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Coexpression cluster:C1882: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002298!1.67e-30!6;UBERON:0001896!4.50e-23!3;UBERON:0005290!4.50e-23!3;UBERON:0010096!4.50e-23!3;UBERON:0003076!3.48e-17!15;UBERON:0003057!3.48e-17!15;UBERON:0004733!3.25e-15!12;UBERON:0002028!3.25e-15!12;UBERON:0007277!3.25e-15!12;UBERON:0004732!4.92e-14!13;UBERON:0001049!1.45e-13!56;UBERON:0005068!1.45e-13!56;UBERON:0006241!1.45e-13!56;UBERON:0007135!1.45e-13!56;UBERON:0000073!7.40e-12!53;UBERON:0002616!7.40e-12!53;UBERON:0007023!1.24e-11!114;UBERON:0000988!1.53e-10!3;UBERON:0003075!1.65e-10!82;UBERON:0007284!1.65e-10!82;UBERON:0002346!6.27e-10!86;UBERON:0000955!8.81e-09!68;UBERON:0006238!8.81e-09!68;UBERON:0001017!9.80e-09!81;UBERON:0002038!1.32e-08!1;UBERON:0009661!1.32e-08!1;UBERON:0002950!1.32e-08!1;UBERON:0001891!1.32e-08!1;UBERON:0009616!1.32e-08!1;UBERON:0010286!1.32e-08!1;UBERON:0002336!1.91e-08!1;UBERON:0011215!1.91e-08!1;UBERON:0001018!1.91e-08!1;UBERON:0002473!1.91e-08!1;UBERON:0005340!1.91e-08!1;UBERON:0003544!1.91e-08!1;UBERON:0005970!1.91e-08!1;UBERON:0002316!1.91e-08!1;UBERON:0001020!1.91e-08!1;UBERON:0002437!1.91e-08!1;UBERON:0002022!2.22e-08!1;UBERON:0010371!7.19e-08!104;UBERON:0001016!1.06e-07!89
|ontology_enrichment_uberon=UBERON:0002298!1.67e-30!6;UBERON:0001896!4.50e-23!3;UBERON:0005290!4.50e-23!3;UBERON:0010096!4.50e-23!3;UBERON:0003076!3.48e-17!15;UBERON:0003057!3.48e-17!15;UBERON:0004733!3.25e-15!12;UBERON:0002028!3.25e-15!12;UBERON:0007277!3.25e-15!12;UBERON:0004732!4.92e-14!13;UBERON:0001049!1.45e-13!56;UBERON:0005068!1.45e-13!56;UBERON:0006241!1.45e-13!56;UBERON:0007135!1.45e-13!56;UBERON:0000073!7.40e-12!53;UBERON:0002616!7.40e-12!53;UBERON:0007023!1.24e-11!114;UBERON:0000988!1.53e-10!3;UBERON:0003075!1.65e-10!82;UBERON:0007284!1.65e-10!82;UBERON:0002346!6.27e-10!86;UBERON:0000955!8.81e-09!68;UBERON:0006238!8.81e-09!68;UBERON:0001017!9.80e-09!81;UBERON:0002038!1.32e-08!1;UBERON:0009661!1.32e-08!1;UBERON:0002950!1.32e-08!1;UBERON:0001891!1.32e-08!1;UBERON:0009616!1.32e-08!1;UBERON:0010286!1.32e-08!1;UBERON:0002336!1.91e-08!1;UBERON:0011215!1.91e-08!1;UBERON:0001018!1.91e-08!1;UBERON:0002473!1.91e-08!1;UBERON:0005340!1.91e-08!1;UBERON:0003544!1.91e-08!1;UBERON:0005970!1.91e-08!1;UBERON:0002316!1.91e-08!1;UBERON:0001020!1.91e-08!1;UBERON:0002437!1.91e-08!1;UBERON:0002022!2.22e-08!1;UBERON:0010371!7.19e-08!104;UBERON:0001016!1.06e-07!89
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749,0.0686325,0.0569043,0.0639461,0.387306,0.267408,0.312064,0.080156,0.274185,0.53753,0.0545112,0.510703,0.33844,0.0649137,0.0974216,0.595767,0.195675,0.174786,0.176557,0.0147764,0.0472148,0.735114,0.229138,0.0639045,0.141461,0.0900204,0.228387,0.385962,0.334921,0.00556522,0.208788,0.566117,0.36304,0.430936,0.123626,0.270619,0.132705,0.285556,0.493429,0.233835,0.224471,0.262929,0.223204,0.143824,0.460679,0.431098,0.0775891,0.153079,0.62577,0.211515,0.125701,0.175283,0.204954,0.209341,0.855975,0.629422,0.084895,0.160115,0.0819954,0.10091,0.122658,0.151161,0.228398,0.056055,0.120552,0.41771,0.893893,0.830533,0.335207,0.111864,0.190688,0.299739,0.278645,0.733648,0.0940982,0.0780533,0.564811,0.0993772,0.274769,0.448923,0.11602,0.344528,0.436413,0.0585992,0.20045,0.274438,0.98236,0.989834,0.319826,0.336512,0.173868,0.109708,0.174594,0.0809806,0.154589,0.318794,0.122767,0.0749261,0.176858,0.114361,0.347759,0.242462,0.0620267,0.211111,0.0738743,0.0882327,0.183058,0.150073,0.270522,0.16872,0.341388,0.0934526,0.359135,0.123404,0.430769,0.240825,0.3033,0.336623,0.163542,0.483244,0.27134,0.500871,0.239667,0.10226,0.29809,0.235147,0.689826,0.245965,0.116923,0.148426,0.0983658,0.228743,0.238223,0.156976,0.244789,0.267391,0.301441,0.21807,0.350528,0.382904,0.432408,0.190404,0.135865,0.488841,0.18137,0.180609,0.291283,0.273972,0.153023,0.400137,0.37958,0.22307,0.160699,0.391307,0.166736,0.181253,0.0422294,0.263877,0.146486,0.183121,0.00375039,0.294204,0.131936,0.288826,0.246621,0.463617,0.697373,0.0965376,0.377203,0.279263,0.336564,0.35463,0.581771,0.800557,0.0594155,0.587524,0.208795,0.0713793,0.212621,0.594469,0.53612,0.629713,0.581874,0.355154,0.730614,0.619037,0.537088,0.603804,0.629445,0.306963,0.569605,0.526495,0.580285,0.0473662,0.424482,0.820986,0.610475,0.629179,0.561689,0