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Coexpression cluster:C2041: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000166!4.49e-23!22;UBERON:0000161!5.71e-20!36;UBERON:0000165!1.44e-19!29;UBERON:0000930!1.44e-19!29;UBERON:0001004!9.06e-18!74;UBERON:0003102!1.59e-16!99;UBERON:0003729!5.30e-15!13;UBERON:0004119!4.96e-14!160;UBERON:0000925!4.96e-14!160;UBERON:0006595!4.96e-14!160;UBERON:0003343!1.38e-13!4;UBERON:0004785!1.38e-13!4;UBERON:0001444!5.89e-12!49;UBERON:0000344!1.09e-11!20;UBERON:0000033!1.62e-11!56;UBERON:0000153!1.69e-11!62;UBERON:0007811!1.69e-11!62;UBERON:0001007!1.30e-10!145;UBERON:0001555!1.30e-10!145;UBERON:0007026!1.30e-10!145;UBERON:0001723!1.32e-10!3;UBERON:0001033!1.32e-10!3;UBERON:0010056!1.32e-10!3;UBERON:0001949!2.16e-10!3;UBERON:0000065!1.38e-08!54;UBERON:0000974!4.13e-08!10;UBERON:0006562!3.68e-07!11
|ontology_enrichment_uberon=UBERON:0000166!4.49e-23!22;UBERON:0000161!5.71e-20!36;UBERON:0000165!1.44e-19!29;UBERON:0000930!1.44e-19!29;UBERON:0001004!9.06e-18!74;UBERON:0003102!1.59e-16!99;UBERON:0003729!5.30e-15!13;UBERON:0004119!4.96e-14!160;UBERON:0000925!4.96e-14!160;UBERON:0006595!4.96e-14!160;UBERON:0003343!1.38e-13!4;UBERON:0004785!1.38e-13!4;UBERON:0001444!5.89e-12!49;UBERON:0000344!1.09e-11!20;UBERON:0000033!1.62e-11!56;UBERON:0000153!1.69e-11!62;UBERON:0007811!1.69e-11!62;UBERON:0001007!1.30e-10!145;UBERON:0001555!1.30e-10!145;UBERON:0007026!1.30e-10!145;UBERON:0001723!1.32e-10!3;UBERON:0001033!1.32e-10!3;UBERON:0010056!1.32e-10!3;UBERON:0001949!2.16e-10!3;UBERON:0000065!1.38e-08!54;UBERON:0000974!4.13e-08!10;UBERON:0006562!3.68e-07!11
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66228,0.271849,0.282657,0.105411,0.0997542,0.209692,0.248936,0.0725263,0.102587,0.0742013,0.0552936,0.0457886,0.0514927,0.324236,0.220368,0.258624,0.064656,0.0277507,0.460406,0.0438521,0.435508,0.281453,0.0522771,0.0787278,0.515487,0.159873,0.142462,0.143935,0.332403,0.0379537,0.287316,0.187953,0.051459,0.114868,0.0726892,0.18732,0.32305,0.278397,0.245002,0.170848,0.487259,0.302909,0.363016,0.100188,0.223102,0.107653,0.235857,0.419621,0.191914,0.184022,0.216557,0.182956,0.116818,0.389792,0.36316,0.0625685,0.124464,0.544477,0.173134,0.101893,0.142875,0.167635,0.171311,0.458838,0.0465855,0.0685131,0.130287,0.0661526,0.0815772,0.0993937,0.122878,0.187329,0.0451012,0.0976639,0.351199,0.535567,0.171375,0.278645,0.365775,0.155708,0.248017,0.22995,0.652972,0.0760151,0.0629459,0.486024,0.0803251,0.226641,0.379174,0.0939463,0.286748,0.367925,0.0471607,0.163865,0.226359,0.626334,0.881117,0.265324,0.043404,0.141699,0.0887743,0.142302,0.0653269,0.125712,0.264432,0.0994829,0.0604041,0.144185,0.0925862,0.289561,0.199201,0.049937,0.172796,0.0595495,0.071232,0.149346,0.121978,0.22302,0.137423,0.284016,0.0754883,0.299492,0.100006,0.362866,0.197817,0.251078,0.279874,0.133127,0.410303,0.223717,0.107609,0.196838,0.0826805,0.246601,0.193021,0.608002,0.202165,0.0946865,0.120618,0.079499,0.18762,0.195618,0.127688,0.201169,0.220353,0.24948,0.178639,0.291976,0.320355,0.364334,0.15547,0.110256,0.415419,0.000606841,0.147307,0.240761,0.225961,0.124417,0.335582,0.317428,0.182843,0.130771,0.327768,0.135777,0.147842,0.0339286,0.217363,0.119015,0.114979,0.21618,0.243266,0.107021,0.238657,0.20272,0.392453,0.248134,0.0780061,0.315336,0.230477,0.279823,0.295555,0.502112,0.724669,0.0478217,0.507599,0.170854,0.0575231,0.174063,0.163504,0.459091,0.0466753,0.154964,0.296013,0.649813,0.537932,0.459994,0.170061,0.189126,0.25423,0.146971,0.45013,0.0334811,0.00420596,0.111549,0.0133357,0.529642,0.0943307,0.483077,0.0131065,0.603763,0.541914,0.0181844,0.765905,0.757308,0.290703,0.622694,0.722684,0.0284983,0.360199,0.241059,0.657141,0.824761,0.365494,0.0244211,0.201391,0.364079,0.107716,0.0575699,0.421038,0.569409,0.328518,0.545608,0.310552,0.594773,0.483764,0.829658,0.453065,0.209437,0.55323,0.748403,0.232518,0.630688,0.12974,0.60737,0.0572388,0.605327,0.546688,0.586133,0.261575,0.0365695,0.264245,0.379063,0.0602936,0.522925,0.436016,0.136753,0.202522,0.183837,0.507324,0.126097,0.3955,0.116739,0.212239,0.048546