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Coexpression cluster:C292: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0005586!collagen type III!0.000853644177557989!1281$GO:0005583!fibrillar collagen!0.00469504297656894!1281$GO:0005581!collagen!0.0153655951960438!1281$GO:0005201!extracellular matrix structural constituent!0.0170728835511598!1281$GO:0044420!extracellular matrix part!0.0170728835511598!1281$GO:0006817!phosphate transport!0.0170728835511598!1281$GO:0003013!circulatory system process!0.0170728835511598!1281$GO:0008015!blood circulation!0.0170728835511598!1281$GO:0015698!inorganic anion transport!0.0246608317961197!1281$GO:0006820!anion transport!0.027572706935123!1281$GO:0009887!organ morphogenesis!0.028092653843272!1281$GO:0005578!proteinaceous extracellular matrix!0.0299486832293261!1281
|gostat_on_coexpression_clusters=GO:0005586!collagen type III!0.000853644177557989!1281$GO:0005583!fibrillar collagen!0.00469504297656894!1281$GO:0005581!collagen!0.0153655951960438!1281$GO:0005201!extracellular matrix structural constituent!0.0170728835511598!1281$GO:0044420!extracellular matrix part!0.0170728835511598!1281$GO:0006817!phosphate transport!0.0170728835511598!1281$GO:0003013!circulatory system process!0.0170728835511598!1281$GO:0008015!blood circulation!0.0170728835511598!1281$GO:0015698!inorganic anion transport!0.0246608317961197!1281$GO:0006820!anion transport!0.027572706935123!1281$GO:0009887!organ morphogenesis!0.028092653843272!1281$GO:0005578!proteinaceous extracellular matrix!0.0299486832293261!1281
|id=C292
|id=C292
|ontology_enrichment_celltype=CL:0000055!5.25e-31!180;CL:0000057!6.99e-18!75;CL:0000680!2.43e-16!57;CL:0000056!2.43e-16!57;CL:0000355!2.43e-16!57;CL:0000187!4.37e-16!54;CL:0000183!6.97e-16!59;CL:0000393!1.11e-13!60;CL:0000211!1.11e-13!60;CL:0000192!3.90e-12!42;CL:0000514!3.90e-12!42;CL:0000359!1.48e-08!32;CL:0000222!3.17e-07!119;CL:0000136!3.64e-07!15;CL:0002494!7.21e-07!16
|ontology_enrichment_celltype=CL:0000057!1.10e-20!76;CL:0000187!1.76e-15!55;CL:0000183!2.02e-15!59;CL:0000680!2.18e-15!58;CL:0000056!2.18e-15!58;CL:0000355!2.18e-15!58;CL:0000393!1.72e-12!61;CL:0000211!1.72e-12!61;CL:0000048!2.56e-12!427;CL:0000723!1.73e-11!433;CL:0000034!5.54e-11!441;CL:0000192!7.13e-11!43;CL:0000514!7.13e-11!43;CL:0000349!4.04e-10!19;CL:0000055!1.45e-09!106;CL:0002334!4.11e-08!12;CL:0002494!4.43e-08!16;CL:0000499!2.39e-07!28;CL:0000327!6.63e-07!15
|ontology_enrichment_disease=
|ontology_enrichment_disease=DOID:2394!3.53e-08!14
