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Difference between revisions of "Coexpression cluster:C2473"

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|tf_chipseq_enrich=ZBTB7A#51341;4:7.3519093078759:0.00034222354001599:0.00346466501509596
 
|tf_chipseq_enrich=ZBTB7A#51341;4:7.3519093078759:0.00034222354001599:0.00346466501509596
 
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71,0.105411,0.0997542,0.209692,0.248936,0.0725263,0.102587,0.0742013,0.0552936,0.0457886,0.0514927,0.324236,0.220368,0.258624,0.064656,0.226143,0.460406,0.0438521,0.435508,0.281453,0.0522771,0.0787278,0.515487,0.159873,0.142462,0.143935,0.332403,0.0379537,0.6545,0.187953,0.051459,0.114868,0.0726892,0.18732,0.00740893,0.278397,0.245002,0.170848,0.487259,0.302909,0.363016,0.100188,0.223102,0.107653,0.235857,0.419621,0.191914,0.184022,0.216557,0.182956,0.116818,0.389792,0.36316,0.0625685,0.124464,0.544477,0.173134,0.101893,0.142875,0.0149091,0.171311,0.458838,0.548036,0.0685131,0.130287,0.0661526,0.0815772,0.0993937,0.122878,0.187329,0.0451012,0.0976639,0.351199,0.535567,0.415079,0.278645,0.365775,0.155708,0.248017,0.22995,0.652972,0.0760151,0.0629459,0.486024,0.0803251,0.0278785,0.0832234,0.0939463,0.286748,0.0779623,0.0471607,0.163865,0.226359,0.960445,0.974549,0.265324,0.00461571,0.141699,0.0887743,0.142302,0.0653269,0.125712,0.264432,0.0994829,0.0604041,0.144185,0.0925862,0.289561,0.199201,0.049937,0.172796,0.0595495,0.071232,0.149346,0.121978,0.22302,0.137423,0.284016,0.0754883,0.299492,0.100006,0.362866,0.197817,0.251078,0.279874,0.133127,0.410303,0.223717,0.426452,0.196838,0.0826805,0.246601,0.193021,0.608002,0.202165,0.0946865,0.120618,0.079499,0.18762,0.195618,0.127688,0.201169,0.220353,0.24948,0.178639,0.291976,0.320355,0.364334,0.15547,0.110256,0.415419,0.14794,0.147307,0.240761,0.225961,0.124417,0.335582,0.317428,0.182843,0.130771,0.327768,0.135777,0.147842,0.0339286,0.217363,0.119015,0.32805,0.21618,0.0323312,0.107021,0.238657,0.20272,0.392453,0.61565,0.0780061,0.0559668,0.230477,0.279823,0.295555,0.502112,0.369553,0.0478217,0.0351792,0.170854,0.0575231,0.174063,0.514243,0.1267,0.54832,0.0338476,0.296013,0.282366,0.181196,0.459994,0.523209,0.189126,0.25423,0.490559,0.45013,0.153911,0.472542,0.685908,0.747471,0.529642,0.818701,0.483077,0.590496,0.603763,0.541914,0.627201,0.938109,0.934991,0.290703,0.254935,0.366999,0.478691,0.360199,0.608176,0.290133,0.824761,0.365494,0.212703,0.0515679,0.364079,0.680099,0.215551,0.0181617,0.206595,0.328518,0.545608,0.310552,0.865054,0.483764,0.528161,0.453065,0.209437,0.843495,0.748403,0.232518,0.882403,0.464001,0.871271,0.214786,0.605327,0.278028,0.586133,0.261575,0.257956,0.264245,0.379063,0.326516,0.522925,0.436016,0.475063,0.202522,0.183837,0.507324,0.126097,0.3955,0.442469,0.212239,0.294954,0.156999,0.35974,0.667777,0.0912179,0.234254,0.357409,0.599068,0.365184,0.50338,0.0171443,0.404625,0.759068,0.424691,0.357704,0.479581,0.259048,0.884725,0.274432,0.044968,0.512545,0.512178,0.563206,0.103692,0.684899,0.263302,0.552023,0.180735,0.189249,0.216102,0.254659,0.109605,0.397869,0.217863,0.226491,0.102502,0.463987,0.260097,0.503881,0.454761,0.271678,0.483658,0.452129,0.301581,0.261657,0.0686105,0.466529,0.187223,0.0208637,0.349112,0.391754,0.385425,0.307816,0.461541,0.386339,0.382854,0.598787,0.0285097,0.611661,0.000676019,0.475047,0.557967,0.608127,0.282281,0.612712,0.2536,0.246827,0.0519643,0.347466,0.387134,0.198743,0.358813