,0.156999,0.0742603,0.0999766,0.39549,0.234254,0.357409,0.146291,0.0408829,0.50338,0.252827,0.0958848,0.0563812,0.424691,0.715362,0.0286876,0.62689,0.635682,0.642173,0.284496,0.512545,0.512178,0.563206,0.260945,0.110875,0.263302,0.047857,0.180735,0.775168,0.216102,0.254659,0.109605,0.397869,0.582542,0.226491,0.417131,0.463987,0.260097,0.503881,0.454761,0.0202528,0.483658,0.452129,0.301581,0.261657,0.346776,0.000485493,0.187223,0.438176,0.349112,0.155207,0.385425,0.307816,0.0250382,0.386339,0.382854,0.598787,0.139139,0.611661,0.319747,0.136743,0.197104,0.241014,0.282281,0.0710918,0.2536,0.246827,0.202347,0.347466,0.387134,0.198743,0.358813,0.303004,0.574252,0.148933,0.0685505,0.457747,0.348802,0.476541,0.0574793,0.447581,0.42505,0.254628,0.0382032,0.479347,0.416962,0.00368966,0.378333,0.738545,0.264038,0.22798,0.102495,0.350933,0.263896,0.0446972,0.24452,0.0613938,0.242783,0.0947248,0.0643357,0.210656,0.246234,0.211271,0.281295,0.267248,0.118257,0.125087,0.215123,0.321224,0.133173,0.325254,0.266651,0.187728,0.231754,0.249415,0.283107,0.285648,0.427316,0.391071,0.279553,0.25563,0.240967,0.160955,0.256687,0.0432189,0.122439,0.16188,0.23235,0.290415,0.353147,0.112422,0.170886,0.267687,0.0560879,0.0450921,0.0887542,0.267811,0.338547,0.147872,0.189388,0.293546,0.210125,0.0478543,0.0258076,0.0509944,0.0871471,0.0689852,0.0602698,0.341188,0.259328,0.437467,0.201057,0.15696,0.129351,0.141936,0.0786166,0.276997,0.205513,0.282389,0.251421,0.162089,0.330223,0.387837,0.233244,0.207281,0.0606443,0.195748,0.27845,0.161712,0.237871,0.239139,0.095257,0.328852,0.332769,0.262022,0.274403,0.266687,0.184534,0.248707,0.31749,0.15156,0.287598,0.313858,0.223773,0.25788,0.181895,0.035332,0.0528669,0.202977,0.170837,0.0604859,0.28543,0.0268645,0.228479,0.127111,0.259989,0.390754,0.0102294,0.279739,0.108118,0.259901,0.139723,0.0708274,6.31328e-05,0.196248,0.102645,0.00148086,6.29973e-05,0.0154764,0.0627853,0.271338,0.242121,0.00571761,0.0326468,0.106889,0.128632,0.0845989,0.159153,0.0842401,0.13698,0.0874421,0.100355,0.167854,0.142846,0.0583767,0.088258,0.00721029,0.00120515,0.175784,0.262778,0.0120454,0.362662,0.433518,0.184359,0.334474,0.325785,0.257476,0.00525983,0.081972,0.322827,0.0286371,0.0739466,0.335984,0.171704,0.208256,0.265058,0.256405,0.362898,0.302133,0.0163014,0.151361,0.00460647,0.286696,0.150674,0.251128,0.246177,0.35674,0.0737175,0.00707033,0.213257,0.287217,0.122782,0.410951,0.289049,0.266974,0.125746,0.112897,0.398354,0.222091,0.205977,0.00915515,0.0936726,0.343425,0.132374,0.00491013,0.22741,0.203996,0.276721,0.321965,0.264707,0.450113
|tfbs_overrepresentation_for_novel_motifs=0.590005,0.620826,0.581696,0.741427,0.534346,0.739643,0.821651,0.395818,0.392841,0.462021,0.706765,0.867962,0.341754,0.809319,0.532789,0.559384,1.05593,1.18793,0.938585,0.635753,0.581762,0.505745,0.731221,0.528529,0.632849,0.892087,0.849366,0.728867,0.537869,0.297585,0.682839,1.09415,0.433165,0.911389,0.49475,1.00622,0.491074,0.740899,1.17228,0.371755,0.493145,0.66492,0.539378,0.53106,1.59529,1.49501,0.822818,0.694903,0.515703,0.538016,0.90714,0.83543,0.699149,1.17354,1.33024,0.812467,2.30194,0.777235,0.297448,0.776148,1.13655,0.825354,0.393426,1.02706,0.844545,0.991076,1.42026,1.79268,1.08337,1.62905,0.650393,0.402607,0.248021,1.32819,0.336329,0.859396,0.305238,1.00941,1.08,0.62601,0.362435,1.02594,0.844168,0.399165,1.27559,0.109222,0.221873,0.291738,0.934646,1.89266,1.51507,1.24792,1.11156,0.441618,0.535192,0.456994,0.354969,1.15558,0.939507,0.749003,0.465545,1.1057,1.14983,1.05974,0.979006,0.701817,1.04326,1.88833,0.632569,0.516141,0.594299,1.14697,0.575476,0.717043,1.46636,0.489254,0.12452,0.681522,0.988625,0.444962,1.31973,0.932085,0.736652,0.856196,1.57854,1.0102,0.814847,1.11673,1.36323,0.458105,1.24863,0.68598,1.37788,0.852645,1.52813,1.41398,0.676268,1.73115,1.48509,2.34913,1.94535,1.44718,0.8167,1.15194,0.980848,0.768101,0.963351,2.1895,0.661255,0.437774,1.23342,0.175846,1.24902,1.76758,0.824835,1.65997,0.917558,0.518428,0.632914,0.600782,1.44595,1.23002,1.07918,0.604379,0.997702,0.843324,0.423521,0.820225,0.359498
}}
}}

