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Coexpression cluster:C1524: Difference between revisions

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0.076236,0.444489,0.31161,0.361651,0.0953991,0.319245,0.603631,0.0650516,0.575882,0.390908,0.0773818,0.115736,0.296177,0.229952,0.205891,0.207936,0.123916,0.0563868,0.473176,0.268235,0.0761868,0.167255,0.107028,0.267379,0.443026,0.387018,0.343977,0.244992,0.632847,0.102964,0.491614,0.146453,0.315229,0.157053,0.332022,0.557852,0.273582,0.262915,0.306556,0.26147,0.170005,0.523331,0.147801,0.092369,0.18076,0.692556,0.248113,0.148878,0.206465,0.240599,0.245625,0.902248,0.696152,0.100989,0.188919,0.0975693,0.119835,0.145322,0.178533,0.267392,0.0668831,0.142859,0.477403,0.932252,0.881177,0.387334,0.494914,0.224219,0.347904,0.324262,0.795569,0.111827,0.0929171,0.63152,0.118035,0.319902,0.510835,0.137556,0.397628,0.49748,0.0699003,0.235435,0.31953,0.954017,0.912024,0.0790496,0.388777,0.204831,0.130161,0.205669,0.0963721,0.182511,0.369139,0.145449,0.0892237,0.208284,0.135613,0.401189,0.283386,0.0739625,0.247651,0.0879809,0.104922,0.215434,0.177269,0.31512,0.198881,0.394164,0.111068,0.4137,0.146194,0.147563,0.281527,0.35188,0.3889,0.192889,0.547162,0.316041,0.565635,0.280212,0.121421,0.346061,0.275075,0.167651,0.287361,0.138613,0.175356,0.116846,0.267784,0.278571,0.185281,0.286026,0.31159,0.349805,0.255609,0.404239,0.439697,0.493192,0.223892,0.160738,0.193111,0.213489,0.212611,0.338443,0.0573663,0.180695,0.45842,0.436073,0.261316,0.0192309,0.448839,0.196587,0.213353,0.0504588,0.307626,0.173101,0.828194,0.306056,0.341713,0.156156,0.0639829,0.0461852,0.526446,0.761719,0.114697,0.433479,0.324956,0.388835,0.0980391,0.281184,0.855529,0.070868,0.654476,0.245,0.0850317,0.0340601,0.661446,0.000389226,0.696439,0.0219639,0.409327,0.792771,0.685907,0.603176,0.670776,0.696176,0.355968,0.268531,0.592254,0.27962,0.616927,0.518189,0.15467,0.0281229,0.47184,0.260486,0.152011,0.163758,0.689958,0.772379,0.599685,0.983425,0.402631,0.768239,0.302735,0.623606,0.145412,0.754734,0.218104,0.735002,0.494578,0.301433,0.711296,0.492887,0.245317,0.727698,0.559471,0.717449,0.449761,0.6937,0.427531,0.950427,0.629087,0.929695,0.899649,0.297082,0.765839,0.8738,0.397935,0.830195,0.607585,0.953814,0.142357,0.810134,0.759983,0.794297,0.36546,0.360788,0.368898,0.160962,0.00322046,0.670481,0.576455,0.251998,0.287839,0.262665,0.286983,0.183051,0.530004,0.218878,0.300816,0.407994,0.225997,0.0304585,0.808511,0.0411734,0.329919,0.484887,0.359097,0.300668,0.650025,0.426477,0.540605,0.881739,0.563634,0.848142,0.624569,0.772094,0.406519,0.455987,0.394773,0.659669,0.659285,0.711322,0.929537,0.823122,0.367684,0.339006,0.258457,0.893393,0.305952,0.356524,0.159817,0.177234,0.376842,0.319704,0.555004,0.607569,0.773067,0.650555,0.597394,0.783534,0.628973,0.594475,0.416321,0.365565,0.47205,0.24311,0.331346,0.578885,0.474879,0.331214,0.0379232,0.424119,0.0676419,0.167166,0.515179,0.745866,0.623664,0.414645,0.438945,0.619652,0.125881,0.40997,0.39196,0.172059,0.355152,0.346355,0.130708,0.841498,0.520214,0.348678,0.486574,0.809543,0.722202,0.639482,0.471879,0.600697,0.474504,0.621275,0.373171,0.589415,0.564042,0.356483,0.120876,0.624316,0.55481,0.191884,0.509842,0.866311,0.368