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Coexpression cluster:C1136: Difference between revisions

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|full_id=C1136_Gingival_Mallassezderived_Keratinocyte_Sebocyte_Prostate_keratoacanthoma_Urothelial
|full_id=C1136_Gingival_Mallassezderived_Keratinocyte_Sebocyte_Prostate_keratoacanthoma_Urothelial
|id=C1136
|id=C1136
|ontology_enrichment_celltype=CL:0002076!1.87e-18!43;CL:0000066!5.66e-15!254;CL:0002159!3.79e-13!13;CL:0000223!1.38e-12!59;CL:0002368!1.34e-11!13;CL:0002251!1.18e-09!21;CL:0000622!1.80e-09!5;CL:0000244!7.41e-08!4;CL:0000731!7.41e-08!4;CL:0000154!9.07e-08!6;CL:0002621!9.05e-07!3
|ontology_enrichment_celltype=CL:0002159!8.28e-44!14;CL:0002251!3.01e-24!20;CL:0002076!1.06e-22!42;CL:0002621!9.78e-21!3;CL:0000622!1.83e-20!5;CL:0002166!2.00e-20!3;CL:0000066!1.36e-18!253;CL:0000223!1.97e-18!58;CL:0000362!1.43e-17!9;CL:0000240!4.32e-17!6;CL:0000311!4.32e-17!6;CL:0000079!4.32e-17!6;CL:0000237!4.32e-17!6;CL:0000154!4.32e-17!6;CL:0000036!4.32e-17!6;CL:0000357!4.32e-17!6;CL:0000114!4.32e-17!6;CL:0002077!5.07e-17!34;CL:0002327!1.89e-14!4;CL:0000317!5.88e-14!2;CL:1000448!5.88e-14!2;CL:0002308!5.88e-14!2;CL:0002140!5.88e-14!2;CL:0000575!2.39e-13!2;CL:0000312!5.84e-12!5;CL:0000076!6.77e-12!63;CL:0000150!1.89e-11!9;CL:0002321!1.04e-09!250;CL:0002623!3.39e-09!3;CL:0000221!2.12e-08!72;CL:0002336!1.07e-07!1;CL:0002261!1.07e-07!1;CL:0002170!1.07e-07!1;CL:0002252!1.30e-07!1;CL:0000244!2.89e-07!4;CL:0000731!2.89e-07!4
|ontology_enrichment_disease=DOID:1749!1.73e-09!14
|ontology_enrichment_disease=DOID:3151!7.76e-08!1;DOID:3149!7.76e-08!1;DOID:1749!4.47e-07!14
|ontology_enrichment_uberon=UBERON:0005631!1.83e-11!14;UBERON:0000158!1.83e-11!14;UBERON:0001004!7.83e-11!72;UBERON:0003124!1.37e-10!7;UBERON:0004923!8.19e-10!57;UBERON:0000166!2.03e-09!21;UBERON:0000365!4.97e-09!5;UBERON:0003102!7.29e-09!95;UBERON:0004119!1.68e-08!169;UBERON:0000925!1.68e-08!169;UBERON:0006595!1.68e-08!169;UBERON:0000161!2.36e-08!35;UBERON:0001708!8.20e-08!4;UBERON:0001704!8.20e-08!4;UBERON:0000165!1.39e-07!28;UBERON:0000930!1.39e-07!28;UBERON:0005910!2.07e-07!6;UBERON:0000065!2.35e-07!53;UBERON:0000064!3.39e-07!219;UBERON:0001949!9.05e-07!3;UBERON:0001444!9.87e-07!48
|ontology_enrichment_uberon=UBERON:0003102!1.24e-21!99;UBERON:0001949!9.78e-21!3;UBERON:0003729!2.49e-17!13;UBERON:0000033!1.20e-16!56;UBERON:0001708!1.85e-15!4;UBERON:0008895!1.85e-15!4;UBERON:0000153!8.64e-15!62;UBERON:0007811!8.64e-15!62;UBERON:0001911!1.89e-14!4;UBERON:0005333!1.89e-14!4;UBERON:0008425!1.89e-14!4;UBERON:0005311!1.89e-14!4;UBERON:0002419!5.88e-14!2;UBERON:0007771!5.88e-14!2;UBERON:0003297!5.88e-14!2;UBERON:0001821!5.88e-14!2;UBERON:0003487!5.88e-14!2;UBERON:0001820!5.88e-14!2;UBERON:0005089!5.88e-14!2;UBERON:0005088!5.88e-14!2;UBERON:0000166!2.35e-13!22;UBERON:0