.672416,0.0301736,0.623136,0.708698,0.96913,0.967174,0.349068,0.344004,0.798758,0.196345,0.427789,0.689998,0.737642,0.886619,0.433702,0.258394,0.644878,0.432123,0.759415,0.661773,0.494975,0.651196,0.392155,0.626931,0.371758,0.91821,0.562417,0.890566,0.300573,0.254547,0.901563,0.821811,0.680843,0.931136,0.541378,0.922893,0.660884,0.922144,0.898765,0.914902,0.315485,0.311289,0.318577,0.4488,0.389888,0.603509,0.161355,0.553178,0.246387,0.224252,0.587237,0.155054,0.466978,0.518234,0.257848,0.353942,0.192234,0.427276,0.747776,0.466967,0.283682,0.424668,0.7175,0.797471,0.583101,0.702164,0.477016,0.831202,0.498956,0.465544,0.55798,0.708394,0.932831,0.723248,0.34194,0.592696,0.592314,0.644904,0.647996,0.423117,0.317485,0.633504,0.220564,0.845182,0.262394,0.307462,0.135076,0.469588,0.664443,0.274593,0.490712,0.541363,0.350314,0.583627,0.531474,0.720644,0.562305,0.528646,0.0107937,0.0560593,0.412744,0.54408,0.62698,0.513592,0.415367,0.815658,0.45585,0.36864,0.538745,0.456862,0.453004,0.680686,0.557093,0.330982,0.382214,0.553161,0.639572,0.68995,0.339393,0.694478,0.00620796,0.298354,0.646049,0.784543,0.457741,0.641611,0.426239,0.748909,0.656093,0.572661,0.412586,0.534679,0.41502,0.55475,0.66153,0.523749,0.499347,0.0530156,0.790204,0.557732,0.490527,0.714189,0.44799,0.813041,0.318338,0.276338,0.126433,0.417412,0.318174,0.0555558,0.295666,0.393022,0.293641,0.116969,0.401231,0.255983,0.297663,0.256708,0.338258,0.322052,0.145568,0.153833,0.261242,0.38389,0.54721,0.388459,0.321362,0.627637,0.280757,0.301366,0.340343,0.343265,0.501812,0.462092,0.336254,0.308589,0.291523,0.19697,0.309816,0.0537285,0.15063,0.198077,0.281455,0.348739,0.419895,0.138495,0.208834,0.32256,0.377566,0.342366,0.109684,0.322704,0.403482,0.181288,0.230841,0.352328,0.255358,0.351665,0.265112,0.0633313,0.10772,0.0854747,0.0747609,0.406458,0.312881,0.512825,0.244656,0.192188,0.158985,0.174153,0.0972854,0.333309,0.249919,0.339517,0.303699,0.198326,0.394084,0.458518,0.282501,0.252005,0.390891,0.238377,0.334983,0.197875,0.287909,0.289389,0.117618,0.392533,0.396962,0.316002,0.330317,0.321404,0.225079,0.300542,0.379651,0.185715,0.345505,0.375521,0.271405,0.311201,0.221943,0.306427,0.367733,0.246925,0.208775,0.390438,0.343014,0.270094,0.276922,0.156279,0.313647,0.461742,0.422872,0.336468,0.13327,0.00671106,0.17149,0.0877361,0.0880065,0.238969,0.126615,0.0669467,0.0879453,0.474066,0.396935,0.326779,0.292869,0.358198,0.29552,0.131776,0.158116,0.104606,0.194814,0.104167,0.168186,0.108081,0.123829,0.205215,0.175247,0.0724304,0.109077,0.144842,0.0604892,0.214671,0.316879,0.442567,0.430541,0.508546,0.224871,0.398887,0.389061,0.310732,0.349611,0.445995,0.385709,0.278202,0.426488,0.400591,0.209809,0.253154,0.319519,0.309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.184651,0.303359,0.297596,0.42392,0.425912,0.380826,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476
|tfbs_overrepresentation_for_novel_motifs=0.508327,0.0561813,0.500341,0.654974,0.454983,0.653236,1.73914,0.324142,0.321368,0.345702,0.621241,0.778743,0.274093,0.721271,1.14971,1.20439,0.963929,0.395009,3.03925,0.167776,1.25032,0.770467,0.645033,0.44943,1.35492,0.802434,0.25115,0.642741,0.458349,0.233785,1.45697,1.00172,0.359091,0.27659,0.417272,0.0526856,0.413782,0.654459,0.388123,0.301779,1.06799,0.580638,0.132849,1.14615,0.0606304,0.533483,0.734485,0.609718,0.124583,1.16046,1.91222,0.746838,3.15957,1.08035,1.2359,0.724351,2.03817,0.689906,0.233662,1.64682,1.04369,0.736968,1.55219,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.330474,0.554326,1.23387,0.269111,0.255232,1.25519,0.917983,0.987729,0.543014,0.293154,0.934302,0.755403,1.57121,1.18161,0.0719601,0.166306,0.228496,0.844289,1.79645,1.41984,1.15413,1.01895,0.367039,0.455791,0.381528,0.780629,1.06255,0.849074,1.14173,0.389604,1.01316,5.56031,2.22024,0.88799,0.616433,0.951411,0.717647,0.549347,0.437618,0.512457,1.05402,0.494368,1.52665,1.37132,1.05995,1.49495,0.596731,0.897476,0.370186,1.22546,0.841768,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.221105,0.591636,1.55197,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,0.680988,0.87256,2.09294,0.577088,0.363423,0.177807,0.126633,1.15522,1.51895,0.736459,1.56426,0.827475,0.439798,0.54968,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.35004,0.731946,0.720819
}}
}}