,0.100705,0.574252,0.148933,0.346636,0.457747,0.348802,0.476541,0.579645,0.447581,0.106831,0.254628,0.355111,0.479347,0.416962,0.632833,0.378333,0.738545,0.264038,0.22798,0.102495,0.0703938,0.263896,0.0446972,0.24452,0.329284,0.242783,0.0947248,0.336551,0.210656,0.246234,0.211271,0.281295,0.267248,0.118257,0.125087,0.215123,0.321224,0.133173,0.325254,0.266651,0.0460393,0.231754,0.0340704,0.283107,0.285648,0.10809,0.0140903,0.279553,0.25563,0.0316941,0.160955,0.256687,0.0432189,0.122439,0.16188,0.0025304,0.290415,0.353147,0.112422,0.170886,0.267687,0.315656,0.284866,0.0887542,0.267811,0.000875654,0.147872,0.00131907,0.293546,0.210125,0.292967,0.218414,0.0509944,0.0871471,0.0689852,0.0602698,0.341188,0.259328,0.0207461,0.201057,0.15696,0.129351,0.141936,0.0786166,0.276997,0.205513,0.282389,0.251421,0.162089,0.0617695,0.387837,0.233244,0.207281,0.327401,0.195748,0.27845,0.161712,0.237871,0.239139,0.095257,0.328852,0.332769,0.262022,0.00433276,0.00394881,0.184534,0.248707,0.31749,0.15156,0.287598,0.313858,0.223773,0.25788,0.181895,0.035332,0.00626086,0.202977,0.00095279,0.327002,0.28543,0.222656,0.228479,0.127111,0.259989,0.0140513,0.0725176,0.0433915,0.108118,0.259901,0.139723,0.0708274,0.0710478,0.196248,0.102645,0.0539258,0.0709978,0.401939,0.0627853,0.00417718,0.032013,0.298673,0.244395,0.106889,0.128632,0.0036839,0.159153,0.0842401,0.13698,0.0874421,0.100355,0.167854,0.142846,0.0583767,0.088258,0.117657,0.0486914,0.175784,0.262778,0.373453,0.362662,0.433518,0.184359,0.0634867,0.325785,0.257476,0.291176,0.00142707,0.322827,0.229571,0.359036,0.335984,0.171704,0.208256,0.265058,0.256405,0.362898,0.302133,0.00207843,0.151361,0.279606,0.286696,0.150674,0.251128,0.246177,0.35674,0.35852,0.318525,0.213257,0.287217,0.122782,0.00214888,0.289049,0.00396262,0.125746,0.112897,0.398354,0.0267226,0.205977,0.0675312,0.0936726,0.00908363,0.132374,0.285122,0.22741,0.0223868,0.276721,0.321965,0.264707,0.450113
 +
|tfbs_overrepresentation_for_novel_motifs=0.590005,0.620826,0.581696,0.741427,0.534346,0.739643,0.821651,1.02453,0.392841,0.151681,0.706765,0.867962,0.341754,0.809319,0.532789,0.559384,1.05593,0.471262,0.938585,0.635753,0.581762,0.505745,0.731221,0.528529,0.632849,0.892087,0.849366,0.728867,0.537869,0.297585,0.682839,1.09415,0.433165,0.911389,0.49475,0.0842336,0.491074,0.740899,1.17228,0.371755,0.493145,0.66492,0.183156,0.53106,0.0946706,0.61613,0.822818,0.694903,0.515703,0.538016,0.90714,0.83543,0.699149,1.17354,1.33024,0.812467,0.54284,0.777235,0.297448,0.776148,1.13655,0.825354,0.393426,1.02706,0.844545,0.991076,1.42026,1.79268,1.08337,1.62905,0.650393,0.402607,0.248021,1.32819,0.336329,0.321165,0.305238,1.00941,1.08,0.62601,0.362435,1.02594,0.844168,1.82173,1.27559,0.353274,0.6318,0.291738,0.934646,1.89266,1.51507,1.24792,1.11156,0.441618,0.535192,0.456994,0.354969,1.15558,0.939507,0.749003,0.465545,1.1057,1.14983,1.05974,0.979006,0.701817,1.04326,0.805616,0.632569,0.516141,1.44917,1.14697,0.575476,1.70537,1.46636,0.489254,0.393155,0.681522,0.988625,0.444962,1.31973,0.932085,0.736652,0.856196,1.57854,1.0102,0.814847,1.11673,1.36323,0.458105,1.24863,0.68598,1.37788,0.852645,1.52813,0.283547,0.676268,0.729481,1.48509,2.34913,1.94535,1.44718,0.8167,1.15194,0.980848,0.768101,0.963351,2.1895,0.661255,0.437774,0.66252,0.175846,1.24902,0.383416,0.824835,1.65997,0.917558,0.518428,0.632914,0.600782,1.44595,1.23002,1.07918,0.604379,0.997702,0.843324,0.423521,0.820225,0.359498
 
