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Coexpression cluster:C4872: Difference between revisions

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|full_id=C4872_Adipocyte_Cardiac_Fibroblast_Mesenchymal_Smooth_Melanocyte_Preadipocyte
|full_id=C4872_Adipocyte_Cardiac_Fibroblast_Mesenchymal_Smooth_Melanocyte_Preadipocyte
|id=C4872
|id=C4872
|ontology_enrichment_celltype=CL:0000055!8.42e-40!180;CL:0000222!1.87e-27!119;CL:0000680!1.49e-23!57;CL:0000056!1.49e-23!57;CL:0000355!1.49e-23!57;CL:0000183!9.35e-23!59;CL:0000187!1.29e-22!54;CL:0000220!1.52e-20!246;CL:0002321!2.91e-20!248;CL:0000393!6.74e-20!60;CL:0000211!6.74e-20!60;CL:0000192!5.90e-17!42;CL:0000514!5.90e-17!42;CL:0000057!9.48e-17!75;CL:0000359!5.25e-15!32;CL:0000115!8.03e-11!35;CL:0002078!8.76e-10!44;CL:0002494!2.15e-09!16;CL:0002139!2.24e-09!24;CL:0000071!7.73e-09!18;CL:0002546!7.73e-09!18;CL:0000213!5.53e-07!57;CL:0000215!5.53e-07!57;CL:0002539!5.71e-07!10;CL:0002371!7.35e-07!591
|ontology_enrichment_celltype=CL:0000680!3.13e-24!58;CL:0000056!3.13e-24!58;CL:0000355!3.13e-24!58;CL:0000187!3.18e-23!55;CL:0000183!1.49e-22!59;CL:0000222!1.45e-21!121;CL:0000393!3.15e-19!61;CL:0000211!3.15e-19!61;CL:0000192!1.26e-18!43;CL:0000514!1.26e-18!43;CL:0000055!3.21e-18!106;CL:0000359!1.80e-15!32;CL:0000057!9.48e-15!76;CL:0002321!2.69e-12!250;CL:0002371!5.50e-12!588;CL:0002494!1.07e-10!16;CL:0000115!2.13e-08!36;CL:0002539!1.48e-07!10;CL:0002078!2.55e-07!45;CL:0000071!4.68e-07!18;CL:0002546!4.68e-07!18;CL:0002139!6.45e-07!24
|ontology_enrichment_disease=
|ontology_enrichment_disease=DOID:2394!5.20e-07!14
|ontology_enrichment_uberon=UBERON:0004872!1.86e-30!84;UBERON:0002049!6.39e-30!79;UBERON:0007798!6.39e-30!79;UBERON:0000914!8.08e-29!83;UBERON:0002329!8.08e-29!83;UBERON:0003077!8.08e-29!83;UBERON:0003059!8.08e-29!83;UBERON:0007282!8.08e-29!83;UBERON:0009618!8.08e-29!83;UBERON:0007285!8.08e-29!83;UBERON:0004290!7.05e-27!70;UBERON:0000119!9.27e-27!312;UBERON:0001981!1.10e-26!60;UBERON:0007500!1.10e-26!60;UBERON:0004537!1.10e-26!60;UBERON:0006965!1.10e-26!60;UBERON:0000055!1.11e-26!69;UBERON:0000483!2.82e-26!309;UBERON:0003914!3.56e-26!118;UBERON:0000486!5.10e-25!82;UBERON:0001009!8.82e-25!113;UBERON:0004535!3.95e-24!110;UBERON:0001134!3.10e-23!61;UBERON:0002036!3.10e-23!61;UBERON:0003082!3.10e-23!61;UBERON:0002385!3.35e-23!63;UBERON:0001015!3.35e-23!63;UBERON:0000383!3.35e-23!63;UBERON:0005256!1.18e-22!143;UBERON:0001637!2.17e-22!42;UBERON:0003509!2.17e-22!42;UBERON:0004572!2.17e-22!42;UBERON:0000475!3.26e-21!365;UBERON:0000490!5.20e-21!138;UBERON:0000468!4.31e-20!659;UBERON:0000477!1.68e-19!286;UBERON:0004111!3.50e-19!241;UBERON:0004573!4.38e-18!33;UBERON:0004571!4.38e-18!33;UBERON:0000481!4.80e-17!347;UBERON:0000467!1.13e-16!625;UBERON:0000025!1.90e-16!194;UBERON:0000480!2.45e-16!626;UBERON:0002100!6.06e-16!216;UBERON:0000922!1.51e-13!612;UBERON:0002050!4.70e-13!605;UBERON:0005423!4.70e-13!605;UBERON:0000923!9.42e-13!604;UBERON:0005291!9.42e-13!604;UBERON:0006598!9.42e-13!604;UBERON:0002532!9.42e-13!604;UBERON:0007100!5.29e-12!27;UBERON:0000948!1.37e-11!24;UBERON:0005498!1.37e-11!24;UBERON:0004140!1.37e-11!24;UBERON:0009881!1.37e-11!24;UBERON:0004141!1.37e-11!24;UBERON:0003084!1.37e-11!24;UBERON:0007005!1.37e-11!24;UBERON:0004139!1.37e-11!24;UBERON:0004291!1.37e-11!24;UBERON:0000947!1.71e-11!21;UBERON:0010191!1.71e-11!21;UBERON:0003104!6.51e-11!238;UBERON:0009142!6.51e-11!238;UBERON:0003102!1.74e-09!95;UBERON:0003103!7.04e-09!69;UBERON:0001986!7.73e-09!18;UBERON:0004638!7.73e-09!18;UBERON:0004852!7.73e-09!18;UBERON:0000926!6.02e-08!448;UBERON:0004120!6.02e-08!448;UBERON:0006603!6.02e-08!448;UBERON:0006914!6.63e-08!25;UBERON:0000487!1.27e-07!22;UBERON:0001135!3.42e-07!15;UBERON:0002199!4.76e-07!45;UBERON:0002416!4.76e-07!45;UBERON:0004237!5.71e-07!10;UBERON:0004695!5.71e-07!10;UBERON:0002111!5.71e-07!10;UBERON:0004178!5.71e-07!10;UBERON:0001013!7.65e-07!14