000165!6.86e-13!29;UBERON:0000930!6.86e-13!29;UBERON:0011159!1.80e-12!5;UBERON:0001444!3.81e-11!49;UBERON:0000344!4.48e-11!20;UBERON:0010188!1.80e-10!6;UBERON:0002539!1.80e-10!6;UBERON:0008816!1.80e-10!6;UBERON:0001003!1.83e-10!15;UBERON:0007376!1.83e-10!15;UBERON:0007383!1.83e-10!15;UBERON:0000161!3.52e-10!36;UBERON:0002365!4.87e-09!31;UBERON:0005085!4.87e-09!31;UBERON:0002330!4.87e-09!31;UBERON:0001004!3.34e-08!74;UBERON:0003350!4.48e-08!8;UBERON:0001828!4.48e-08!8;UBERON:0004121!5.03e-08!171;UBERON:0000924!5.03e-08!171;UBERON:0006601!5.03e-08!171;UBERON:0010371!1.15e-07!104;UBERON:0000076!1.80e-07!8;UBERON:0000964!4.20e-07!4;UBERON:0010409!4.20e-07!4;UBERON:0004348!4.20e-07!4;UBERON:0005427!4.20e-07!4;UBERON:0003343!4.91e-07!4;UBERON:0004785!4.91e-07!4;UBERON:0004119!9.97e-07!160;UBERON:0000925!9.97e-07!160;UBERON:0006595!9.97e-07!160
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,0.407665,0.11039,0.361507,0.660283,0.0754745,0.632378,0.439214,0.0896836,0.133679,0.718626,0.262768,0.235824,0.23812,0.506939,0.0654706,0.844302,0.305348,0.0883079,0.192275,0.123717,0.3044,0.0320798,0.435034,0.388488,0.27954,0.689314,0.468189,0.545823,0.168686,0.35711,0.180717,0.375467,0.614081,0.311267,0.299453,0.347601,0.297851,0.195385,0.578705,0.546003,0.106912,0.207535,0.747423,0.283013,0.17144,0.236468,0.274647,0.280244,0.933654,0.750867,0.1168,0.216736,0.112879,0.138362,0.1674,0.205022,0.304414,0.0775871,0.1646,0.530976,0.956744,0.916686,0.435374,0.54926,0.25636,0.392755,0.366993,0.843094,0.12921,0.107541,0.688004,0.136306,0.362226,0.565792,0.158567,0.446426,0.551931,0.0810658,0.268889,0.361819,0.996492,0.998378,0.417001,0.436925,0.234633,0.150144,0.235575,0.111506,0.209512,0.415762,0.167545,0.1033,0.238509,0.156356,0.450242,0.322099,0.0857464,0.282499,0.101873,0.121306,0.246526,0.203595,0.356991,0.227948,0.44271,0.128341,0.463619,0.168391,0.545636,0.320047,0.397073,0.437057,0.221207,0.603174,0.358,0.621995,0.0572091,0.140173,0.390753,0.312917,0.805801,0.326484,0.15977,0.201434,0.134947,0.304849,0.316782,0.212636,0.325012,0.353123,0.394821,0.291345,0.453507,0.491263,0.547467,0.255995,0.184894,0.609179,1.13997e-05,0.243363,0.382464,0.361244,0.207462,0.51104,0.487422,0.29768,0.217499,0.500934,0.225368,0.244195,0.0586175,0.348776,0.198885,0.608664,0.347052,0.386025,0.1797,0.379465,0.327304,0.581915,0.812383,0.132491,0.48467,0.367752,0.436987,0.458334,0.704893,0.895348,0.0821811,0.71056,0.279549,0.0984834,0.284421,0.71736,0.658832,0.751141,0.704995,0.458949,0.840587,0.741039,0.659829,0.726427,0.750889,0.0942765,0.692805,0.648881,0.703424,0.673541,0.601152,0.693384,0.732853,0.949628,0.684866,0.790371,0.802111,0.744931,0.822139,0.863887,0.991631,0.451787,0.818359,0.894024,0.680172,0.542303,0.805952,0.289067,0.952537,0.54891,0.341975,0.765292,0.547149,0.863925,0.780774,0.615729,0.433