}}
 
}}

Revision as of 06:31, 26 November 2012


Full id: C2473_Hair_Alveolar_Aortic_Astrocyte_Mesenchymal_Neutrophils_Prostate



Phase1 CAGE Peaks

Hg19::chr19:1036151..1036168,+p@chr19:1036151..1036168
+
Hg19::chr19:1036434..1036457,+p2@CNN2
Hg19::chr19:1037975..1037992,+p@chr19:1037975..1037992
+
Hg19::chr19:1038526..1038570,+p@chr19:1038526..1038570
+


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
somatic cell4.54e-31588
native cell1.99e-26722
animal cell8.51e-26679
eukaryotic cell8.51e-26679
stem cell4.59e-14441
multi fate stem cell5.44e-14427
somatic stem cell1.59e-13433
contractile cell1.63e-1159
electrically responsive cell4.56e-1161
electrically active cell4.56e-1161
embryonic cell9.14e-11250
mesodermal cell3.65e-10121
muscle cell7.06e-1055
non-terminally differentiated cell7.09e-10106
muscle precursor cell8.37e-1058
myoblast8.37e-1058
multi-potent skeletal muscle stem cell8.37e-1058
smooth muscle cell3.02e-0943
smooth muscle myoblast3.02e-0943
fibroblast9.00e-0876
connective tissue cell1.01e-07361
Uber Anatomy
Ontology termp-valuen
epithelial vesicle3.41e-1078
multilaminar epithelium5.71e-1083
cardiovascular system8.67e-09109
circulatory system2.98e-08112
somite4.47e-0871
presomitic mesoderm4.47e-0871
presumptive segmental plate4.47e-0871
dermomyotome4.47e-0871
trunk paraxial mesoderm4.47e-0871
dense mesenchyme tissue5.75e-0873
skeletal muscle tissue1.04e-0762
striated muscle tissue1.04e-0762
myotome1.04e-0762
paraxial mesoderm1.31e-0772
presumptive paraxial mesoderm1.31e-0772
vasculature3.67e-0778
vascular system3.67e-0778
muscle tissue4.72e-0764
musculature4.72e-0764
musculature of body4.72e-0764


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


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

TF#promotersEnrichmentp-valueq-value
ZBTB7A#5134147.35190930787590.000342223540015990.00346466501509596



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.