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Coexpression cluster:C3075: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004638!5.02e-83!18;UBERON:0001986!5.02e-83!18;UBERON:0004852!5.02e-83!18;UBERON:0000487!2.51e-67!22;UBERON:0006914!7.57e-59!25;UBERON:0003915!6.51e-54!9;UBERON:0004700!6.51e-54!9;UBERON:0001917!6.51e-54!9;UBERON:0000055!4.55e-42!68;UBERON:0002049!2.04e-39!78;UBERON:0007798!2.04e-39!78;UBERON:0004535!1.10e-34!109;UBERON:0001009!1.30e-33!112;UBERON:0007500!1.47e-29!59;UBERON:0001981!1.47e-29!59;UBERON:0004537!1.47e-29!59;UBERON:0006965!1.47e-29!59;UBERON:0004872!1.24e-27!83;UBERON:0003914!1.80e-22!117;UBERON:0001473!4.86e-18!8;UBERON:0004536!4.86e-18!8;UBERON:0006558!4.86e-18!8;UBERON:0001638!1.27e-16!9;UBERON:0003920!1.27e-16!9;UBERON:0004582!1.27e-16!9;UBERON:0002465!2.12e-14!10;UBERON:0004111!4.96e-14!240;UBERON:0005800!5.28e-13!2;UBERON:0001515!5.28e-13!2;UBERON:0001637!7.77e-13!42;UBERON:0003509!7.77e-13!42;UBERON:0004572!7.77e-13!42;UBERON:0000490!4.15e-12!148;UBERON:0000025!9.91e-12!192;UBERON:0003081!7.70e-11!203;UBERON:0000947!5.49e-10!21;UBERON:0010191!5.49e-10!21;UBERON:0010523!6.33e-09!3;UBERON:0001915!6.33e-09!3;UBERON:0001982!6.33e-09!3;UBERON:0004573!3.17e-08!33;UBERON:0004571!3.17e-08!33;UBERON:0000477!1.00e-07!373;UBERON:0000483!3.92e-07!306;UBERON:0000119!5.14e-07!309;UBERON:0000926!8.72e-07!315;UBERON:0004120!8.72e-07!315;UBERON:0006603!8.72e-07!315
|ontology_enrichment_uberon=UBERON:0004638!5.02e-83!18;UBERON:0001986!5.02e-83!18;UBERON:0004852!5.02e-83!18;UBERON:0000487!2.51e-67!22;UBERON:0006914!7.57e-59!25;UBERON:0003915!6.51e-54!9;UBERON:0004700!6.51e-54!9;UBERON:0001917!6.51e-54!9;UBERON:0000055!4.55e-42!68;UBERON:0002049!2.04e-39!78;UBERON:0007798!2.04e-39!78;UBERON:0004535!1.10e-34!109;UBERON:0001009!1.30e-33!112;UBERON:0007500!1.47e-29!59;UBERON:0001981!1.47e-29!59;UBERON:0004537!1.47e-29!59;UBERON:0006965!1.47e-29!59;UBERON:0004872!1.24e-27!83;UBERON:0003914!1.80e-22!117;UBERON:0001473!4.86e-18!8;UBERON:0004536!4.86e-18!8;UBERON:0006558!4.86e-18!8;UBERON:0001638!1.27e-16!9;UBERON:0003920!1.27e-16!9;UBERON:0004582!1.27e-16!9;UBERON:0002465!2.12e-14!10;UBERON:0004111!4.96e-14!240;UBERON:0005800!5.28e-13!2;UBERON:0001515!5.28e-13!2;UBERON:0001637!7.77e-13!42;UBERON:0003509!7.77e-13!42;UBERON:0004572!7.77e-13!42;UBERON:0000490!4.15e-12!148;UBERON:0000025!9.91e-12!192;UBERON:0003081!7.70e-11!203;UBERON:0000947!5.49e-10!21;UBERON:0010191!5.49e-10!21;UBERON:0010523!6.33e-09!3;UBERON:0001915!6.33e-09!3;UBERON:0001982!6.33e-09!3;UBERON:0004573!3.17e-08!33;UBERON:0004571!3.17e-08!33;UBERON:0000477!1.00e-07!373;UBERON:0000483!3.92e-07!306;UBERON:0000119!5.14e-07!309;UBERON:0000926!8.72e-07!315;UBERON:0004120!8.72e-07!315;UBERON:0006603!8.72e-07!315
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56973,0.211746,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.11002,0.26144,0.0286025,0.549354,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.217069,0.190048,0.131088,0.394069,0.237101,0.286988,0.0761239,0.172491,0.0818785,0.182701,0.335058,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.28711,0.0473033,0.094881,0.445524,0.132886,0.0774373,0.109194,0.128564,0.131452,0.323837,0.448776,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.739716,0.655293,0.21727,0.289306,0.119215,0.192475,0.177967,0.547859,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.175094,0.696435,0.76084,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.286863,0.152372,0.194941,0.0257725,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.148574,0.15663,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.170295,0.193653,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.174776,0.0948451,0.264079,0.249049,0.140533,0.0997756,0.257598