619,0.033774,0.74852,0.478352,0.969954,0.685599,0.954834,0.931591,0.337191,0.961057,0.910621,0.797881,0.976385,0.664234,0.972335,0.446842,0.971958,0.959499,0.96824,0.411785,0.40673,0.415502,0.565657,0.0331465,0.371455,0.265079,0.676266,0.327011,0.299176,0.710278,0.210121,0.585578,0.640275,0.0662996,0.457524,0.258349,0.541728,0.574271,0.585566,0.373172,0.538803,0.867555,0.893074,0.0359672,0.505417,0.596462,0.917146,0.619962,0.88908,0.681127,0.821879,0.890974,0.834451,0.443364,0.715629,0.715255,0.765316,0.954715,0.599651,0.41419,0.7547,0.294507,0.926591,0.346938,0.40211,0.183851,0.223035,0.783193,0.362009,0.243885,0.297782,0.822766,0.706724,0.654039,0.832266,0.685486,0.651111,0.466416,0.099702,0.525367,0.667,0.748565,0.635414,0.528332,0.906271,0.209988,0.474724,0.294861,0.574524,0.207335,0.216179,0.68023,0.0866156,0.490466,0.676249,0.418017,0.805909,0.440345,0.809866,0.400622,0.391073,0.426674,0.883398,0.575489,0.762263,0.540565,0.855535,0.775603,0.695855,0.525188,0.657348,0.52794,0.67786,0.447731,0.646027,0.620377,0.402066,0.642069,0.680876,0.610982,0.826815,0.564763,0.679978,0.415214,0.364157,0.172412,0.53064,0.415017,0.0769041,0.387804,0.502902,0.385339,0.159832,0.512288,0.338978,0.390233,0.339879,0.438999,0.41967,0.197678,0.208523,0.34551,0.4924,0.670197,0.497662,0.418843,0.749185,0.369586,0.394729,0.441472,0.0220103,0.622992,0.580249,0.436618,0.403472,0.382758,0.264429,0.404954,0.0744027,0.204325,0.265849,0.370442,0.451398,0.533438,0.188364,0.279598,0.420279,0.485091,0.443868,0.150111,0.420451,0.514853,0.244241,0.307495,0.455626,0.3382,0.454846,0.350305,0.0875262,0.147486,0.117583,0.103076,0.518238,0.40865,0.019407,0.324846,0.25829,0.215261,0.235004,0.133496,0.433115,0.331422,0.440492,0.397558,0.266168,0.504119,0.57634,0.371725,0.334024,0.500457,0.316975,0.435107,0.26559,0.378345,0.380153,0.160696,0.502341,0.507413,0.412407,0.42955,0.418893,0.300222,0.393729,0.487504,0.249956,0.022473,0.482721,0.0735224,0.406625,0.296254,0.400859,0.473667,0.327684,0.279523,0.499937,0.444635,0.356463,0.364875,0.211724,0.409573,0.579867,0.536787,0.436872,0.181464,0.40945,0.231548,0.120636,0.121001,0.317719,0.172653,0.0924531,0.120918,0.593272,0.507382,0.425328,0.384398,0.462521,0.387627,0.179489,0.214126,0.143317,0.261663,0.14273,0.227254,0.147968,0.168955,0.274981,0.236422,0.0999117,0.149301,0.196723,0.0836477,0.287028,0.413461,0.558766,0.545381,0.0793004,0.299959,0.509613,0.498355,0.406059,0.452427,0.56256,0.494497,0.366448,0.540845,0.511559,0.280842,0.335456,0.416632,0.404559,0.545676,0.467154,0.600528,0.249647,0.43669,0.446356,0.248584,0.397145,0.390152,0.537963,0.540199,0.488863,0.342785,0.447064,0.20487,0.603936,0.449548,0.41929,0.209566,0.189123,0.588995,0.355645,0.332105,0.522124,0.158122,0.521096,0.220023,0.444217,0.363335,0.329186,0.432735,0.493369,0.416144,0.648861
}}
}}

