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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000483!1.23e-19!309;UBERON:0000119!3.60e-19!312;UBERON:0004111!2.29e-17!241;UBERON:0000025!2.40e-16!194;UBERON:0000468!1.35e-15!659;UBERON:0004872!5.13e-15!84;UBERON:0000477!1.18e-14!286;UBERON:0000475!1.41e-14!365;UBERON:0002049!3.33e-14!79;UBERON:0007798!3.33e-14!79;UBERON:0000467!3.48e-14!625;UBERON:0000481!3.80e-14!347;UBERON:0003914!4.64e-14!118;UBERON:0000480!7.96e-14!626;UBERON:0001981!8.93e-14!60;UBERON:0007500!8.93e-14!60;UBERON:0004537!8.93e-14!60;UBERON:0006965!8.93e-14!60;UBERON:0000055!1.47e-13!69;UBERON:0001637!3.19e-11!42;UBERON:0003509!3.19e-11!42;UBERON:0004572!3.19e-11!42;UBERON:0004535!8.14e-11!110;UBERON:0002050!8.40e-11!605;UBERON:0005423!8.40e-11!605;UBERON:0000923!1.26e-10!604;UBERON:0005291!1.26e-10!604;UBERON:0006598!1.26e-10!604;UBERON:0002532!1.26e-10!604;UBERON:0001009!1.69e-10!113;UBERON:0000922!4.46e-10!612;UBERON:0004573!6.43e-10!33;UBERON:0004571!6.43e-10!33;UBERON:0000064!1.23e-09!219;UBERON:0002100!1.66e-08!216;UBERON:0004121!6.91e-08!169;UBERON:0000924!2.43e-07!173;UBERON:0006601!2.43e-07!173;UBERON:0003104!6.80e-07!238;UBERON:0009142!6.80e-07!238
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}}
}}

Revision as of 18:32, 8 August 2012


Full id: C2706_amniotic_Small_Amniotic_Placental_mesothelioma_papillotubular_Smooth



Phase1 CAGE Peaks

Hg19::chr2:9346892..9346948,+p1@ASAP2
Hg19::chr2:9346949..9346975,+p2@ASAP2
Hg19::chr2:9346976..9346986,+p3@ASAP2
Hg19::chr2:9347003..9347010,+p4@ASAP2


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><br>

Cell Type
Ontology termp-valuen
embryonic cell1.32e-18248
epithelial cell9.87e-16254
mesodermal cell1.17e-12119
squamous epithelial cell5.32e-1062
non-terminally differentiated cell2.04e-09180
lining cell3.56e-0857
barrier cell3.56e-0857
Uber Anatomy
Ontology termp-valuen
epithelium1.23e-19309
cell layer3.60e-19312
anatomical conduit2.29e-17241
tube2.40e-16194
multi-cellular organism1.35e-15659
splanchnic layer of lateral plate mesoderm5.13e-1584
anatomical cluster1.18e-14286
organism subdivision1.41e-14365
vasculature3.33e-1479
vascular system3.33e-1479
anatomical system3.48e-14625
multi-tissue structure3.80e-14347
epithelial tube4.64e-14118
anatomical group7.96e-14626
blood vessel8.93e-1460
epithelial tube open at both ends8.93e-1460
blood vasculature8.93e-1460
vascular cord8.93e-1460
vessel1.47e-1369
artery3.19e-1142
arterial blood vessel3.19e-1142
arterial system3.19e-1142
cardiovascular system8.14e-11110
embryonic structure8.40e-11605
developing anatomical structure8.40e-11605
germ layer1.26e-10604
embryonic tissue1.26e-10604
presumptive structure1.26e-10604
epiblast (generic)1.26e-10604
circulatory system1.69e-10113
embryo4.46e-10612
systemic artery6.43e-1033
systemic arterial system6.43e-1033
organ part1.23e-09219
trunk1.66e-08216
ectoderm-derived structure6.91e-08169
ectoderm2.43e-07173
presumptive ectoderm2.43e-07173
mesenchyme6.80e-07238
entire embryonic mesenchyme6.80e-07238


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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