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Coexpression cluster:C1282: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!1.84e-21!114;UBERON:0001016!2.97e-21!89;UBERON:0001017!1.20e-19!81;UBERON:0011216!2.03e-19!223;UBERON:0002346!1.94e-18!86;UBERON:0001049!6.42e-16!56;UBERON:0005068!6.42e-16!56;UBERON:0006241!6.42e-16!56;UBERON:0007135!6.42e-16!56;UBERON:0003075!1.01e-15!82;UBERON:0007284!1.01e-15!82;UBERON:0000955!1.40e-15!68;UBERON:0006238!1.40e-15!68;UBERON:0004121!1.89e-14!171;UBERON:0000924!1.89e-14!171;UBERON:0006601!1.89e-14!171;UBERON:0000073!2.64e-14!53;UBERON:0002616!2.64e-14!53;UBERON:0001893!9.05e-13!34;UBERON:0003528!9.98e-13!34;UBERON:0002020!9.98e-13!34;UBERON:0000956!1.36e-12!25;UBERON:0000203!1.36e-12!25;UBERON:0001869!2.10e-12!32;UBERON:0002791!5.19e-12!32;UBERON:0002780!6.28e-12!41;UBERON:0001890!6.28e-12!41;UBERON:0003080!6.28e-12!41;UBERON:0006240!6.28e-12!41;UBERON:0003056!5.69e-11!61;UBERON:0000477!6.02e-11!373;UBERON:0010371!7.39e-11!104;UBERON:0002619!1.01e-10!22;UBERON:0001950!8.59e-10!20;UBERON:0010314!1.72e-09!132;UBERON:0005409!1.89e-08!25;UBERON:0000481!5.53e-08!342;UBERON:0000160!1.08e-07!17;UBERON:0000064!2.13e-07!218;UBERON:0000922!8.59e-07!592
|ontology_enrichment_uberon=UBERON:0007023!1.84e-21!114;UBERON:0001016!2.97e-21!89;UBERON:0001017!1.20e-19!81;UBERON:0011216!2.03e-19!223;UBERON:0002346!1.94e-18!86;UBERON:0001049!6.42e-16!56;UBERON:0005068!6.42e-16!56;UBERON:0006241!6.42e-16!56;UBERON:0007135!6.42e-16!56;UBERON:0003075!1.01e-15!82;UBERON:0007284!1.01e-15!82;UBERON:0000955!1.40e-15!68;UBERON:0006238!1.40e-15!68;UBERON:0004121!1.89e-14!171;UBERON:0000924!1.89e-14!171;UBERON:0006601!1.89e-14!171;UBERON:0000073!2.64e-14!53;UBERON:0002616!2.64e-14!53;UBERON:0001893!9.05e-13!34;UBERON:0003528!9.98e-13!34;UBERON:0002020!9.98e-13!34;UBERON:0000956!1.36e-12!25;UBERON:0000203!1.36e-12!25;UBERON:0001869!2.10e-12!32;UBERON:0002791!5.19e-12!32;UBERON:0002780!6.28e-12!41;UBERON:0001890!6.28e-12!41;UBERON:0003080!6.28e-12!41;UBERON:0006240!6.28e-12!41;UBERON:0003056!5.69e-11!61;UBERON:0000477!6.02e-11!373;UBERON:0010371!7.39e-11!104;UBERON:0002619!1.01e-10!22;UBERON:0001950!8.59e-10!20;UBERON:0010314!1.72e-09!132;UBERON:0005409!1.89e-08!25;UBERON:0000481!5.53e-08!342;UBERON:0000160!1.08e-07!17;UBERON:0000064!2.13e-07!218;UBERON:0000922!8.59e-07!592
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0883646,0.496336,0.353144,0.407665,0.11039,0.361507,0.0955186,0.0754745,0.632378,0.114847,0.0896836,0.133679,0.0399756,0.262768,0.235824,0.23812,0.000821521,0.0654706,0.0408918,0.305348,0.0883079,0.192275,0.123717,0.3044,0.494788,0.435034,0.388488,0.27954,0.689314,0.468189,0.187355,0.168686,0.35711,0.180717,0.375467,0.246637,0.311267,0.299453,0.347601,0.297851,0.195385,0.0117735,0.546003,0.106912,0.0232022,0.747423,0.283013,0.17144,0.236468,0.274647,0.280244,0.753667,0.750867,0.1168,0.216736,0.112879,0.138362,0.1674,0.205022,0.304414,0.0775871,0.1646,0.530976,0.208894,0.916686,0.435374,0.54926,0.25636,0.392755,0.366993,0.00300176,0.12921,0.107541,0.324602,0.136306,0.362226,0.565792,0.158567,0.446426,0.551931,0.0810658,0.268889,0.361819,0.0133362,0.00644902,0.417001,0.436925,0.234633,0.150144,0.235575,0.111506,0.209512,0.415762,0.167545,0.1033,0.238509,0.156356,0.450242,0.322099,0.0857464,0.282499,0.101873,0.121306,0.246526,0.203595,0.356991,0.227948,0.44271,0.128341,0.463619,0.168391,0.187208,0.320047,0.397073,0.437057,0.221207,0.603174,0.358,0.621995,0.318595,0.140173,0.390753,0.312917,0.00152865,0.326484,0.15977,0.201434,0.134947,0.304849,0.316782,0.212636,0.325012,0.353123,0.394821,0.291345,0.453507,0.491263,0.547467,0.255995,0.184894,0.609179,0.244347,0.243363,0.382464,0.361244,0.207462,0.51104,0.487422,0.29768,0.217499,0.500934,0.225368,0.244195,0.0586175,0.348776,0.198885,0.871901,0.347052,0.386025,0.1797,0.379465,0.327304,0.581915,0.498434,0.132491,0.0297894,0.367752,0.436987,0.126235,0.00828985,0.191993,0.0821811,0.71056,0.279549,0.00501702,0.284421,0.71736,0.291947,0.751141,0.704995,0.458949,0.840587,0.741039,0.659829,0.726427,0.750889,0.401507,0.692805,0.281389,0.703424,0.308086,0.330529,0.910041,0.380231,0.949628,0.684866,0.790371,0.802111,0.744931,0.822139,0.218947,0.00388467,0.451787,0.818359,0.894024,0.315577,0.542303,0.487781,0.558605,0.952537,0.54891,0.341975,0.425103,0.547149,0.863925,0.780774,0.615729