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Coexpression cluster:C3626: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000119!2.57e-18!312;UBERON:0000483!2.27e-17!309;UBERON:0000481!3.23e-17!347;UBERON:0002049!4.26e-17!79;UBERON:0007798!4.26e-17!79;UBERON:0003914!1.22e-16!118;UBERON:0000475!1.92e-16!365;UBERON:0000477!3.72e-15!286;UBERON:0005256!6.10e-15!143;UBERON:0003104!7.37e-15!238;UBERON:0009142!7.37e-15!238;UBERON:0004872!1.16e-14!84;UBERON:0000055!8.60e-14!69;UBERON:0002100!3.83e-13!216;UBERON:0000468!6.35e-13!659;UBERON:0000490!1.49e-12!138;UBERON:0001981!2.76e-12!60;UBERON:0007500!2.76e-12!60;UBERON:0004537!2.76e-12!60;UBERON:0006965!2.76e-12!60;UBERON:0000467!5.95e-12!625;UBERON:0000486!9.34e-12!82;UBERON:0000480!1.11e-11!626;UBERON:0004111!1.28e-11!241;UBERON:0001009!5.96e-11!113;UBERON:0004535!1.04e-10!110;UBERON:0000064!1.15e-10!219;UBERON:0000914!2.75e-10!83;UBERON:0002329!2.75e-10!83;UBERON:0003077!2.75e-10!83;UBERON:0003059!2.75e-10!83;UBERON:0007282!2.75e-10!83;UBERON:0009618!2.75e-10!83;UBERON:0007285!2.75e-10!83;UBERON:0003102!1.17e-09!95;UBERON:0004290!1.96e-09!70;UBERON:0001986!3.44e-09!18;UBERON:0004638!3.44e-09!18;UBERON:0004852!3.44e-09!18;UBERON:0000487!2.78e-08!22;UBERON:0000025!3.53e-08!194;UBERON:0001637!4.96e-08!42;UBERON:0003509!4.96e-08!42;UBERON:0004572!4.96e-08!42;UBERON:0003103!6.13e-08!69;UBERON:0006914!7.55e-08!25;UBERON:0004211!1.42e-07!16;UBERON:0001285!1.42e-07!16;UBERON:0007684!1.42e-07!16;UBERON:0003220!1.42e-07!16;UBERON:0004208!1.42e-07!16;UBERON:0001134!1.52e-07!61;UBERON:0002036!1.52e-07!61;UBERON:0003082!1.52e-07!61;UBERON:0000923!1.79e-07!604;UBERON:0005291!1.79e-07!604;UBERON:0006598!1.79e-07!604;UBERON:0002532!1.79e-07!604;UBERON:0002050!2.09e-07!605;UBERON:0005423!2.09e-07!605;UBERON:0004119!2.81e-07!169;UBERON:0000925!2.81e-07!169;UBERON:0006595!2.81e-07!169;UBERON:0002385!3.23e-07!63;UBERON:0001015!3.23e-07!63;UBERON:0000383!3.23e-07!63;UBERON:0000353!3.66e-07!17;UBERON:0000922!4.01e-07!612;UBERON:0006555!4.89e-07!17;UBERON:0005103!4.89e-07!17;UBERON:0000083!4.89e-07!17;UBERON:0009201!4.89e-07!17;UBERON:0004819!4.89e-07!17;UBERON:0006553!4.89e-07!17;UBERON:0003074!4.89e-07!17;UBERON:0003060!4.89e-07!17;UBERON:0001048!4.96e-07!168;UBERON:0001444!5.43e-07!48;UBERON:0001225!9.11e-07!13;UBERON:0008987!9.11e-07!13;UBERON:0004876!9.81e-07!20
|ontology_enrichment_uberon=UBERON:0000119!2.57e-18!312;UBERON:0000483!2.27e-17!309;UBERON:0000481!3.23e-17!347;UBERON:0002049!4.26e-17!79;UBERON:0007798!4.26e-17!79;UBERON:0003914!1.22e-16!118;UBERON:0000475!1.92e-16!365;UBERON:0000477!3.72e-15!286;UBERON:0005256!6.10e-15!143;UBERON:0003104!7.37e-15!238;UBERON:0009142!7.37e-15!238;UBERON:0004872!1.16e-14!84;UBERON:0000055!8.60e-14!69;UBERON:0002100!3.83e-13!216;UBERON:0000468!6.35e-13!659;UBERON:0000490!1.49e-12!138;UBERON:0001981!2.76e-12!60;UBERON:0007500!2.76e-12!60;UBERON:0004537!2.76e-12!60;UBERON:0006965!2.76e-12!60;UBERON:0000467!5.95e-12!625;UBERON:0000486!9.34e-12!82;UBERON:0000480!1.11e-11!626;UBERON:0004111!1.28e-11!241;UBERON:0001009!5.96e-11!113;UBERON:0004535!1.04e-10!110;UBERON:0000064!1.15e-10!219;UBERON:0000914!2.75e-10!83;UBERON:0002329!2.75e-10!83;UBERON:0003077!2.75e-10!83;UBERON:0003059!2.