|ontology_enrichment_uberon=UBERON:0000914!2.65e-19!83;UBERON:0002329!2.65e-19!83;UBERON:0003077!2.65e-19!83;UBERON:0003059!2.65e-19!83;UBERON:0007282!2.65e-19!83;UBERON:0009618!2.65e-19!83;UBERON:0007285!2.65e-19!83;UBERON:0004290!3.51e-18!70;UBERON:0002385!1.45e-17!63;UBERON:0001015!1.45e-17!63;UBERON:0000383!1.45e-17!63;UBERON:0001134!2.16e-17!61;UBERON:0002036!2.16e-17!61;UBERON:0003082!2.16e-17!61;UBERON:0005256!6.66e-16!143;UBERON:0000486!1.59e-13!82;UBERON:0000481!1.98e-12!347;UBERON:0000468!1.44e-11!659;UBERON:0000475!4.13e-11!365;UBERON:0002100!4.40e-11!216;UBERON:0003104!4.57e-11!238;UBERON:0009142!4.57e-11!238;UBERON:0004872!4.24e-10!84;UBERON:0007100!3.86e-08!27;UBERON:0000948!3.96e-08!24;UBERON:0005498!3.96e-08!24;UBERON:0004140!3.96e-08!24;UBERON:0009881!3.96e-08!24;UBERON:0004141!3.96e-08!24;UBERON:0003084!3.96e-08!24;UBERON:0007005!3.96e-08!24;UBERON:0004139!3.96e-08!24;UBERON:0004291!3.96e-08!24;UBERON:0000490!1.71e-07!138;UBERON:0001013!3.44e-07!14;UBERON:0000478!4.12e-07!24;UBERON:0004923!4.96e-07!57;UBERON:0000479!7.91e-07!787;UBERON:0000926!8.49e-07!448;UBERON:0004120!8.49e-07!448;UBERON:0006603!8.49e-07!448
|ontology_enrichment_uberon=UBERON:0002385!3.39e-16!64;UBERON:0001015!3.39e-16!64;UBERON:0000383!3.39e-16!64;UBERON:0001134!8.20e-16!62;UBERON:0002036!8.20e-16!62;UBERON:0003082!8.20e-16!62;UBERON:0007524!3.33e-15!73;UBERON:0002329!4.04e-15!71;UBERON:0003059!4.04e-15!71;UBERON:0007282!4.04e-15!71;UBERON:0004290!4.04e-15!71;UBERON:0009618!4.04e-15!71;UBERON:0003077!1.14e-14!72;UBERON:0007285!1.14e-14!72;UBERON:0003104!1.51e-12!160;UBERON:0009142!1.51e-12!160;UBERON:0007503!3.07e-12!78;UBERON:0000486!5.24e-12!83;UBERON:0005256!6.52e-11!122;UBERON:0000926!1.48e-10!315;UBERON:0004120!1.48e-10!315;UBERON:0006603!1.48e-10!315;UBERON:0000478!4.94e-09!24;UBERON:0004872!1.83e-08!83;UBERON:0000948!4.16e-08!24;UBERON:0005498!4.16e-08!24;UBERON:0004140!4.16e-08!24;UBERON:0009881!4.16e-08!24;UBERON:0004141!4.16e-08!24;UBERON:0003084!4.16e-08!24;UBERON:0007005!4.16e-08!24;UBERON:0004139!4.16e-08!24;UBERON:0004291!4.16e-08!24;UBERON:0001013!2.56e-07!14;UBERON:0007100!3.08e-07!27;UBERON:0002100!4.32e-07!199;UBERON:0004923!5.21e-07!66
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7989,0.00139909,0.953437,0.515298,0.0491495,0.239815,0.143737,0.0682424,3.28986e-06,1.10871e-26,0.739533,0.00401807,0.152971,0.00153936,0.00717816,0.198331,0.0683187,0.152092,0.385629,1.77138e-07,0.360956,0.000302873,0.144761,0.00865747,0.0243577,1.8263e-06,0.344437,6.9865e-08,0.471428,0.0142907,0.405978,2.86696e-05,0.536683,0.739831,0.000421365,0.194032,8.15539e-05,0.863021,0.0127428,6.93857e-07,0.000200743,0.924879,0.210349,0.563165,0.0329617,0.0545832,0.0257293,0.40284,0.440954,0.928727,0.142838,0.638908,0.00681305,0.312526,0.965208,0.0881696,0.998145,0.300413,0.446019,0.00034751,0.542945,0.0137264,0.00779791,0.509699,0.287665,0.346635,0.999322,0.0826053,0.440735,0.388056,0.202077,0.196922,0.427965,5.72606e-06,0.596981,0.339793,0.856443,0.0493225,0.377216,0.323331,0.302931,0.00185936,0.567563,0.997483,0.0103004,0.0765634,0.502601,0.891682,0.0129702,0.995632,0.232515,0.00084019,0.181702,0.497339,0.876467,0.116661,0.505477,0.146198,0.0589019,0.999823,0.263169,1.77819e-05,0.453989,0.