Revision as of 10:53, 19 October 2012


Full id: C1136_Gingival_Mallassezderived_Keratinocyte_Sebocyte_Prostate_keratoacanthoma_Urothelial



Phase1 CAGE Peaks

Hg19::chr11:13073062..13073067,+p@chr11:13073062..13073067
+
Hg19::chr20:11137813..11137835,+p@chr20:11137813..11137835
+
Hg19::chr4:143470541..143470551,+p@chr4:143470541..143470551
+
Hg19::chr7:40883504..40883519,+p@chr7:40883504..40883519
+
Hg19::chr7:40883521..40883532,+p@chr7:40883521..40883532
+
Hg19::chr7:40883542..40883550,+p@chr7:40883542..40883550
+
Hg19::chr7:40883552..40883571,+p@chr7:40883552..40883571
+


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>

Cell Type
Ontology termp-valuen
general ecto-epithelial cell8.28e-4414
epithelial cell of alimentary canal3.01e-2420
endo-epithelial cell1.06e-2242
gingival epithelial cell9.78e-213
acinar cell1.83e-205
epithelial cell of Malassez2.00e-203
epithelial cell1.36e-18253
endodermal cell1.97e-1858
epidermal cell1.43e-179
stratified squamous epithelial cell4.32e-176
keratin accumulating cell4.32e-176
stratified epithelial cell4.32e-176
keratinizing barrier epithelial cell4.32e-176
protein secreting cell4.32e-176
epithelial fate stem cell4.32e-176
stratified epithelial stem cell4.32e-176
surface ectodermal cell4.32e-176
ecto-epithelial cell5.07e-1734
mammary gland epithelial cell1.89e-144
sebum secreting cell5.88e-142
epithelial cell of sweat gland5.88e-142
epithelial cell of skin gland5.88e-142
acinar cell of sebaceous gland5.88e-142
corneal epithelial cell2.39e-132
keratinocyte5.84e-125
squamous epithelial cell6.77e-1263
glandular epithelial cell1.89e-119
embryonic cell1.04e-09250
acinar cell of salivary gland3.39e-093
ectodermal cell2.12e-0872
buccal mucosa cell1.07e-071
endothelial cell of viscerocranial mucosa1.07e-071
keratinized cell of the oral mucosa1.07e-071
epithelial cell of esophagus1.30e-071
transitional epithelial cell2.89e-074
urothelial cell2.89e-074
Uber Anatomy
Ontology termp-valuen
surface structure1.24e-2199
gingival epithelium9.78e-213
mouth mucosa2.49e-1713
head1.20e-1656
jaw skeleton1.85e-154
splanchnocranium1.85e-154
anterior region of body8.64e-1562
craniocervical region8.64e-1562
mammary gland1.89e-144
mammary bud1.89e-144
mammary ridge1.89e-144
mammary placode1.89e-144
skin gland5.88e-142
epidermis gland5.88e-142
gland of integumental system5.88e-142
sebaceous gland5.88e-142
skin sebaceous gland5.88e-142
sweat gland5.88e-142
sweat gland placode5.88e-142
sebaceous gland placode5.88e-142
oral opening2.35e-1322
mouth6.86e-1329
stomodeum6.86e-1329
primary subdivision of cranial skeletal system1.80e-125
subdivision of head3.81e-1149
mucosa4.48e-1120
protuberance1.80e-106
pharyngeal arch1.80e-106
embryonic head1.80e-106
skin epidermis1.83e-1015
outer epithelium1.83e-1015
enveloping layer of ectoderm1.83e-1015
orifice3.52e-1036
exocrine gland4.87e-0931
ectodermal placode4.87e-0931
exocrine system4.87e-0931
respiratory system3.34e-0874
epithelium of mucosa4.48e-088
gingiva4.48e-088
ectoderm-derived structure5.03e-08171
ectoderm5.03e-08171
presumptive ectoderm5.03e-08171
ecto-epithelium1.15e-07104
external ectoderm1.80e-078
cornea4.20e-074
eye surface4.20e-074
optic eminence4.20e-074
corneal primordium4.20e-074
mucosa of oral region4.91e-074
respiratory system mucosa4.91e-074
endoderm-derived structure9.97e-07160
endoderm9.97e-07160
presumptive endoderm9.97e-07160
Disease
Ontology termp-valuen
skin squamous cell carcinoma7.76e-081
keratoacanthoma7.76e-081
squamous cell carcinoma4.47e-0714


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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