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Coexpression cluster:C1107: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002385!2.75e-19!64;UBERON:0001015!2.75e-19!64;UBERON:0000383!2.75e-19!64;UBERON:0001134!1.10e-17!62;UBERON:0002036!1.10e-17!62;UBERON:0003082!1.10e-17!62;UBERON:0002329!6.11e-15!71;UBERON:0003059!6.11e-15!71;UBERON:0007282!6.11e-15!71;UBERON:0004290!6.11e-15!71;UBERON:0009618!6.11e-15!71;UBERON:0003077!1.12e-14!72;UBERON:0007285!1.12e-14!72;UBERON:0007524!2.01e-14!73;UBERON:0007503!3.01e-13!78;UBERON:0000486!3.25e-12!83;UBERON:0005256!9.79e-12!122;UBERON:0000341!1.84e-10!2;UBERON:0003127!8.72e-10!2;UBERON:0000475!1.24e-09!264;UBERON:0002100!1.33e-08!199;UBERON:0000481!1.80e-08!342;UBERON:0001155!7.12e-08!9;UBERON:0003104!7.86e-08!160;UBERON:0009142!7.86e-08!160;UBERON:0007023!1.65e-07!114;UBERON:0000490!7.01e-07!148;UBERON:0001723!7.38e-07!3;UBERON:0001033!7.38e-07!3;UBERON:0010056!7.38e-07!3
|ontology_enrichment_uberon=UBERON:0002385!2.75e-19!64;UBERON:0001015!2.75e-19!64;UBERON:0000383!2.75e-19!64;UBERON:0001134!1.10e-17!62;UBERON:0002036!1.10e-17!62;UBERON:0003082!1.10e-17!62;UBERON:0002329!6.11e-15!71;UBERON:0003059!6.11e-15!71;UBERON:0007282!6.11e-15!71;UBERON:0004290!6.11e-15!71;UBERON:0009618!6.11e-15!71;UBERON:0003077!1.12e-14!72;UBERON:0007285!1.12e-14!72;UBERON:0007524!2.01e-14!73;UBERON:0007503!3.01e-13!78;UBERON:0000486!3.25e-12!83;UBERON:0005256!9.79e-12!122;UBERON:0000341!1.84e-10!2;UBERON:0003127!8.72e-10!2;UBERON:0000475!1.24e-09!264;UBERON:0002100!1.33e-08!199;UBERON:0000481!1.80e-08!342;UBERON:0001155!7.12e-08!9;UBERON:0003104!7.86e-08!160;UBERON:0009142!7.86e-08!160;UBERON:0007023!1.65e-07!114;UBERON:0000490!7.01e-07!148;UBERON:0001723!7.38e-07!3;UBERON:0001033!7.38e-07!3;UBERON:0010056!7.38e-07!3
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4,0.817594,0.291561,0.0337354,0.146629,0.426032,0.440859,0.177111,0.167984,0.0647522,0.0144608,0.00795414,0.17256,0.126216,0.0947479,0.0787488,0.0883646,0.496336,0.353144,0.407665,0.11039,0.361507,0.293511,0.0754745,0.632378,0.439214,0.0896836,0.133679,0.361823,0.262768,0.00265395,0.23812,0.506939,0.0654706,0.844302,0.305348,0.0883079,0.192275,0.00798967,0.3044,6.39979e-07,2.95804e-05,0.388488,0.043326,0.689314,0.132368,0.0458919,0.168686,0.35711,0.180717,0.375467,0.614081,0.311267,0.299453,0.347601,0.297851,0.195385,0.578705,0.546003,0.106912,0.207535,0.747423,0.283013,0.17144,0.236468,0.274647,0.280244,0.933654,0.750867,0.000291016,0.0253961,0.112879,0.0100469,0.1674,0.205022,0.304414,0.0775871,0.1646,0.0414545,0.956744,0.709639,0.435374,0.54926,0.25636,0.392755,0.366993,0.552488,0.12921,0.107541,0.688004,0.136306,0.362226,0.565792,0.158567,0.446426,0.00143296,0.0810658,0.268889,0.0108234,0.996492,0.98796,0.102432,0.436925,0.234633,0.150144,0.235575,0.111506,0.209512,0.415762,0.167545,0.1033,0.238509,0.156356,0.450242,0.00733677,0.0857464,0.282499,0.101873,0.000327225,0.246526,0.0222954,0.356991,0.227948,0.44271,0.128341,0.463619,0.0150482,0.545636,0.320047,0.397073,0.437057,0.221207,0.06691,0.0734866,0.0753755,0.318595,0.140173,0.390753,0.312917,0.805801,0.326484,0.15977,0.201434,0.134947,0.304849,4.87397e-05,0.212636,0.00755937,0.353123,0.394821,0.291345,0.453507,0.147446,0.0464063,0.255995,0.184894,0.242,0.244347,0.243363,0.0848007,0.361244,0.0231852,0.51104,0.00489977,0.29768,0.217499,0.154075,0.225368,0.244195,0.0586175,0.348776,0.198885,0.152926,0.347052,0.386025,0.1797,0.0833624,0.327304,0.581915,0.498434,0.132491,0.48467,0.367752,0.436987,0.00362383,0.704893,0.895348,0.0821811,0.71056,0.279549,0.0984834,0.284421,0.71736,0.0239625,0.1643,0.125046,0.0245454,0.840587,0.0124088,0.000874603,0.0105398,0.164056,0.0942765,0.692805,0.00442588,0.703424,0.673541,0.0175436,0.0969255,0.732853,0.949628,0.00123728,0.790371,0.481522,0.39645,0.249855,0.99232,0.991631,0.122261,0.818359,0.656157,0.00629053,0.0448062,0.226936,0.846379,0.807879,0.54891,0.000916753,0.425103,0.547149,0.0521628,0.780774,0.016431,0.433619,0.154752,0.00298982,0.138883,0.864643,0.111342,0.954834,0.931591,0.337191,0.629545,0.910621,0.797881,0.976385,0.664234,0.873084,0.0674092,0.971958,0.959499,0.96824,0.411785,0.40673,0.101625,0.00168957,0.499305,0.726141,0.632958