528985,0.0689261,0.319798,0.176789,2.74582e-05,0.0925324,0.677112,0.0534867,0.926526,0.495244,0.0115355,0.0321505,0.555303,0.00503075,0.00940916,0.999991,0.580904,0.161091,0.999339,0.0025871,0.000709649,0.894433,0.295557,0.717453,2.2259e-05,6.48636e-13,0.00416799,0.536039,1,1,0.439802,0.000102805,0.0903388,0.640346,0.0914828,0.0395996,5.82331e-08,0.126722,0.11041,0.496091,1.95685e-06,0.656553,9.84631e-06,0.000232115,0.0196629,0.616963,0.491026,0.00958169,8.22472e-10,0.0155093,0.148567,0.803312,0.0340924,0.578268,0.00241976,0.030325,0.992977,0.911486,0.00168548,0.295786,0.209302,0.363148,0.150091,0.272005,6.51198e-09,0.00294006,0.014579,0.419553,0.999966,1.18532e-05,0.298852,0.000113914,0.231621,0.0820822,0.095179,0.0659807,2.56624e-21,0.935304,0.042047,0.0232682,0.0907096,0.00441924,0.556678,0.554408,0.723359,0.00120255,0.828142,0.826731,0.0125618,0.0251285,0.768117,5.22909e-06,8.89438e-06,0.0020963,0.201674,5.3292e-05,0.0239682,0.000485402,0.0561916,0.285015,0.406047,0.158587,0.931391,8.74712e-07,0.712091,0.352629,0.107761,5.12721e-06,0.0401323,0.0617718,0.403772,0.782493,0.295636,0.000667554,0.999534,0.99999,0.416688,0.996372,0.154038,0.478832,0.35134,0.803442,0.667533,7.64564e-22,5.31203e-05,5.2817e-05,0.371828,0.925302,9.06944e-06,0.071157,0.172176,0.832252,0.000699912,0.000174721,0.357337,0.555721,0.00608111,0.888116,0.721526,0.999819,0.305177,0.999412,0.990965,0.246389,0.998632,1,1,5.28263e-07,0.126487,0.749013,0.292732,0.000590305,0.100394,0.997274,0.79529,0.00203258,0.005706,0.890862,0.0133272,0.196994,7.48073e-19,0.257633,0.999031,0.812583,0.00369941,0.0567061,0.998524,7.5265e-07,0.999892,0.910226,0.000359409,0.998379,0.353182,0.0505061,0.999934,0.0472705,0.999599,0.610198,0.988022,0.998106,0.913368,0.000188166,0.96244,0.436266,0.600861,0.150006,0.908155,0.986595,0.710544,0.00110744,4.17023e-06,0.983767,0.772963,0.108801,0.00646871,0.00562571,0.978601,0.0423681,0.956236,0.993019,0.974249,0.174092,0.0271829,0.999997,0.00972168,0.881804,0.380058,0.00085855,0.000190735,0.000203975,0.932314,0.00017933,0.642401,1,0.987717,0.00151552,0.00140132,2.23887e-08,0.803165,0.998878,0.294978,0.848711,0.065756,5.7474e-07,0.982516,0.50103,0.00609068,1.15012e-07,0.200508,0.172929,1.42684e-09,0.146399,0.813807,0.405943,0.050852,7.19304e-06,0.0013431,0.73254,0.22274,0.754223,0.845827,0.502465,3.74155e-05,9.35978e-10,1.37381e-14,1.0115e-15,0.926179,0.021357,0.0227938,0.0855499,0.0950527,0.775722,5.04176e-05,0.110773,0.977536,0.417593,0.178633,0.54172,0.806006,0.0328946,0.0655061,0.222498,0.817806,2.03758e-13,0.992313,0.000158889,0.297575,0.0279713,0.442451,0.956933,0.00450511,8.72798e-06,0.0421641,0.0512485,7.24748e-20,9.20914e-07,0.890058,0.568382,0.960545,0.983358,0.18815,0.0399755,0.922258,0.0183417,0.00267175,0.00789157,0.00074627,0.0328657,5.73982e-11,0.00786149,0.395284,0.00135053,0.639419,8.55362e-05,0.665353,0.470426,8.73