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796449,0.0906475,0.0558058,0.28262,0.517717,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.000765564,0.0355977,0.170307,0.201033,0.0488949,0.174921,0.370421,0.0330727,0.348757,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.11002,0.26144,0.0286025,0.190156,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.0254773,0.190048,0.131088,0.394069,0.0306378,0.286988,0.0761239,0.000982125,0.0818785,0.182701,0.335058,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.0458479,0.0473033,0.094881,0.445524,0.132886,0.0774373,0.109194,0.128564,0.131452,0.687347,0.120459,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.00447267,0.739716,0.288159,0.21727,0.0465945,0.119215,0.0198413,0.00108376,0.547859,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.0713214,0.223874,0.291114,0.0355833,0.125606,0.0163112,0.696435,0.76084,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.0227848,0.0755808,0.045654,0.110216,0.070276,0.226171,0.000680617,0.0376916,0.13262,0.0450031,0.0539144,0.00678942,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.286863,0.152372,0.194941,0.218271,0.101607,0.060512,0.172982,0.340936,0.151597,0.0626744,0.00136247,0.148574,0.504592,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.170295,0.0200941,0.137219,0.0282663,0.0346616,0.288096,0.11903,0.0838874,0.331451,0.113145,0.112651,0.186638,0.01625,0.0948451,0.264079,0.249049,0.140533,0.00515192,0.257598,0.103667,0.113069,0.025556,0.16791,0.09066,0.220462,0.166967,0.188651,0.0813902,0.184948,0.156261,0.311847,0.511859,0.0590944,0.0334734,0.178389,0.218229,0.0290303,0.0972686,0.252227,0.0360851,0.412187,0.131093,0.000958383,0.00935312,0.418146,0.36927,0.120614,0.407369,0.231447,0.18653,0.43956,0.0789454,0.10748,0.448797,0.197484,0.0148336,0.36145,0.0160226,0.381071,0.057779,0.276075,0.11074,0.366326,0.0886602,0.48809,0.50058,0.117158,0.522904,0.875915,0.60734,0.227104,0.518585,0.0734371,0.38649,0.284625,0.156746,0.0091887,0.144318,0.28907,0.164197,0.128922,0.287881,0.574635,0.478174,0.336276,0.468444,0.258219,0.446557,0.243383,0.442897,0.390974,0.382874,0.683217,0.161598,0.164332,0.644754,0.0323708,0.476802,0.37357,0.200632,0.477353,0.78384,0.399222,0.771991,0.20342,0.200493,0.20558,0.300504,0.25656,0.425963,0.349197,0.383291,0.156104,0.0104921,0.411941,0.0961477,0.314438,0.0720718,0.163828,0.230581,0.120226,0.28424,0.0513026,0.314429,0.181415,0.282286,0.446891,0.616388,0.408413,0.516511,0.0586066,0.0931134,0.33942,0.61031,0.387276,0.522605,0.481611,0.537348,0.222037,0.416621,0.416292,0.128937,0.734551,0.579431,0.204817,0.122646,0.138871,0.673493,0.166905,0.19783,0.0833851,0.056391,0.140384,0.175199,0.332919,0.373557,0.170369,0.408861,0.0111982,0.0425451,0.39088,0.363192,0.236011,0.203486,0.273398,0.0816179,0.119167,0.351067,0.0419637,0.269604,0.305885,0.241132,0.371414,0.30666,0.303709,0.00533663,0.386538,0.159081,0.0345164,0.383276,0.457886,0.156714,0.220231,0.0355483,0.196976,0.191517,0.129584,0.0663581,0.307334,0.127092,0.283463,0.563586,0.00422311,0.0932845,0.00427533,0.368095,0.275089,0.0858306,0.47795,0.359231,0.339729,0.197805,0.0690807,0.387069,0.332774,0.173874,0.0502872,0.0814305,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.0348699,0.378361,0.255516,0.20753,0.119514,0.179412,0.193601,0.220904,0.222977,0.341681,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.0172483,0.226869,0.00455899,0.0855609,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.0398662,0.201602,0.350452,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.259632,0.30793,0.0173907,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.21382,0.0232077,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.0315594,0.156465,0.13108,0.256963,0.222798,0.0157468,0.176789,0.0969345,0.202137,0.0541163,0.00467879,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.0120432,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.0224775,0.295769,0.286691,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.0352561,0.177664,0.28365,0.0385243,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.283218,0.249955,0.164638,0.224257,0.0935776,0.0607319,0.225752,0.0232618,0.0958756,0.0859274,0.316866,0.0156618,0.158847,0.271275,0.071111,0.27060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}}
}}

