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Coexpression cluster:C339: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002385!6.80e-22!64;UBERON:0001015!6.80e-22!64;UBERON:0000383!6.80e-22!64;UBERON:0001134!7.84e-21!62;UBERON:0002036!7.84e-21!62;UBERON:0003082!7.84e-21!62;UBERON:0007524!1.69e-19!73;UBERON:0003077!3.14e-19!72;UBERON:0007285!3.14e-19!72;UBERON:0002329!4.46e-19!71;UBERON:0003059!4.46e-19!71;UBERON:0007282!4.46e-19!71;UBERON:0004290!4.46e-19!71;UBERON:0009618!4.46e-19!71;UBERON:0007503!1.57e-15!78;UBERON:0000486!2.35e-15!83;UBERON:0003104!9.86e-14!160;UBERON:0009142!9.86e-14!160;UBERON:0005256!1.97e-13!122;UBERON:0000479!5.98e-12!773;UBERON:0007023!1.33e-11!114;UBERON:0007100!2.41e-10!27;UBERON:0001013!3.79e-10!14;UBERON:0000481!4.65e-09!342;UBERON:0000926!4.99e-09!315;UBERON:0004120!4.99e-09!315;UBERON:0006603!4.99e-09!315;UBERON:0004872!6.54e-09!83;UBERON:0001135!2.06e-08!15;UBERON:0000948!2.89e-08!24;UBERON:0005498!2.89e-08!24;UBERON:0004140!2.89e-08!24;UBERON:0009881!2.89e-08!24;UBERON:0004141!2.89e-08!24;UBERON:0003084!2.89e-08!24;UBERON:0007005!2.89e-08!24;UBERON:0004139!2.89e-08!24;UBERON:0004291!2.89e-08!24;UBERON:0002100!9.08e-08!199;UBERON:0000468!1.35e-07!656;UBERON:0000119!2.66e-07!309;UBERON:0000483!3.34e-07!306;UBERON:0004573!8.56e-07!33;UBERON:0004571!8.56e-07!33
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28603,0.361963,0.964252,0.879479,0.921417,0.433426,0.88686,0.967037,0.316933,0.0593699,0.0082857,0.366434,0.501922,0.997886,0.772525,0.729198,0.733126,0.967762,0.280276,0.97927,0.829611,0.36177,0.277909,0.473479,0.828479,0.119098,0.93755,0.908264,0.796581,0.996579,0.59168,0.978368,0.592349,0.883025,0.000502599,0.898379,0.990193,0.836548,0.822472,0.00549862,0.820491,0.652121,0.984984,0.8956,0.422588,0.676904,0.998749,0.0063267,0.598869,0.730304,0.789783,0.474177,0.999998,0.00415404,0.452981,0.694722,0.441086,0.514865,0.589278,0.671896,0.828496,0.324481,0.582525,0.710714,0.999969,0.992766,0.00230068,0.0177519,0.762759,0.911332,0.891504,0.1966,0.489317,0.424561,0.000791833,0.509214,0.887477,0.00030885,0.567677,0.00287344,0.900763,0.336766,0.781552,0.887128,0.483876,0.466961,0.927253,0.938558,0.727141,0.546246,0.728768,0.436871,0.6808,0.926499,0.589624,0.411157,0.733788,0.562129,0.0747317,0.848661,0.353013,0.800607,0.406589,0.466405,0.747127,0.669026,0.88292,0.715369,0.941564,0.486837,0.00117332,0.591647,0.895275,0.0419648,0.914353,0.938628,0.703093,0.465855,0.883809,0.991132,0.0411528,0.519797,0.909903,0.838442,0.985813,0.853357,0.57067,0.66464,0.505454,0.829016,0.842808,0.68688,0.0448285,0.879459,0.0125712,0.812267,0.946861,0.962468,0.978746,0.00362132,0.629529,0.479869,0.743554,0.392367,0.903791,0.886634,0.676759,0.969043,0.961072,0.820279,0.334212,0.126417,0.710719,