188e-05,0.377264,0.000387653,6.60653e-06,0.000235604,0.402769,0.770061,0.0193135,2.61116e-06,0.0521164,0.00175519,1.82625e-11,0.258336,0.554059,2.70667e-05,0.164394,0.00157277,0.0232236,1.29104e-06,1.34501e-06,0.0475595,7.89626e-05,0.574827,3.4821e-10,0.38491,0.762288,0.85666,1.39372e-08,0.521147,0.00394054,0.00233223,0.018882,0.0598083,0.000405107,0.712554,0.640258,0.665799,0.30503,0.82799,0.0304961,0.734713,0.0486476,0.00593764,0.138692,0.437715,0.633217,0.00130896,0.00530538,0.180715,0.000641243,1.10586e-05,0.235843,0.00323761,0.782093,0.238518,0.593703,9.16387e-05,0.00123872,0.495383,0.103748,0.0478503,0.0150774,0.17814,0.00320712,0.254277,5.24924e-05,0.0354483,0.0114793,0.856342,0.00107058,0.0845595,0.000972997,0.154679,0.00220186,0.648988,0.469475,0.854515,0.0773345,0.209758,0.0279957,0.539515,0.174256,0.00368446,0.30504,0.00666678,0.379539,0.624237,0.76688,0.00112664,0.0188561,4.01547e-08,0.975198,0.147773,0.319942,0.000166128,0.239599,0.10152,0.116938,6.11953e-06,0.00937851,0.642715,3.11521e-12,0.554282,0.555443,0.431105,0.334239,0.456528,0.55518,0.0299492,0.288625,0.0260514,1.90981e-05,0.0186024,0.0378456,0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}}
}}

Revision as of 14:34, 19 October 2012


Full id: C292_Mesenchymal_skin_umbilical_Adipocyte_mesenchymal_Chondrocyte_skeletal



Phase1 CAGE Peaks

Hg19::chr17:48261721..48261729,-p@chr17:48261721..48261729
-
Hg19::chr2:189839090..189839105,+p1@COL3A1
Hg19::chr2:189849579..189849628,+p@chr2:189849579..189849628
+
Hg19::chr2:189849915..189849949,+p@chr2:189849915..189849949
+
Hg19::chr2:189850401..189850478,+p@chr2:189850401..189850478
+
Hg19::chr2:189851773..189851845,+p4@COL3A1
Hg19::chr2:189852804..189852835,+p@chr2:189852804..189852835
+
Hg19::chr2:189855724..189855761,+p@chr2:189855724..189855761
+
Hg19::chr2:189856903..189856926,+p@chr2:189856903..189856926
+
Hg19::chr2:189857607..189857646,+p@chr2:189857607..189857646
+
Hg19::chr2:189858077..189858096,+p@chr2:189858077..189858096
+
Hg19::chr2:189858136..189858149,+p@chr2:189858136..189858149
+
Hg19::chr2:189858758..189858780,+p@chr2:189858758..189858780
+
Hg19::chr2:189858991..189859033,+p@chr2:189858991..189859033
+
Hg19::chr2:189859261..189859297,+p@chr2:189859261..189859297
+
Hg19::chr2:189859443..189859507,+p@chr2:189859443..189859507
+
Hg19::chr2:189861175..189861198,+p@chr2:189861175..189861198
+
Hg19::chr2:189864003..189864023,+p@chr2:189864003..189864023
+
Hg19::chr2:189864188..189864235,+p@chr2:189864188..189864235
+
Hg19::chr2:189864267..189864279,+p@chr2:189864267..189864279
+
Hg19::chr2:189866256..189866277,+p@chr2:189866256..189866277
+
Hg19::chr2:189867024..189867049,+p@chr2:189867024..189867049
+
Hg19::chr2:189869053..189869071,+p19@COL3A1
Hg19::chr2:189873664..189873737,+p2@COL3A1
Hg19::chr2:189873740..189873791,+p3@COL3A1
Hg19::chr2:189873796..189873815,+p12@COL3A1