75e-10!83;UBERON:0007282!2.75e-10!83;UBERON:0009618!2.75e-10!83;UBERON:0007285!2.75e-10!83;UBERON:0003102!1.17e-09!95;UBERON:0004290!1.96e-09!70;UBERON:0001986!3.44e-09!18;UBERON:0004638!3.44e-09!18;UBERON:0004852!3.44e-09!18;UBERON:0000487!2.78e-08!22;UBERON:0000025!3.53e-08!194;UBERON:0001637!4.96e-08!42;UBERON:0003509!4.96e-08!42;UBERON:0004572!4.96e-08!42;UBERON:0003103!6.13e-08!69;UBERON:0006914!7.55e-08!25;UBERON:0004211!1.42e-07!16;UBERON:0001285!1.42e-07!16;UBERON:0007684!1.42e-07!16;UBERON:0003220!1.42e-07!16;UBERON:0004208!1.42e-07!16;UBERON:0001134!1.52e-07!61;UBERON:0002036!1.52e-07!61;UBERON:0003082!1.52e-07!61;UBERON:0000923!1.79e-07!604;UBERON:0005291!1.79e-07!604;UBERON:0006598!1.79e-07!604;UBERON:0002532!1.79e-07!604;UBERON:0002050!2.09e-07!605;UBERON:0005423!2.09e-07!605;UBERON:0004119!2.81e-07!169;UBERON:0000925!2.81e-07!169;UBERON:0006595!2.81e-07!169;UBERON:0002385!3.23e-07!63;UBERON:0001015!3.23e-07!63;UBERON:0000383!3.23e-07!63;UBERON:0000353!3.66e-07!17;UBERON:0000922!4.01e-07!612;UBERON:0006555!4.89e-07!17;UBERON:0005103!4.89e-07!17;UBERON:0000083!4.89e-07!17;UBERON:0009201!4.89e-07!17;UBERON:0004819!4.89e-07!17;UBERON:0006553!4.89e-07!17;UBERON:0003074!4.89e-07!17;UBERON:0003060!4.89e-07!17;UBERON:0001048!4.96e-07!168;UBERON:0001444!5.43e-07!48;UBERON:0001225!9.11e-07!13;UBERON:0008987!9.11e-07!13;UBERON:0004876!9.81e-07!20
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717,0.137332,0.0145999,0.0656973,0.211746,0.220538,0.0801488,0.0757897,0.161801,0.193215,0.0549034,0.0779715,0.0561838,0.0417636,0.0345419,0.0388736,0.254674,0.170307,0.201033,0.0488949,0.174921,0.0791124,0.0330727,0.0694567,0.219556,0.0394698,0.0596469,0.419264,0.122476,0.108872,0.11002,0.00370214,0.0286025,0.001389,0.144567,0.038848,0.0874516,0.0550279,0.144067,0.253693,0.217069,0.190048,0.131088,0.090504,0.237101,0.286988,0.0761239,0.172491,0.0818785,0.182701,0.00836526,0.147698,0.141463,0.167267,0.140622,0.0889592,0.309588,0.0458479,0.0473033,0.094881,0.445524,0.132886,0.0774373,0.109194,0.128564,0.131452,0.0306206,0.448776,0.051838,0.0993999,0.0500365,0.061829,0.0755121,0.0936516,0.144075,0.0340203,0.0741807,0.277091,0.153605,0.655293,0.21727,0.0465945,0.119215,0.192475,0.177967,0.00136406,0.057571,0.047591,0.392974,0.0608699,0.175319,0.300597,0.00260609,0.223874,0.291114,0.0355833,0.125606,0.175094,0.0121461,0.000581378,0.206454,0.218192,0.108277,0.0673484,0.108748,0.0494066,0.0958493,0.205732,0.0755808,0.045654,0.110216,0.070276,0.226171,0.153469,0.0376916,0.13262,0.0450031,0.0539144,0.114242,0.0929549,0.172425,0.104948,0.221645,0.057168,0.234298,0.0759837,0.286863,0.152372,0.194941,0.00207136,0.101607,0.327067,0.172982,0.340936,0.151597,0.0626744,0.191335,0.148574,0.504592,0.155821,0.0718905,0.0919008,0.0602373,0.144304,0.15063,0.0973823,0.15503,0.170295,0.193653,0.137219,0.228144,0.251466,0.288096,0.11903,0.0838874,0.331451,0.000263756,0.112651,0.186638,0.174776,0.0948451,0.264079,0.249049,0.140533,0.0997756,0.257598,0.103667,0.113069,0.025556,0.16791,0.09066,0.585505,0.166967,0.188651,0.0813902,0.184948,0.156261,0.0546539,0.161789,0.0590944,0.247324,0.178389,0.218229,0.231073,0.0972686,0.0743925,0.0360851,0.412187,0.131093,0.0434602,0.133616,0.418146,