Revision as of 16:19, 19 October 2012


Full id: C4872_Adipocyte_Cardiac_Fibroblast_Mesenchymal_Smooth_Melanocyte_Preadipocyte



Phase1 CAGE Peaks

Hg19::chrX:38031247..38031276,-p@chrX:38031247..38031276
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Hg19::chrX:38033461..38033496,-p@chrX:38033461..38033496
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Hg19::chrX:38080077..38080167,-p1@SRPX


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>

Uber Anatomy
Ontology termp-valuen
splanchnic layer of lateral plate mesoderm4.01e-2983
vasculature6.35e-2878
vascular system6.35e-2878
somite4.94e-2671
presomitic mesoderm4.94e-2671
presumptive segmental plate4.94e-2671
dermomyotome4.94e-2671
trunk paraxial mesoderm4.94e-2671
epithelial tube open at both ends5.46e-2659
blood vessel5.46e-2659
blood vasculature5.46e-2659
vascular cord5.46e-2659
circulatory system5.68e-26112
dense mesenchyme tissue6.97e-2673
cardiovascular system7.60e-26109
epithelial vesicle2.16e-2578
paraxial mesoderm3.00e-2572
presumptive paraxial mesoderm3.00e-2572
vessel2.43e-2468
multilaminar epithelium3.77e-2383
epithelial tube4.01e-23117
artery7.28e-2342
arterial blood vessel7.28e-2342
arterial system7.28e-2342
muscle tissue1.03e-2264
musculature1.03e-2264
musculature of body1.03e-2264
skeletal muscle tissue1.30e-2262
striated muscle tissue1.30e-2262
myotome1.30e-2262
unilaminar epithelium7.46e-21148
systemic artery3.55e-1933
systemic arterial system3.55e-1933
cell layer6.85e-19309
epithelium1.50e-18306
trunk mesenchyme4.87e-18122
mesenchyme4.91e-17160
entire embryonic mesenchyme4.91e-17160
mesoderm1.55e-13315
mesoderm-derived structure1.55e-13315
presumptive mesoderm1.55e-13315
heart5.05e-1324
primitive heart tube5.05e-1324
primary heart field5.05e-1324
anterior lateral plate mesoderm5.05e-1324
heart tube5.05e-1324
heart primordium5.05e-1324
cardiac mesoderm5.05e-1324
cardiogenic plate5.05e-1324
heart rudiment5.05e-1324
primary circulatory organ1.11e-1227
organism subdivision2.51e-12264
multi-cellular organism9.85e-12656
aorta1.03e-1121
aortic system1.03e-1121
anatomical conduit2.98e-11240
multi-tissue structure5.82e-11342
trunk1.41e-10199
tube1.49e-10192
anatomical system3.00e-10624
anatomical group4.28e-10625
anatomical cluster1.15e-09373
embryonic structure1.75e-08564
germ layer3.87e-08560
germ layer / neural crest3.87e-08560
embryonic tissue3.87e-08560
presumptive structure3.87e-08560
germ layer / neural crest derived structure3.87e-08560
epiblast (generic)3.87e-08560
smooth muscle tissue6.15e-0815
developing anatomical structure9.93e-08581
tissue1.33e-07773
blood vessel smooth muscle1.48e-0710
arterial system smooth muscle1.48e-0710
artery smooth muscle tissue1.48e-0710
aorta smooth muscle tissue1.48e-0710
compound organ1.65e-0768
embryo2.19e-07592

Disease
Ontology termp-valuen


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.

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