,0.433619,0.501908,0.74852,0.478352,0.680083,0.685599,0.814936,0.931591,0.337191,0.961057,0.434172,0.797881,0.515378,0.664234,0.695048,0.779967,0.0711488,0.621436,0.265062,0.411785,0.40673,0.415502,0.565657,0.152945,0.726141,0.632958,0.676266,0.327011,0.299176,0.710278,0.210121,0.585578,0.640275,0.341296,0.457524,0.258349,0.541728,0.854621,0.585566,0.373172,0.538803,0.970782,0.893074,0.706206,0.816529,0.596462,0.710783,0.619962,0.88908,0.681127,0.821879,0.522572,0.834451,0.443364,0.715629,0.715255,0.765316,0.814568,0.32901,0.100922,0.7547,0.294507,0.484505,0.346938,0.40211,0.183851,0.588416,0.783193,0.362009,0.611179,0.664218,0.250792,0.706724,0.654039,0.832266,0.685486,0.651111,0.466416,0.411899,0.525367,0.667,0.748565,0.635414,0.528332,0.906271,0.573415,0.474724,0.661532,0.574524,0.570287,0.797742,0.68023,0.49274,0.490466,0.676249,0.760368,0.487711,0.440345,0.809866,0.400622,0.391073,0.766374,0.883398,0.575489,0.762263,0.540565,0.855535,0.775603,0.695855,0.525188,0.657348,0.52794,0.67786,0.780554,0.646027,0.620377,0.402066,0.887664,0.680876,0.610982,0.826815,0.564763,0.904403,0.415214,0.364157,0.172412,0.53064,0.415017,0.0769041,0.387804,0.502902,0.385339,0.159832,0.512288,0.338978,0.390233,0.339879,0.438999,0.41967,0.197678,0.208523,0.34551,0.4924,0.670197,0.497662,0.418843,0.749185,0.369586,0.394729,0.441472,0.444932,0.622992,0.580249,0.436618,0.403472,0.382758,0.264429,0.404954,0.0744027,0.204325,0.265849,0.370442,0.451398,0.533438,0.188364,0.279598,0.420279,0.485091,0.443868,0.150111,0.420451,0.514853,0.244241,0.307495,0.455626,0.3382,0.454846,0.350305,0.00394734,0.147486,0.00720094,0.103076,0.518238,0.40865,0.634608,0.324846,0.25829,0.215261,0.235004,0.133496,0.433115,0.331422,0.440492,0.397558,0.266168,0.504119,0.57634,0.371725,0.334024,0.500457,0.316975,0.435107,0.26559,0.378345,0.380153,0.160696,0.502341,0.507413,0.412407,0.42955,0.418893,0.300222,0.393729,0.487504,0.249956,0.447581,0.482721,0.35808,0.406625,0.296254,0.400859,0.473667,0.327684,0.279523,0.499937,0.444635,0.356463,0.364875,0.211724,0.409573,0.579867,0.536787,0.436872,0.181464,0.40945,0.231548,0.120636,0.121001,0.317719,0.172653,0.0924531,0.120918,0.593272,0.507382,0.425328,0.384398,0.462521,0.387627,0.179489,0.214126,0.143317,0.261663,0.14273,0.227254,0.147968,0.168955,0.274981,0.236422,0.0999117,0.149301,0.196723,0.0836477,0.287028,0.413461,0.197757,0.545381,0.630108,0.299959,0.509613,0.498355,0.406059,0.452427,0.56256,0.494497,0.366448,0.540845,0.511559,0.280842,0.335456,0.416632,0.404559,0.545676,0.467154,0.600528,0.249647,0.43669,0.446356,0.248584,0.397145,0.390152,0.537963,0.540199,0.488863,0.342785,0.447064,0.20487,0.603936,0.449548,0.41929,0.209566,0.189123,0.588995,0.355645,0.332105,0.522124,0.158122,0.521096,0.220023,0.444217,0.363335,0.329186,0.432735,0.493369,0.416144,0.648861
|tfbs_overrepresentation_for_novel_motifs=0.392069,0.465735,0.384703,0.529489,0.343148,0.52784,0.604235,0.226729,0.224331,0.200685,0.497563,0.647852,0.184039,0.592674,0.341795,0.365029,0.827563,0.28906,0.19568,0.0986842,0.384762,0.23059,0.520063,0.338096,0.430372,0.670692,0.957451,0.517892,0.346214,0.150685,0.475674,0.864517,0.257226,0.186138,0.309012,0.0934825,0.305874,0.529001,0.282922,0.597792,0.307642,0.459366,0.0729319,0.340293,0.265117,0.415364,0.60533,0.486696,0.0670664,0.346342,0.684981,0.617179,0.373994,0.941629,1.09491,0.595623,0.350547,0.562713,0.150585,0.561701,0.905643,0.60771,0.638689,0.799729,0.625758,0.76514,1.18348,1.55228,0.854088,1.38987,0.4462,0.656075,0.744055,1.0929,0.531388,0.168304,0.473656,0.782748,0.850825,0.424224,0.200147,0.798651,0.625403,0.649554,1.04131,2.7931,0.097572,0.146388,0.711163,1.65172,1.27705,1.01423,0.881388,0.26423,0.343884,0.277058,1.07593,0.924148,0.715799,0.132387,0.28424,0.875714,0.918549,0.831244,0.753567,0.493026,0.815341,0.589207,0.43012,1.57162,0.395884,0.915771,0.379203,0.507004,1.22894,0.304323,0.358137,0.474472,0.762789,0.26701,1.0846,0.708722,1.30287,0.636741,1.33983,0.783512,1.45665,0.886402,1.12733,0.76179,1.01492,0.47854,1.14174,0.633392,1.28996,0.140417,0.469685,0.518459,1.24743,2.10682,1.70417,1.21002,0.59959,0.920609,0.755332,0.554217,0.738579,1.94751,0.456039,0.26104,0.106334,3.06512,1.0153,0.619774,0.607223,1.42052,0.694887,0.329354,0.430431,0.401655,1.2088,0.996724,0.850033,0.404861,0.7715,0.624608,0.24928,1.46724,0.377843
}}
}}