0.36927,0.449036,0.407369,0.231447,0.544776,0.43956,0.37006,0.42622,0.448797,0.197484,0.396996,0.36145,0.0160226,0.381071,0.057779,0.643768,0.432035,0.366326,0.390366,0.48809,0.0334527,0.443185,0.522904,0.158867,0.336835,0.227104,0.518585,0.0167433,0.0867545,0.284625,0.504757,0.55194,0.0108655,0.28907,0.164197,0.462688,0.0461094,0.574635,0.478174,0.336276,0.468444,0.258219,0.446557,0.243383,0.191695,0.390974,0.0458848,0.029557,0.161598,0.013901,0.644754,0.496032,0.0239796,0.37357,0.200632,0.477353,0.78384,0.0132585,0.0175763,0.20342,0.200493,0.20558,0.300504,0.25656,0.107337,0.349197,0.383291,0.156104,0.141318,0.411941,0.0961477,0.314438,0.354789,0.163828,0.230581,0.120226,0.28424,0.562405,0.314429,0.181415,0.282286,0.194707,0.616388,0.408413,0.516511,0.322213,0.656109,0.33942,0.61031,0.387276,0.522605,0.0248202,0.537348,0.222037,0.416621,0.416292,0.462712,0.148994,0.579431,0.204817,0.452428,0.138871,0.027191,0.166905,0.19783,0.0833851,0.316453,0.48065,0.175199,0.332919,0.373557,0.523625,0.408861,0.0768488,0.534741,0.39088,0.0758087,0.236011,0.203486,0.273398,0.375787,0.119167,0.00977892,0.275347,0.00388821,0.305885,0.241132,0.371414,0.30666,0.303709,0.0323359,0.386538,0.508064,0.250964,0.383276,0.457886,0.504711,0.220231,0.159791,0.196976,0.191517,0.463751,0.235208,0.307334,0.459728,0.283463,0.563586,0.472935,0.399569,0.273281,0.368095,0.275089,0.384593,0.47795,0.359231,0.339729,0.197805,0.0690807,0.387069,0.332774,0.0406989,0.299887,0.266492,0.205413,0.17639,0.0779009,0.276869,0.205298,0.0337138,0.18966,0.258854,0.188263,0.0719199,0.264884,0.162568,0.19104,0.163057,0.219428,0.208013,0.0900729,0.0953646,0.166124,0.252184,0.378361,0.255516,0.20753,0.447185,0.179412,0.193601,0.220904,0.222977,0.341681,0.310674,0.21801,0.198614,0.186804,0.123324,0.199468,0.0325925,0.0933115,0.12405,0.179889,0.226869,0.27872,0.0855609,0.131118,0.20837,0.247588,0.222339,0.0673329,0.20847,0.266544,0.113092,0.145701,0.229428,0.162145,0.228955,0.168748,0.0384949,0.0660995,0.0521984,0.0455518,0.268741,0.201602,0.350452,0.154941,0.120196,0.0986735,0.108462,0.0595618,0.21593,0.158479,0.220319,0.195218,0.124213,0.259632,0.30793,0.180606,0.159884,0.257294,0.150733,0.217112,0.123917,0.184317,0.185335,0.0723291,0.258496,0.261744,0.203781,0.21382,0.207559,0.141867,0.193031,0.249101,0.115972,0.224568,0.246105,0.173026,0.200432,0.139785,0.197112,0.240478,0.156465,0.13108,0.256963,0.222798,0.172134,0.176789,0.0969345,0.202137,0.310405,0.280943,0.218161,0.0822373,0.202065,0.106739,0.0536053,0.0537737,0.15113,0.078016,0.0407233,0.0537355,0.319922,0.261724,0.211332,0.187731,0.233626,0.189559,0.0812887,0.0981146,0.064145,0.121913,0.0638699,0.104603,0.0663259,0.0762523,0.128736,0.109171,0.04411,0.066952,0.089609,0.0367455,0.13497,0.204393,0.295769,0.286691,0.347036,0.141729,0.263159,0.255956,0.200105,0.227491,0.29837,0.253509,0.177664,0.28365,0.264413,0.131761,0.160658,0.206239,0.19924,0.28689,0.236464,0.325148,0.115817,0.218052,0.223831,0.11528,0.194982,0.190993,0.281727,0.0445413,0.249955,0.164638,0.224257,0.0935776,0.327622,0.225752,0.207791,0.0958756,0.0859274,0.316866,0.171683,0.158847,0.271275,0.071111,0.270604,0.101021,0.222548,0.175934,0.157274,0.215705,0.252796,0.0228361,0.361435
}}
}}