Hg19::chr2:189873877..189873903,+p10@COL3A1
Hg19::chr2:189874898..189874924,+p@chr2:189874898..189874924
+
Hg19::chr2:189874955..189875006,+p@chr2:189874955..189875006
+
Hg19::chr2:189875363..189875390,+p@chr2:189875363..189875390
+
Hg19::chr2:189875404..189875442,+p@chr2:189875404..189875442
+
Hg19::chr2:189875563..189875584,+p@chr2:189875563..189875584
+
Hg19::chr2:189876360..189876377,+p4@AF130082
Hg19::chr2:189876383..189876417,+p3@AF130082
Hg19::chr2:189876466..189876506,+p1@AF130082
Hg19::chr2:189876532..189876594,+p2@AF130082
Hg19::chr2:189876664..189876675,+p10@AF130082
Hg19::chr2:189876710..189876721,+p7@AF130082
Hg19::chr2:189876741..189876752,+p9@AF130082
Hg19::chr2:189876820..189876830,+p11@AF130082
Hg19::chr2:189876888..189876899,+p12@AF130082
Hg19::chr2:189877182..189877191,+p@chr2:189877182..189877191
+
Hg19::chr2:189877298..189877309,+p@chr2:189877298..189877309
+
Hg19::chr2:189877348..189877367,+p@chr2:189877348..189877367
+


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:0005586collagen type III0.000853644177557989
GO:0005583fibrillar collagen0.00469504297656894
GO:0005581collagen0.0153655951960438
GO:0005201extracellular matrix structural constituent0.0170728835511598
GO:0044420extracellular matrix part0.0170728835511598
GO:0006817phosphate transport0.0170728835511598
GO:0003013circulatory system process0.0170728835511598
GO:0008015blood circulation0.0170728835511598
GO:0015698inorganic anion transport0.0246608317961197
GO:0006820anion transport0.027572706935123
GO:0009887organ morphogenesis0.028092653843272
GO:0005578proteinaceous extracellular matrix0.0299486832293261



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
muscle tissue3.39e-1664
musculature3.39e-1664
musculature of body3.39e-1664
skeletal muscle tissue8.20e-1662
striated muscle tissue8.20e-1662
myotome8.20e-1662
dense mesenchyme tissue3.33e-1573
somite4.04e-1571
presomitic mesoderm4.04e-1571
presumptive segmental plate4.04e-1571
dermomyotome4.04e-1571
trunk paraxial mesoderm4.04e-1571
paraxial mesoderm1.14e-1472
presumptive paraxial mesoderm1.14e-1472
mesenchyme1.51e-12160
entire embryonic mesenchyme1.51e-12160
epithelial vesicle3.07e-1278
multilaminar epithelium5.24e-1283
trunk mesenchyme6.52e-11122
mesoderm1.48e-10315
mesoderm-derived structure1.48e-10315
presumptive mesoderm1.48e-10315
extraembryonic structure4.94e-0924
splanchnic layer of lateral plate mesoderm1.83e-0883
heart4.16e-0824
primitive heart tube4.16e-0824
primary heart field4.16e-0824
anterior lateral plate mesoderm4.16e-0824
heart tube4.16e-0824
heart primordium4.16e-0824
cardiac mesoderm4.16e-0824
cardiogenic plate4.16e-0824
heart rudiment4.16e-0824
adipose tissue2.56e-0714
primary circulatory organ3.08e-0727
trunk4.32e-07199
organ component layer5.21e-0766
Disease
Ontology termp-valuen
ovarian cancer3.53e-0814


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