631,0.321667,0.149733,0.477082,0.368449,0.066291,0.343349,0.12161,0.341084,0.0100924,0.459605,0.298707,0.345583,0.0501588,0.0888292,0.372757,0.172033,0.181635,0.304651,0.440771,0.613566,0.445744,0.371991,0.332112,0.326635,0.349721,0.39301,0.396235,0.566617,0.524829,0.388491,0.357781,0.338712,0.231439,0.359148,0.0641227,0.177916,0.0294624,0.327419,0.402268,0.479755,0.163801,0.245045,0.373321,0.433875,0.395243,0.130132,0.373481,0.462042,0.213394,0.270174,0.406219,0.298,0.40549,0.30902,0.0755079,0.12783,0.101672,0.0890286,0.465261,0.362561,0.578088,0.285875,0.225945,0.18761,0.20516,0.115576,0.385234,0.291842,0.392097,0.352327,0.232997,0.451856,0.168458,0.0611183,0.294205,0.448388,0.278746,0.387086,0.232479,0.334662,0.336321,0.139427,0.450171,0.454978,0.366035,0.0845395,0.372037,0.263608,0.0694754,0.43615,0.218495,0.398705,0.431643,0.316114,0.360691,0.26003,0.35537,0.423126,0.288449,0.244977,0.447896,0.395958,0.314638,0.322324,0.184473,0.363414,0.524458,0.482957,0.388728,0.157712,0.3633,0.202084,0.104337,0.104656,0.0432864,0.149946,0.0797883,0.104584,0.537494,0.454949,0.378002,0.340219,0.412672,0.343186,0.155969,0.186603,0.124175,0.228962,0.12366,0.198264,0.128253,0.14669,0.240899,0.206424,0.0862744,0.129421,0.171188,0.0721407,0.251724,0.36701,0.156256,0.491191,0.573638,0.263371,0.457065,0.446399,0.360168,0.403229,0.507716,0.442751,0.323763,0.486842,0.458912,0.246162,0.295506,0.369944,0.358783,0.491474,0.102439,0.544575,0.21822,0.388558,0.397562,0.21727,0.351946,0.345508,0.142644,0.144065,0.437432,0.302171,0.398223,0.178399,0.547908,0.400541,0.372405,0.182559,0.164471,0.533328,0.313891,0.292462,0.46896,0.137165,0.467981,0.191837,0.395568,0.320916,0.289812,0.384881,0.441686,0.369492,0.592234
|tfbs_overrepresentation_for_novel_motifs=0.44418,1.35536,0.436508,0.58616,1.01854,0.584466,0.662701,0.269608,0.267027,0.262261,0.553339,0.707204,0.223349,0.650887,0.391663,0.415981,0.889639,0.336106,0.664996,0.127969,1.11315,0.0880431,0.576478,0.387783,0.483957,0.730467,0.202389,0.574247,0.396295,0.547818,0.530785,0.92701,0.302275,0.640661,0.35719,0.134746,0.93226,0.585658,0.329602,0.248856,0.355745,0.513952,0.664116,0.390088,0.354447,0.468392,0.66382,0.542147,0.630853,0.396429,0.745008,0.675919,0.891214,1.00488,1.15929,0.653901,0.400834,0.62023,0.186533,0.619193,0.968558,0.666252,0.267534,0.861462,0.684675,0.826413,1.24834,1.61834,0.916468,1.45553,0.500342,0.275507,0.45007,1.15727,0.624519,0.594475,0.192925,0.84426,0.913168,1.20149,0.676305,3.31194,0.684313,0.272514,1.10535,0.717596,0.126687,1.02636,0.771626,1.71797,1.34233,1.07807,0.94406,0.30974,0.393853,0.32338,0.661488,0.987239,0.776336,0.498077,0.330999,0.938327,0.981588,0.893363,0.814675,0.548668,0.877269,1.56033,0.483695,0.376529,0.44815,0.978783,1.10061,0.563054,1.29401,0.352243,0.800507,0.529546,0.824029,1.5193,1.14892,0.769145,0.581628,0.695878,1.40534,0.845034,0.656181,0.949126,1.1919,0.324369,1.07876,0.53374,1.20639,0.692462,1.35529,0.175219,0.524606,0.57483,1.31259,2.17352,1.7705,1.27501,0.657956,0.983666,0.816466,0.611524,0.799467,2.01411,0.510514,0.306342,0.136746,0.0926553,1.07915,0.258882,0.665754,1.48627,0.755083,0.378604,0.484017,0.454152,1.27379,1.06043,0.912368,2.01935,0.83286,0.683502,0.29379,0.661335,0.0115686
}}
}}

