0.591562,0.100468,0.385794,0.417358,0.450485,0.665656,0.470142,0.344006,0.32506,0.0205505,0.426591,0.467379,0.000126855,0.113686,0.628658,0.000124493,0.592924,0.438692,0.0954848,0.251384,0.541742,0.0579174,0.00544114,0.285074,7.67241e-11,1.14718e-08,0.000634268,0.101555,0.362164,0.289863,0.507647,0.00997624,0.409489,1.28879e-06,0.00129607,3.74247e-05,0.1272,0.0126642,0.0185655,0.288374,0.256985,0.109234,0.11883,0.288602,0.0046459,0.00332655,0.42637,0.0608018,0.284078,0.379957,0.737273,0.260733,0.337121,0.464864,0.861932,0.0740433,0.121457,0.351733,2.4048e-06,0.0635587,0.323752,0.441154,0.503865,0.0958387,0.43388,0.142123,0.000173612,0.418989,3.81597e-08,0.606622,0.350461,0.0321347,0.307173,0.246694,0.0533615,0.598317,0.666615,0.597346,0.34136,8.63766e-06,0.493489,0.229501,0.230597,0.0491086,0.544572,0.627794,0.641833,0.383956,0.241286,0.0764074,0.217887,0.393543,0.214395,0.158849,0.146799,0.439833,0.427746,0.0343831,0.456725,0.0239402,0.453202,0.113129,0.708682,0.108356,0.398041,0.524026,0.347879,0.58021,0.593219,0.529253,0.64728,1.87521e-07,0.319495,0.129773,2.48914e-06,0.072737,0.407113,0.498776,0.00258246,0.423517,0.224914,0.0826665,0.125979,0.0347029,0.365107,0.182645,0.356278,0.295455,0.144104,0.0972855,0.0374096,0.226009,0.159658,0.370345,0.512109,0.658411,0.0570792,0.00813996,0.00713355,0.469232,0.113555,0.0910724,0.299839,0.126587,0.0940929,0.22877,0.343849,0.315824,0.622796,0.253771,0.29873,0.179502,0.43406,0.0715061,0.023355,0.201779,0.214491,0.171725,0.412647,0.102448,0.0474884,0.029672,0.0234987,0.104787,0.561724,0.0762646,0.266371,0.183582,0.0149979,0.145381,0.140277,0.251925,0.172066,0.0720324,0.00647589,0.19738,0.205854,0.32541,0.301472,9.62375e-05,0.0818982,0.134306,0.108669,0.284804,0.0169728,0.338195,0.490571,0.304235,0.210475,0.0483057,0.0790025,0.310539,0.0119441,0.203728,0.0419973,0.288155,0.0389599,0.141761,0.153627,0.0186891,0.342497,0.171961,1.05869e-07,0.00800917,0.272406,0.223952,0.327153,0.0496113,0.20949,0.0730994,0.0857377,0.323267,0.24204,0.129414,0.157037,0.252398,0.197279,0.14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}}
}}

Revision as of 11:43, 19 October 2012


Full id: C1814_occipital_temporal_duodenum_parietal_Neurons_brain_Neural



Phase1 CAGE Peaks

Hg19::chr19:19739321..19739366,-p2@LPAR2
Hg19::chr1:11751665..11751698,-p5@MAD2L2
Hg19::chr1:156051811..156051838,-p3@MEX3A
Hg19::chr1:156051843..156051877,-p4@MEX3A
Hg19::chr1:33231268..33231284,+p20@KIAA1522


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


GO IDGO nameFDR corrected p-value
GO:0007094mitotic cell cycle spindle assembly checkpoint0.00721118461964618
GO:0031577spindle checkpoint0.00721118461964618
GO:0007093mitotic cell cycle checkpoint0.0185375871898384
GO:0000075cell cycle checkpoint0.0275841519794159
GO:0007088regulation of mitosis0.0275841519794159



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>


Uber Anatomy
Ontology termp-valuen
ectoderm-derived structure1.49e-13171
ectoderm1.49e-13171
presumptive ectoderm1.49e-13171
nervous system1.53e-1389
central nervous system1.08e-1181
pigment epithelium of eye2.08e-0811
embryo1.27e-07592
organ system subdivision2.85e-07223
neurectoderm3.21e-0786
testis4.35e-078
eye4.68e-0721
visual system4.68e-0721
Disease
Ontology termp-valuen
germ cell and embryonal cancer6.07e-1722
germ cell cancer6.07e-1722
neuroectodermal tumor1.24e-1210
neuroendocrine tumor4.20e-076


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.