Revision as of 12:37, 5 September 2012


Full id: C3626_Pericytes_oral_Hair_Hepatic_Endothelial_Mesothelial_clear



Phase1 CAGE Peaks

Hg19::chr17:36609912..36609923,+p@chr17:36609912..36609923
+
Hg19::chr17:36609926..36609952,+p@chr17:36609926..36609952
+
Hg19::chr17:36609957..36609978,+p@chr17:36609957..36609978
+


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
mesodermal cell8.75e-26119
embryonic cell6.29e-24248
epithelial cell1.34e-19254
non-terminally differentiated cell2.47e-18180
squamous epithelial cell7.96e-1862
lining cell2.78e-1757
barrier cell2.78e-1757
meso-epithelial cell1.55e-1244
fibroblast7.13e-1275
endothelial cell2.84e-1135
contractile cell6.45e-1159
endothelial cell of vascular tree4.38e-1024
blood vessel endothelial cell3.44e-0918
embryonic blood vessel endothelial progenitor cell3.44e-0918
muscle cell1.28e-0854
muscle precursor cell2.97e-0857
myoblast2.97e-0857
multi-potent skeletal muscle stem cell2.97e-0857
mesothelial cell9.62e-0819
smooth muscle cell1.27e-0742
smooth muscle myoblast1.27e-0742
epithelial cell of nephron1.42e-0716
kidney cortical cell9.11e-0713
renal cortical epithelial cell9.11e-0713
animal cell9.85e-07679
eukaryotic cell9.85e-07679
Uber Anatomy
Ontology termp-valuen
cell layer2.57e-18312
epithelium2.27e-17309
multi-tissue structure3.23e-17347
vasculature4.26e-1779
vascular system4.26e-1779
epithelial tube1.22e-16118
organism subdivision1.92e-16365
anatomical cluster3.72e-15286
trunk mesenchyme6.10e-15143
mesenchyme7.37e-15238
entire embryonic mesenchyme7.37e-15238
splanchnic layer of lateral plate mesoderm1.16e-1484
vessel8.60e-1469
trunk3.83e-13216
multi-cellular organism6.35e-13659
unilaminar epithelium1.49e-12138
blood vessel2.76e-1260
epithelial tube open at both ends2.76e-1260
blood vasculature2.76e-1260
vascular cord2.76e-1260
anatomical system5.95e-12625
multilaminar epithelium9.34e-1282
anatomical group1.11e-11626
anatomical conduit1.28e-11241
circulatory system5.96e-11113
cardiovascular system1.04e-10110
organ part1.15e-10219
somite2.75e-1083
paraxial mesoderm2.75e-1083
presomitic mesoderm2.75e-1083
presumptive segmental plate2.75e-1083
trunk paraxial mesoderm2.75e-1083
presumptive paraxial mesoderm2.75e-1083
surface structure1.17e-0995
dermomyotome1.96e-0970
endothelium3.44e-0918
blood vessel endothelium3.44e-0918
cardiovascular system endothelium3.44e-0918
simple squamous epithelium2.78e-0822
tube3.53e-08194
artery4.96e-0842
arterial blood vessel4.96e-0842
arterial system4.96e-0842
compound organ6.13e-0869
squamous epithelium7.55e-0825
nephron epithelium1.42e-0716
nephron1.42e-0716
uriniferous tubule1.42e-0716
metanephric mesenchyme1.42e-0716
nephrogenic mesenchyme1.42e-0716
skeletal muscle tissue1.52e-0761
striated muscle tissue1.52e-0761
myotome1.52e-0761
germ layer1.79e-07604
embryonic tissue1.79e-07604
presumptive structure1.79e-07604
epiblast (generic)1.79e-07604
embryonic structure2.09e-07605
developing anatomical structure2.09e-07605
endoderm-derived structure2.81e-07169
endoderm2.81e-07169
presumptive endoderm2.81e-07169
muscle tissue3.23e-0763
musculature3.23e-0763
musculature of body3.23e-0763
parenchyma3.66e-0717
embryo4.01e-07612
excretory tube4.89e-0717
mesonephric epithelium4.89e-0717
mesonephric tubule4.89e-0717
nephric duct4.89e-0717


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

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

TF#promotersEnrichmentp-valueq-value
E2F1#186934.907389214879320.008460985347239390.0324873841426594



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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