,0.103667,0.113069,0.025556,0.16791,0.09066,0.585505,0.166967,0.188651,0.0813902,0.184948,0.156261,0.311847,0.511859,0.0590944,0.247324,0.178389,0.218229,0.231073,0.407281,0.619906,0.0360851,0.412187,0.131093,0.0434602,0.133616,0.418146,0.36927,0.449036,0.407369,0.231447,0.544776,0.43956,0.37006,0.42622,0.448797,0.197484,0.396996,0.36145,0.406019,0.381071,0.580441,0.276075,0.432035,0.722159,0.390366,0.48809,0.50058,0.443185,0.522904,0.3468,0.871256,0.227104,0.518585,0.617852,0.38649,0.284625,0.504757,0.55194,0.729153,0.28907,0.164197,0.462688,0.287881,0.574635,0.478174,0.336276,0.468444,0.258219,0.446557,0.243383,0.442897,0.390974,0.73485,0.683217,0.161598,0.405056,0.644754,0.496032,0.476802,0.37357,0.454657,0.477353,0.452741,0.399222,0.185744,0.20342,0.200493,0.20558,0.300504,0.25656,0.425963,0.349197,0.383291,0.156104,0.141318,0.411941,0.0961477,0.314438,0.354789,0.163828,0.230581,0.120226,0.28424,0.562405,0.314429,0.181415,0.282286,0.446891,0.616388,0.408413,0.516511,0.322213,0.656109,0.33942,0.61031,0.387276,0.522605,0.221908,0.537348,0.222037,0.416621,0.416292,0.462712,0.734551,0.579431,0.204817,0.452428,0.138871,0.673493,0.166905,0.19783,0.0833851,0.316453,0.48065,0.175199,0.332919,0.373557,0.523625,0.408861,0.365487,0.534741,0.39088,0.363192,0.236011,0.203486,0.0413386,0.375787,0.4466,0.351067,0.275347,0.637444,0.305885,0.241132,0.371414,0.30666,0.303709,0.495883,0.386538,0.508064,0.250964,0.383276,0.457886,0.504711,0.220231,0.509064,0.196976,0.191517,0.463751,0.601877,0.307334,0.459728,0.283463,0.201728,0.472935,0.399569,0.273281,0.368095,0.275089,0.384593,0.47795,0.359231,0.339729,0.197805,0.608187,0.387069,0.332774,0.52832,0.299887,0.634365,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.222977,0.341681,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.179889,0.226869,0.27872,0.0855609,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.350452,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.259632,0.30793,0.180606,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.21382,0.207559,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.295769,0.286691,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.253509,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.205954,0.361435
|tfbs_overrepresentation_for_novel_motifs=0.699513,0.14394,0.690871,0.855819,0.641468,0.853988,0.937929,0.494933,0.491742,0.63186,0.820209,0.985163,0.436625,0.925331,0.639839,0.667627,1.17594,0.575162,0.452865,0.305559,0.69094,0.242883,0.845342,0.635379,0.743951,1.00973,0.409304,0.842925,0.645155,0.388328,0.795576,1.21459,0.534793,0.439574,1.46099,0.137917,0.596053,0.855276,0.567465,0.469078,0.598234,0.777097,0.718382,0.63803,0.461452,0.726632,0.939121,0.808003,0.247669,0.645308,1.02504,0.951993,0.336258,1.29475,1.45259,0.928548,0.650353,0.892517,0.388177,0.891404,1.25741,0.941709,0.492369,1.14672,0.961293,1.11026,1.54311,1.91674,1.2037,1.75271,0.762094,0.502203,0.333216,1.45054,0.430728,0.414196,0.396746,1.12884,1.20029,0.73687,0.459024,1.14559,0.960908,0.498519,1.39759,0.977977,0.303648,0.381882,1.053,2.0169,1.63834,1.36973,1.23218,0.543775,0.642354,0.560075,0.450952,1.27663,1.05794,0.360456,0.569121,1.22626,1.27082,1.1798,1.09802,0.815119,1.16312,0.921547,0.743661,0.622396,0.703975,1.26794,0.684398,0.830777,1.58942,0.594137,1.66424,0.794219,1.10778,0.547323,1.44203,1.0504,0.850918,0.973172,1.70203,1.12965,0.930979,1.2374,1.48578,0.561252,1.37044,0.798812,1.50051,0.969553,1.65144,0.372828,0.788803,0.843556,1.60823,2.47382,2.06967,1.57016,0.932872,1.27296,1.09989,0.883164,1.08214,2.31409,0.773313,0.539692,0.853445,0.250511,1.37083,0.481626,0.941179,1.78371,1.03563,0.624795,0.744018,1.69223,1.56892,1.35169,1.19946,0.714443,1.11698,0.960047,0.524529,0.936473,1.42224
}}
}}