0.743304,0.254276,0.34584,0.65941,0.97039,0.0592277,0.906455,0.250313,0.9015,0.854222,0.985531,0.425275,0.498595,0.0458476,0.651931,0.1508,0.949102,0.542645,0.00898414,0.340666,0.982972,0.796593,0.395633,0.803188,0.997839,0.271139,0.00065539,0.934807,0.949382,0.000154651,0.128032,0.966856,0.184755,0.904279,0.917369,0.677581,0.993803,0.538718,0.995649,0.00291022,0.00105843,0.617923,0.998768,0.489636,3.35565e-15,0.00133544,0.998688,0.841708,0.000413479,0.00507892,0.946044,6.59496e-06,0.999982,0.913884,0.977542,0.898288,0.948277,0.999953,0.194401,0.869028,5.91439e-17,0.341455,0.630958,0.209075,0.990394,0.973782,0.657413,0.0411163,0.95761,0.265672,0.976008,0.641028,0.90152,0.864338,0.99952,0.393116,0.513939,0.986159,0.282989,0.476863,0.00160186,0.159516,0.972328,0.41239,8.04197e-05,0.465374,1.89938e-05,0.222807,0.965264,0.986487,0.0598293,0.795801,0.853914,0.249842,0.997563,0.681992,0.986137,0.232865,0.868371,0.948732,0.765825,0.330211,0.00167255,0.0125041,0.00238346,0.000539236,0.205746,0.00193139,0.997393,0.129728,0.450309,0.328804,0.990898,0.999977,0.0267523,0.0246573,0.0131231,0.93543,0.941896,0.942669,0.99776,0.00601041,0.999164,0.282538,0.925533,0.966216,0.00788024,0.995315,0.873757,0.712346,0.627221,0.986592,0.999404,0.887292,0.989829,0.995011,0.843055,0.997415,0.994232,0.101667,0.99637,1.24696e-09,0.193371,0.924108,0.973207,0.995209,7.82748e-12,0.99256,0.97401,0.886187,0.984045,0.20654,0.00309883,1.84601e-06,9.90572e-05,0.51346,0.802557,0.812395,0.0190074,0.187781,0.999031,0.682079,0.940349,1.34357e-06,0.916774,0.910132,0.921433,0.999971,0.984419,0.26801,0.977124,0.720531,0.999296,0.0342307,0.158337,0.891377,0.973905,0.105814,0.935453,0.567246,0.332347,0.108543,0.0431324,0.996104,0.989804,0.0278229,0.982411,0.880963,0.926164,0.645267,0.601147,0.307741,0.926043,0.322048,0.68793,0.659291,0.905947,0.570824,0.272212,0.866106,0.00086875,0.598664,0.532352,0.928856,0.65691,0.678856,0.87241,0.0195734,0.995428,0.429375,0.271882,0.142061,0.893646,0.699884,0.940931,0.0269036,0.00360945,0.923053,0.938395,0.0144491,0.209562,0.775004,0.00120838,0.313078,0.0264996,0.442526,0.894346,0.787972,0.170328,0.637127,0.472767,0.929218,0.960204,0.942151,0.546161,0.274828,0.06631,0.74338,0.832154,0.947855,0.865338,1.6782e-08,0.876887,0.359108,0.539312,0.455333,0.410441,0.971195,0.92205,0.221929,0.851616,0.765735,4.17761e-06,0.727782,0.501411,0.520212,0.858506,0.940426,0.00387633,0.777575,0.443149,0.12929,0.895387,0.0156587,5.68014e-07,0.0402602,0.00771575,0.441954,0.030459,0.902029,0.572964,0.25387,0.857552,0.924426,0.29175,0.739595,0.823416,0.227708,0.961102,0.752669,0.165389,0.959307,0.88388,0.920745,0.818499,0.710255,0.0962156,0.854622,0.000252346,0.0219161,0.543935,0.0662608,0.646604,0.685115,0.922639,0.248825,0.976196,0.93853,0.00325