Revision as of 15:10, 26 November 2012


Full id: C1882_endometrial_cervical_kidney_pineal_carcinoid_rectal_medulla



Phase1 CAGE Peaks

Hg19::chr2:165701498..165701506,+p@chr2:165701498..165701506
+
Hg19::chr2:165701514..165701517,+p@chr2:165701514..165701517
+
Hg19::chr2:165701544..165701556,+p@chr2:165701544..165701556
+
Hg19::chr2:165701558..165701569,+p@chr2:165701558..165701569
+
Hg19::chr2:165701580..165701589,+p@chr2:165701580..165701589
+


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><br>

Uber Anatomy
Ontology termp-valuen
brainstem1.67e-306
medulla oblongata4.50e-233
myelencephalon4.50e-233
future myelencephalon4.50e-233
posterior neural tube3.48e-1715
chordal neural plate3.48e-1715
segmental subdivision of hindbrain3.25e-1512
hindbrain3.25e-1512
presumptive hindbrain3.25e-1512
segmental subdivision of nervous system4.92e-1413
neural tube1.45e-1356
neural rod1.45e-1356
future spinal cord1.45e-1356
neural keel1.45e-1356
regional part of nervous system7.40e-1253
regional part of brain7.40e-1253
adult organism1.24e-11114
pons1.53e-103
neural plate1.65e-1082
presumptive neural plate1.65e-1082
neurectoderm6.27e-1086
brain8.81e-0968
future brain8.81e-0968
central nervous system9.80e-0981
substantia nigra1.32e-081
midbrain nucleus1.32e-081
regional part of midbrain1.32e-081
midbrain1.32e-081
presumptive midbrain1.32e-081
midbrain neural tube1.32e-081
corpus callosum1.91e-081
central nervous system cell part cluster1.91e-081
axon tract1.91e-081
intercerebral commissure1.91e-081
dorsal telencephalic commissure1.91e-081
brain white matter1.91e-081
brain commissure1.91e-081
white matter1.91e-081
nervous system commissure1.91e-081
cerebral hemisphere white matter1.91e-081
insula2.22e-081
ecto-epithelium7.19e-08104
nervous system1.06e-0789


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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