Revision as of 15:15, 26 November 2012


Full id: C2041_cervical_immature_malignant_keratoacanthoma_salivary_nasal_epidermoid



Phase1 CAGE Peaks

Hg19::chr10:123845220..123845230,+p@chr10:123845220..123845230
+
Hg19::chr10:123847162..123847174,+p@chr10:123847162..123847174
+
Hg19::chr10:123847193..123847204,+p@chr10:123847193..123847204
+
Hg19::chr17:39781054..39781073,-p7@KRT17


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>disease_data<br>

Uber Anatomy
Ontology termp-valuen
oral opening4.49e-2322
orifice5.71e-2036
mouth1.44e-1929
stomodeum1.44e-1929
respiratory system9.06e-1874
surface structure1.59e-1699
mouth mucosa5.30e-1513
endoderm-derived structure4.96e-14160
endoderm4.96e-14160
presumptive endoderm4.96e-14160
mucosa of oral region1.38e-134
respiratory system mucosa1.38e-134
subdivision of head5.89e-1249
mucosa1.09e-1120
head1.62e-1156
anterior region of body1.69e-1162
craniocervical region1.69e-1162
digestive system1.30e-10145
digestive tract1.30e-10145
primitive gut1.30e-10145
tongue1.32e-103
gustatory system1.32e-103
future tongue1.32e-103
gingival epithelium2.16e-103
respiratory tract1.38e-0854
neck4.13e-0810
pharynx3.68e-0711
Disease
Ontology termp-valuen
squamous cell carcinoma3.06e-1814


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)

{{{tfbs_overrepresentation_jaspar}}}



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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