Revision as of 14:56, 26 November 2012


Full id: C1524_Smooth_mesenchymal_Chondrocyte_Aortic_Synoviocyte_Preadipocyte_tenocyte



Phase1 CAGE Peaks

Hg19::chr4:74702338..74702349,+p2@CXCL6
Hg19::chr4:74702384..74702402,+p1@CXCL6
Hg19::chr4:74702666..74702694,+p3@CXCL6
Hg19::chr4:74702707..74702718,+p7@CXCL6
Hg19::chr4:74703497..74703511,+p@chr4:74703497..74703511
+
Hg19::chr4:74703963..74703975,+p@chr4:74703963..74703975
+


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
artery1.53e-2942
arterial blood vessel1.53e-2942
arterial system1.53e-2942
skeletal muscle tissue1.40e-2662
striated muscle tissue1.40e-2662
myotome1.40e-2662
muscle tissue1.98e-2664
musculature1.98e-2664
musculature of body1.98e-2664
multilaminar epithelium3.70e-2583
somite5.08e-2571
presomitic mesoderm5.08e-2571
presumptive segmental plate5.08e-2571
dermomyotome5.08e-2571
trunk paraxial mesoderm5.08e-2571
paraxial mesoderm1.89e-2472
presumptive paraxial mesoderm1.89e-2472
splanchnic layer of lateral plate mesoderm4.91e-2483
vasculature4.98e-2478
vascular system4.98e-2478
dense mesenchyme tissue6.79e-2473
systemic artery8.05e-2333
systemic arterial system8.05e-2333
epithelial vesicle1.64e-2278
cardiovascular system1.79e-21109
circulatory system2.13e-20112
epithelial tube open at both ends1.85e-1959
blood vessel1.85e-1959
blood vasculature1.85e-1959
vascular cord1.85e-1959
vessel8.69e-1968
trunk mesenchyme4.52e-15122
mesenchyme1.08e-13160
entire embryonic mesenchyme1.08e-13160
blood vessel smooth muscle1.92e-1310
arterial system smooth muscle1.92e-1310
artery smooth muscle tissue1.92e-1310
aorta smooth muscle tissue1.92e-1310
mesoderm5.52e-13315
mesoderm-derived structure5.52e-13315
presumptive mesoderm5.52e-13315
epithelial tube3.07e-12117
unilaminar epithelium9.44e-12148
smooth muscle tissue1.02e-1015
multi-tissue structure1.01e-09342
aorta1.67e-0921
aortic system1.67e-0921
cell layer2.03e-09309
epithelium5.43e-09306
organism subdivision1.80e-08264
musculoskeletal system1.89e-08167
anatomical cluster1.96e-08373
thoracic segment blood vessel4.15e-085
subclavian artery4.15e-085
heart1.39e-0724
primitive heart tube1.39e-0724
primary heart field1.39e-0724
anterior lateral plate mesoderm1.39e-0724
heart tube1.39e-0724
heart primordium1.39e-0724
cardiac mesoderm1.39e-0724
cardiogenic plate1.39e-0724
heart rudiment1.39e-0724
heart blood vessel3.32e-075
coronary vessel3.32e-075
female gonad4.49e-0713
right ovary7.05e-075
trunk7.08e-07199
Disease
Ontology termp-valuen
ovarian cancer1.71e-1314
female reproductive organ cancer7.21e-0827
reproductive organ cancer5.06e-0729


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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