,0.311148,0.0604899,0.299176,0.710278,0.00183453,0.585578,0.640275,0.341296,0.457524,0.036687,0.541728,0.574271,0.585566,0.373172,0.538803,0.867555,0.654029,0.00841212,1.17182e-05,0.596462,0.041401,6.79238e-05,0.072382,0.0290323,0.514569,0.890974,0.834451,0.443364,0.358039,0.132914,0.765316,0.814568,0.599651,0.41419,0.167778,0.294507,0.926591,0.0686794,0.0945861,0.183851,0.588416,0.198404,0.362009,0.611179,0.664218,0.250792,0.00846088,0.654039,0.532798,0.321679,0.651111,0.466416,0.099702,0.525367,0.300829,0.0515585,0.0195444,0.173883,0.684382,0.573415,0.136535,0.661532,0.210935,0.00178529,0.797742,0.68023,0.808962,0.00505324,0.311129,0.418017,0.487711,0.440345,0.809866,0.400622,0.391073,0.766374,0.632822,0.00189882,0.057938,0.540565,0.576036,0.440278,0.333846,0.00103288,0.000844968,0.173588,2.47297e-05,0.780554,0.00428537,0.0171218,0.0945637,0.887664,0.108221,0.070317,0.00921449,0.00167164,0.679978,2.09604e-05,0.0110612,0.172412,0.175623,0.101365,0.0769041,1.27566e-05,0.034016,0.0861933,0.159832,0.162096,0.0086964,0.0885946,5.00055e-06,0.114722,1.74447e-06,0.197678,0.208523,0.0680722,0.4924,0.026431,0.497662,0.418843,9.80921e-05,0.369586,0.0145458,0.441472,0.118183,0.00329774,0.0577066,0.436618,0.000199951,0.00153995,0.264429,0.404954,0.0744027,0.204325,0.265849,0.0117197,0.451398,0.533438,0.188364,0.279598,0.420279,0.485091,0.443868,0.150111,0.0180742,0.163945,0.244241,0.307495,0.455626,0.0650142,0.023781,0.00970787,0.0875262,0.147486,0.117583,0.103076,0.0379321,0.40865,0.0815536,0.0075465,0.25829,0.215261,0.235004,0.133496,0.433115,0.00806664,0.440492,0.397558,0.00392389,0.00079261,0.00191803,0.0118577,0.00827957,0.500457,0.0565897,0.435107,0.26559,0.378345,0.0836911,0.160696,0.155054,0.15862,0.412407,0.10934,0.000250584,0.300222,0.00175705,0.487504,0.249956,0.119749,0.482721,0.35808,0.0969253,0.296254,0.0939442,0.473667,0.327684,0.0433206,0.499937,0.0219589,6.99126e-06,0.0765707,0.000110432,0.0984714,0.00199955,0.536787,3.05233e-05,0.181464,0.0984065,0.231548,0.120636,0.121001,0.317719,0.015845,0.0924531,0.120918,0.593272,0.158598,0.106985,0.384398,0.462521,0.387627,0.179489,0.0247626,0.143317,0.0376847,0.14273,0.00235668,0.147968,0.0151524,0.00436256,0.00267564,0.0999117,0.149301,0.196723,0.0836477,0.000417062,0.413461,0.558766,0.00863826,0.630108,0.299959,0.0356876,6.90746e-07,0.0160281,0.452427,0.56256,0.149642,0.00125859,0.00827489,0.161573,0.280842,0.335456,0.416632,0.404559,0.18724,0.467154,0.233968,0.0341371,0.113392,0.0222581,0.248584,0.397145,0.0139775,0.18122,0.540199,0.488863,0.000926698,0.00321235,0.20487,0.603936,0.449548,0.41929,0.209566,0.189123,4.0243e-05,9.49364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|tfbs_overrepresentation_for_novel_motifs=0.392069,0.247072,0.384703,1.31224,0.343148,0.52784,0.604235,0.643217,0.224331,0.0544999,0.497563,0.647852,0.184039,0.592674,0.905441,0.365029,0.827563,0.28906,0.19568,1.10853,1.77222,0.23059,0.520063,0.897212,0.430372,0.670692,0.164928,0.517892,0.346214,0.150685,0.475674,0.864517,0.257226,0.186138,0.309012,0.021349,0.305874,0.529001,1.4117,0.207499,0.307642,0.459366,0.0729319,0.340293,0.265117,0.415364,0.60533,0.486696,0.511111,0.346342,0.684981,0.617179,0.117127,0.941629,1.09491,0.595623,1.65331,1.38261,0.150585,0.561701,0.905643,0.60771,0.224801,0.799729,0.625758,0.76514,1.18348,1.55228,0.854088,1.38987,0.4462,0.232216,0.115253,2.47482,0.179863,0.168304,0.156354,0.782748,0.850825,0.424224,1.099,0.798651,0.625403,0.229431,1.04131,0.0324537,0.097572,0.146388,0.711163,1.65172,1.27705,1.01423,0.881388,0.73028,0.343884,0.277058,0.194299,3.51004,1.70279,0.132387,0.28424,0.875714,0.918549,0.831244,0.753567,0.493026,0.815341,0.589207,0.43012,0.327379,0.395884,0.915771,0.988112,0.507004,1.22894,0.304323,0.039977,0.474472,0.762789,0.26701,1.0846,0.708722,0.525076,0.636741,1.33983,0.783512,0.597853,0.886402,1.12733,0.27799,1.01492,1.20354,1.14174,0.633392,1.28996,0.433733,0.469685,0.518459,1.24743,2.10682,1.70417,1.21002,0.59959,0.920609,0.755332,0.554217,0.738579,1.94751,0.456039,0.26104,0.703388,0.0685123,1.0153,0.216774,0.607223,1.42052,0.694887,0.329354,0.430431,0.401655,1.2088,0.996724,0.850033,0.404861,0.7715,0.624608,0.24928,0.602897,0.0992692
}}
}}