665,0.92256,0.721757,0.464426,0.465505,0.843852,0.601711,0.375742,0.465261,0.987343,0.000247227,0.932162,0.000174458,0.950985,0.907635,0.617443,3.10713e-05,0.528266,0.770863,0.526692,0.714124,0.540576,0.59299,0.790252,0.0109963,0.400269,0.544056,0.654923,0.345768,0.806647,0.0484048,0.000866342,0.532402,0.0108755,0.823094,0.968602,0.964942,0.920377,0.0765711,0.112343,1.02569e-05,0.183974,0.977192,0.969202,0.79836,0.862604,0.125091,0.919395,0.0939157,0.809303,0.0830851,0.0531663,0.938433,0.0274498,0.750463,0.914402,0.0357979,0.516285,0.890372,0.410746,0.86981,0.943748,9.37854e-14,0.657466,0.00988052,0.92863,0.680905,0.00394726,0.986683,0.00164435,0.859206,0.972306,0.566566,0.00120688,0.700893,0.319868,0.888425,0.0144707,0.936305,0.841734,0.926732,0.993801
|tfbs_overrepresentation_for_novel_motifs=0.0362237,5.95245,0.584729,2.09568,0.470143,1.52028,0.785405,0.00553043,0.346227,0.000153094,0.544811,0.889944,0.120833,1.8072,0.0233485,2.67268,1.34778,0.0132576,0.430654,0.0533521,1.77984,10.8285,0.0832693,0.0225281,0.407145,0.162121,0.31208,2.03201,0.0243516,0.00787101,0.0647008,0.292383,0.125715,1.43952,0.196304,1.13649,0.016104,1.02829,2.41351,0.479051,0.0164232,0.806698,0.0235147,0.0230134,0.283653,0.378189,0.394651,2.44217,0.00189707,0.0243809,2.96717,2.58358,0.0822334,3.43685,0.475837,0.765144,0.0253589,0.103222,0.0285692,0.102726,0.32323,0.126376,0.00535723,0.245859,0.136236,0.222166,0.551996,0.889382,0.284717,0.737624,0.0536708,0.207931,0.149595,0.474142,0.00227848,0.970894,0.637659,0.234122,0.282332,0.0461435,1.95848,1.96896,0.136039,0.00577942,0.431067,0.395006,0.0518048,0.391304,0.186966,0.984017,0.634935,0.408872,0.304922,0.00966404,0.0238196,0.0114314,0.258701,0.337414,0.1899,0.486729,0.0125039,0.300686,0.333104,1.35752,0.214431,0.535136,0.256823,0.750137,0.406652,1.8557,0.341703,0.330971,0.0326221,3.23432,0.592003,6.31411,0.675922,1.7958,1.17847,3.79591,0.467142,3.93258,0.0855095,0.14239,0.691757,0.234645,0.121127,0.30868,0.503421,3.39068,0.409436,1.81777,0.515797,0.140501,0.646547,0.000840633,0.062374,4.04359,0.608436,1.42699,1.03434,0.575287,0.122045,0.334687,7.20563,0.099088,0.204563,1.27059,14.8668,0.0092535,0.669201,4.35735,0.409747,1.37681,0.126114,0.765951,1.5952,0.0206573,0.0482085,2.99852,0.574213,0.394694,0.281754,1.90874,0.226459,0.833847,5.91151,0.123801,0.713585
}}
}}

Revision as of 14:08, 26 November 2012


Full id: C339_Mesenchymal_heart_leiomyoma_Adipocyte_Smooth_skeletal_tongue



Phase1 CAGE Peaks

Hg19::chr19:36245601..36245615,-p3@CU679244
Hg19::chr19:36245605..36245616,+p@chr19:36245605..36245616
+
Hg19::chr19:36245653..36245670,-p4@CU679244
Hg19::chr19:36245680..36245700,+p@chr19:36245680..36245700
+
Hg19::chr19:36245682..36245706,-p1@CU679244
Hg19::chr19:36245714..36245739,+p@chr19:36245714..36245739