Revision as of 14:47, 26 November 2012


Full id: C1282_small_neuroectodermal_occipital_argyrophil_neuroblastoma_aorta_neuroepithelioma



Phase1 CAGE Peaks

Hg19::chr7:3340841..3340862,+p2@SDK1
Hg19::chr7:3340875..3340896,+p1@SDK1
Hg19::chr7:3438417..3438421,+p@chr7:3438417..3438421
+
Hg19::chr7:3471012..3471016,+p@chr7:3471012..3471016
+
Hg19::chr7:3513753..3513757,+p@chr7:3513753..3513757
+
Hg19::chr7:3525336..3525340,+p@chr7:3525336..3525340
+
Hg19::chr7:4027788..4027792,+p@chr7:4027788..4027792
+


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><br>uberon_data<br>disease_data<br>

Uber Anatomy
Ontology termp-valuen
adult organism1.84e-21114
nervous system2.97e-2189
central nervous system1.20e-1981
organ system subdivision2.03e-19223
neurectoderm1.94e-1886
neural tube6.42e-1656
neural rod6.42e-1656
future spinal cord6.42e-1656
neural keel6.42e-1656
neural plate1.01e-1582
presumptive neural plate1.01e-1582
brain1.40e-1568
future brain1.40e-1568
ectoderm-derived structure1.89e-14171
ectoderm1.89e-14171
presumptive ectoderm1.89e-14171
regional part of nervous system2.64e-1453
regional part of brain2.64e-1453
telencephalon9.05e-1334
brain grey matter9.98e-1334
gray matter9.98e-1334
cerebral cortex1.36e-1225
pallium1.36e-1225
cerebral hemisphere2.10e-1232
regional part of telencephalon5.19e-1232
regional part of forebrain6.28e-1241
forebrain6.28e-1241
anterior neural tube6.28e-1241
future forebrain6.28e-1241
pre-chordal neural plate5.69e-1161
anatomical cluster6.02e-11373
ecto-epithelium7.39e-11104
regional part of cerebral cortex1.01e-1022
neocortex8.59e-1020
structure with developmental contribution from neural crest1.72e-09132
gastrointestinal system1.89e-0825
multi-tissue structure5.53e-08342
intestine1.08e-0717
organ part2.13e-07218
embryo8.59e-07592
Disease
Ontology termp-valuen
germ cell and embryonal cancer2.84e-0922
germ cell cancer2.84e-0922
neuroectodermal tumor7.16e-0810


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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