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Coexpression cluster:C1433: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004119!3.01e-17!160;UBERON:0000925!3.01e-17!160;UBERON:0006595!3.01e-17!160;UBERON:0000477!2.86e-16!373;UBERON:0006554!2.75e-14!47;UBERON:0001008!2.04e-13!48;UBERON:0004921!5.03e-13!118;UBERON:0001007!5.39e-13!145;UBERON:0001555!5.39e-13!145;UBERON:0007026!5.39e-13!145;UBERON:0000468!1.81e-10!656;UBERON:0001004!1.82e-10!74;UBERON:0004111!1.87e-09!240;UBERON:0001041!1.93e-09!87;UBERON:0000922!2.19e-09!592;UBERON:0005423!3.02e-09!581;UBERON:0000064!5.02e-09!218;UBERON:0000467!7.95e-09!624;UBERON:0000481!8.38e-09!342;UBERON:0000065!9.76e-09!54;UBERON:0000480!1.33e-08!625;UBERON:0006555!1.61e-08!16;UBERON:0004819!1.61e-08!16;UBERON:0004211!2.39e-08!15;UBERON:0009773!2.39e-08!15;UBERON:0001231!2.39e-08!15;UBERON:0001285!2.39e-08!15;UBERON:0007684!2.39e-08!15;UBERON:0004208!2.39e-08!15;UBERON:0000062!5.00e-08!503;UBERON:0008947!5.48e-08!38;UBERON:0003258!5.48e-08!38;UBERON:0005911!1.52e-07!82;UBERON:0002113!1.70e-07!26;UBERON:0003918!1.70e-07!26;UBERON:0011143!1.70e-07!26;UBERON:0005095!1.70e-07!26;UBERON:0007687!1.70e-07!26;UBERON:0003103!1.92e-07!68;UBERON:0000353!2.13e-07!15;UBERON:0001048!2.39e-07!160;UBERON:0001737!2.85e-07!9;UBERON:0003914!2.92e-07!117;UBERON:0005177!3.84e-07!101;UBERON:0000119!3.94e-07!309;UBERON:0001225!4.04e-07!12;UBERON:0008987!4.04e-07!12;UBERON:0000161!4.18e-07!36;UBERON:0009569!4.35e-07!112;UBERON:0000489!5.99e-07!31;UBERON:0000072!7.00e-07!47;UBERON:0002050!7.76e-07!564;UBERON:0000483!7.95e-07!306
|ontology_enrichment_uberon=UBERON:0004119!3.01e-17!160;UBERON:0000925!3.01e-17!160;UBERON:0006595!3.01e-17!160;UBERON:0000477!2.86e-16!373;UBERON:0006554!2.75e-14!47;UBERON:0001008!2.04e-13!48;UBERON:0004921!5.03e-13!118;UBERON:0001007!5.39e-13!145;UBERON:0001555!5.39e-13!145;UBERON:0007026!5.39e-13!145;UBERON:0000468!1.81e-10!656;UBERON:0001004!1.82e-10!74;UBERON:0004111!1.87e-09!240;UBERON:0001041!1.93e-09!87;UBERON:0000922!2.19e-09!592;UBERON:0005423!3.02e-09!581;UBERON:0000064!5.02e-09!218;UBERON:0000467!7.95e-09!624;UBERON:0000481!8.38e-09!342;UBERON:0000065!9.76e-09!54;UBERON:0000480!1.33e-08!625;UBERON:0006555!1.61e-08!16;UBERON:0004819!1.61e-08!16;UBERON:0004211!2.39e-08!15;UBERON:0009773!2.39e-08!15;UBERON:0001231!2.39e-08!15;UBERON:0001285!2.39e-08!15;UBERON:0007684!2.39e-08!15;UBERON:0004208!2.39e-08!15;UBERON:0000062!5.00e-08!503;UBERON:0008947!5.48e-08!38;UBERON:0003258!5.48e-08!38;UBERON:0005911!1.52e-07!82;UBERON:0002113!1.70e-07!26;UBERON:0003918!1.70e-07!26;UBERON:0011143!1.70e-07!26;UBERON:0005095!1.70e-07!26;UBERON:0007687!1.70e-07!26;UBERON:0003103!1.92e-07!68;UBERON:0000353!2.13e-07!15;UBERON:0001048!2.39e-07!160;UBERON:0001737!2.85e-07!9;UBERON:0003914!2.92e-07!117;UBERON:0005177!3.84e-07!101;UBERON:0000119!3.94e-07!309;UBERON:0001225!4.04e-07!12;UBERON:0008987!4.04e-07!12;UBERON:0000161!4.18e-07!36;UBERON:0009569!4.35e-07!112;UBERON:0000489!5.99e-07!31;UBERON:0000072!7.00e-07!47;UBERON:0002050!7.76e-07!564;UBERON:0000483!7.95e-07!306
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|tfbs_overrepresentation_for_novel_motifs=0.44418,1.35536,0.436508,0.58616,0.393082,0.584466,0.662701,0.742622,0.267027,0.075749,0.553339,0.707204,0.635275,0.650887,0.391663,1.06849,0.889639,0.336106,1.92111,0.800617,0.436569,0.6169,0.576478,0.387783,0.483957,0.730467,1.10781,1.40695,0.396295,1.04549,0.530785,0.92701,0.816912,1.19786,0.35719,0.134746,0.35388,0.585658,0.329602,0.69481,0.355745,0.513952,1.10319,1.01199,0.636689,0.468392,0.66382,0.542147,0.630853,0.396429,0.745008,0.675919,0.891214,1.00488,1.15929,0.653901,0.400834,0.62023,0.547548,0.619193,0.968558,0.666252,0.737866,0.861462,0.684675,0.826413,1.24834,1.61834,0.916468,1.45553,0.500342,0.275507,0.146905,1.15727,0.624519,0.206105,0.562953,0.84426,0.913168,0.477584,0.676305,0.86037,0.684313,0.272514,1.10535,0.0481066,0.398737,0.536262,0.771626,1.71797,1.34233,1.07807,0.94406,0.83374,0.393853,0.32338,0.234532,0.987239,0.776336,0.166235,0.881389,0.938327,0.981588,0.893363,0.814675,0.548668,0.877269,0.647343,0.483695,0.376529,0.44815,0.978783,0.430775,0.563054,1.29401,0.352243,0.210279,1.31236,0.824029,0.312699,1.14892,0.769145,1.42251,0.695878,1.40534,0.845034,0.656181,0.949126,1.1919,0.324369,1.07876,1.32127,1.20639,0.692462,1.35529,0.520084,0.524606,0.57483,1.31259,2.17352,1.7705,1.27501,0.657956,0.983666,0.816466,0.611524,0.799467,2.01411,0.510514,0.306342,0.424432,0.0926553,1.07915,0.717973,0.665754,1.48627,0.755083,0.378604,0.484017,0.454152,1.27379,1.06043,0.912368,0.457485,1.94435,0.683502,0.29379,0.661335,0.307168
}}
}}