+
Hg19::chr19:36245719..36245738,-p2@CU679244
Hg19::chr19:36245740..36245750,+p@chr19:36245740..36245750
+
Hg19::chr19:36245757..36245768,+p@chr19:36245757..36245768
+
Hg19::chr19:36245789..36245798,-p20@HSPB6
Hg19::chr19:36245828..36245846,-p4@HSPB6
Hg19::chr19:36245853..36245881,-p5@HSPB6
Hg19::chr19:36245884..36245902,-p8@HSPB6
Hg19::chr19:36245935..36245985,-p3@HSPB6
Hg19::chr19:36245962..36245977,+p@chr19:36245962..36245977
+
Hg19::chr19:36245984..36246010,+p@chr19:36245984..36246010
+
Hg19::chr19:36245988..36246002,-p15@HSPB6
Hg19::chr19:36246007..36246015,-p19@HSPB6
Hg19::chr19:36246020..36246050,+p@chr19:36246020..36246050
+
Hg19::chr19:36246042..36246059,-p9@HSPB6
Hg19::chr19:36246080..36246107,+p@chr19:36246080..36246107
+
Hg19::chr19:36246086..36246335,-p2@HSPB6
Hg19::chr19:36246113..36246265,+p@chr19:36246113..36246265
+
Hg19::chr19:36246354..36246383,-p6@HSPB6
Hg19::chr19:36246384..36246401,-p7@HSPB6
Hg19::chr19:36246404..36246415,-p14@HSPB6
Hg19::chr19:36246439..36246461,+p@chr19:36246439..36246461
+
Hg19::chr19:36246480..36246491,-p13@HSPB6
Hg19::chr19:36246494..36246501,-p21@HSPB6
Hg19::chr19:36246502..36246515,-p11@HSPB6
Hg19::chr19:36246564..36246573,-p24@HSPB6
Hg19::chr19:36246722..36246741,-p16@HSPB6
Hg19::chr19:36246747..36246780,-p10@HSPB6
Hg19::chr19:36247921..36247937,-p1@HSPB6


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 tissue6.80e-2264
musculature6.80e-2264
musculature of body6.80e-2264
skeletal muscle tissue7.84e-2162
striated muscle tissue7.84e-2162
myotome7.84e-2162
dense mesenchyme tissue1.69e-1973
paraxial mesoderm3.14e-1972
presumptive paraxial mesoderm3.14e-1972
somite4.46e-1971
presomitic mesoderm4.46e-1971
presumptive segmental plate4.46e-1971
dermomyotome4.46e-1971
trunk paraxial mesoderm4.46e-1971
epithelial vesicle1.57e-1578
multilaminar epithelium2.35e-1583
mesenchyme9.86e-14160
entire embryonic mesenchyme9.86e-14160
trunk mesenchyme1.97e-13122
tissue5.98e-12773
adult organism1.33e-11114
primary circulatory organ2.41e-1027
adipose tissue3.79e-1014
multi-tissue structure4.65e-09342
mesoderm4.99e-09315
mesoderm-derived structure4.99e-09315
presumptive mesoderm4.99e-09315
splanchnic layer of lateral plate mesoderm6.54e-0983
smooth muscle tissue2.06e-0815
heart2.89e-0824
primitive heart tube2.89e-0824
primary heart field2.89e-0824
anterior lateral plate mesoderm2.89e-0824
heart tube2.89e-0824
heart primordium2.89e-0824
cardiac mesoderm2.89e-0824
cardiogenic plate2.89e-0824
heart rudiment2.89e-0824
trunk9.08e-08199
multi-cellular organism1.35e-07656
cell layer2.66e-07309
epithelium3.34e-07306
systemic artery8.56e-0733
systemic arterial system8.56e-0733


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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