Revision as of 14:41, 26 November 2012


Full id: C1107_Myoblast_mesenchymal_skeletal_diaphragm_tongue_Prostate_penis



Phase1 CAGE Peaks

Hg19::chr10:117419477..117419497,+p@chr10:117419477..117419497
+
Hg19::chr11:19619742..19619759,+p@chr11:19619742..19619759
+
Hg19::chr4:177190139..177190150,-p6@ASB5
Hg19::chr4:177190304..177190315,-p3@ASB5
Hg19::chr4:177190364..177190379,-p1@ASB5
Hg19::chr9:113431029..113431050,+p2@MUSK
Hg19::chr9:113431060..113431077,+p1@MUSK


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>

Uber Anatomy
Ontology termp-valuen
muscle tissue2.75e-1964
musculature2.75e-1964
musculature of body2.75e-1964
skeletal muscle tissue1.10e-1762
striated muscle tissue1.10e-1762
myotome1.10e-1762
somite6.11e-1571
presomitic mesoderm6.11e-1571
presumptive segmental plate6.11e-1571
dermomyotome6.11e-1571
trunk paraxial mesoderm6.11e-1571
paraxial mesoderm1.12e-1472
presumptive paraxial mesoderm1.12e-1472
dense mesenchyme tissue2.01e-1473
epithelial vesicle3.01e-1378
multilaminar epithelium3.25e-1283
trunk mesenchyme9.79e-12122
throat1.84e-102
open tracheal system trachea8.72e-102
organism subdivision1.24e-09264
trunk1.33e-08199
multi-tissue structure1.80e-08342
colon7.12e-089
mesenchyme7.86e-08160
entire embryonic mesenchyme7.86e-08160
adult organism1.65e-07114
unilaminar epithelium7.01e-07148
tongue7.38e-073
gustatory system7.38e-073
future tongue7.38e-073


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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