Revision as of 14:53, 26 November 2012


Full id: C1433_Alveolar_Sebocyte_Keratinocyte_Corneal_Renal_Urothelial_Prostate



Phase1 CAGE Peaks

Hg19::chr17:39911483..39911514,-p@chr17:39911483..39911514
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Hg19::chr17:39911596..39911611,-p@chr17:39911596..39911611
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Hg19::chr17:39913783..39913800,-p@chr17:39913783..39913800
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Hg19::chr17:39913926..39913939,-p@chr17:39913926..39913939
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Hg19::chr17:39919430..39919468,+p@chr17:39919430..39919468
+
Hg19::chr17:39921008..39921076,-p@chr17:39921008..39921076
-


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
endoderm-derived structure3.01e-17160
endoderm3.01e-17160
presumptive endoderm3.01e-17160
anatomical cluster2.86e-16373
urinary system structure2.75e-1447
renal system2.04e-1348
subdivision of digestive tract5.03e-13118
digestive system5.39e-13145
digestive tract5.39e-13145
primitive gut5.39e-13145
multi-cellular organism1.81e-10656
respiratory system1.82e-1074
anatomical conduit1.87e-09240
foregut1.93e-0987
embryo2.19e-09592
developing anatomical structure3.02e-09581
organ part5.02e-09218
anatomical system7.95e-09624
multi-tissue structure8.38e-09342
respiratory tract9.76e-0954
anatomical group1.33e-08625
excretory tube1.61e-0816
kidney epithelium1.61e-0816
nephron epithelium2.39e-0815
renal tubule2.39e-0815
nephron tubule2.39e-0815
nephron2.39e-0815
uriniferous tubule2.39e-0815
nephrogenic mesenchyme2.39e-0815
organ5.00e-08503
respiratory primordium5.48e-0838
endoderm of foregut5.48e-0838
endo-epithelium1.52e-0782
kidney1.70e-0726
kidney mesenchyme1.70e-0726
upper urinary tract1.70e-0726
kidney rudiment1.70e-0726
kidney field1.70e-0726
compound organ1.92e-0768
parenchyma2.13e-0715
primordium2.39e-07160
larynx2.85e-079
epithelial tube2.92e-07117
trunk region element3.84e-07101
cell layer3.94e-07309
cortex of kidney4.04e-0712
renal parenchyma4.04e-0712
orifice4.18e-0736
subdivision of trunk4.35e-07112
cavitated compound organ5.99e-0731
segment of respiratory tract7.00e-0747
embryonic structure7.76e-07564
epithelium7.95e-07306
Disease
Ontology termp-valuen
carcinoma1.23e-13106
cell type cancer2.24e-08143


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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