Revision as of 15:54, 26 November 2012


Full id: C3075_Endothelial_Renal_Smooth_Fibroblast_Mesothelial_Hepatic_Lymphatic



Phase1 CAGE Peaks

Hg19::chr11:103495901..103495904,-p@chr11:103495901..103495904
-
Hg19::chr14:75422409..75422422,+p@chr14:75422409..75422422
+
Hg19::chr7:134779508..134779514,-p@chr7:134779508..134779514
-


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
blood vessel endothelium5.02e-8318
endothelium5.02e-8318
cardiovascular system endothelium5.02e-8318
simple squamous epithelium2.51e-6722
squamous epithelium7.57e-5925
endothelial tube6.51e-549
arterial system endothelium6.51e-549
endothelium of artery6.51e-549
vessel4.55e-4268
vasculature2.04e-3978
vascular system2.04e-3978
cardiovascular system1.10e-34109
circulatory system1.30e-33112
epithelial tube open at both ends1.47e-2959
blood vessel1.47e-2959
blood vasculature1.47e-2959
vascular cord1.47e-2959
splanchnic layer of lateral plate mesoderm1.24e-2783
epithelial tube1.80e-22117
lymphatic vessel4.86e-188
lymph vasculature4.86e-188
lymphatic part of lymphoid system4.86e-188
vein1.27e-169
venous blood vessel1.27e-169
venous system1.27e-169
lymphoid system2.12e-1410
anatomical conduit4.96e-14240
segment of aorta5.28e-132
thoracic aorta5.28e-132
artery7.77e-1342
arterial blood vessel7.77e-1342
arterial system7.77e-1342
unilaminar epithelium4.15e-12148
tube9.91e-12192
lateral plate mesoderm7.70e-11203
aorta5.49e-1021
aortic system5.49e-1021
microcirculatory vessel6.33e-093
endothelium of capillary6.33e-093
capillary6.33e-093
systemic artery3.17e-0833
systemic arterial system3.17e-0833
anatomical cluster1.00e-07373
epithelium3.92e-07306
cell layer5.14e-07309
mesoderm8.72e-07315
mesoderm-derived structure8.72e-07315
presumptive mesoderm8.72e-07315


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)

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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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