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|full_id=C4421_glassy_squamous_colon_nasal_salivary_Prostate_seminal
|full_id=C4421_glassy_squamous_colon_nasal_salivary_Prostate_seminal
|id=C4421
|id=C4421
|ontology_enrichment_celltype=CL:0002076!5.44e-17!43;CL:0002159!6.58e-15!13;CL:0002368!8.32e-14!13;CL:0000223!6.07e-12!59;CL:0000622!9.34e-11!5;CL:0000362!1.97e-09!8;CL:0000154!7.05e-09!6;CL:0000240!1.18e-08!6;CL:0000311!1.18e-08!6;CL:0000079!1.18e-08!6;CL:0000237!1.18e-08!6;CL:0000036!1.18e-08!6;CL:0000357!1.18e-08!6;CL:0000114!1.18e-08!6;CL:0002202!1.43e-07!9;CL:0002632!1.43e-07!9;CL:0000312!3.21e-07!5;CL:0002621!4.38e-07!3;CL:0002623!6.47e-07!3;CL:0002077!7.06e-07!33;CL:0002328!8.08e-07!3
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001004!1.57e-16!72;UBERON:0000161!1.86e-16!35;UBERON:0004119!3.16e-16!169;UBERON:0000925!3.16e-16!169;UBERON:0006595!3.16e-16!169;UBERON:0000166!1.15e-13!21;UBERON:0001007!5.32e-13!155;UBERON:0001555!5.32e-13!155;UBERON:0007026!5.32e-13!155;UBERON:0001044!1.01e-11!6;UBERON:0003293!1.01e-11!6;UBERON:0003294!1.01e-11!6;UBERON:0010047!1.01e-11!6;UBERON:0000167!1.01e-11!6;UBERON:0003408!3.37e-11!10;UBERON:0000165!5.83e-11!28;UBERON:0000930!5.83e-11!28;UBERON:0002530!1.01e-10!59;UBERON:0007023!1.03e-10!115;UBERON:0003102!1.79e-10!95;UBERON:0004921!2.90e-10!129;UBERON:0004185!2.90e-10!129;UBERON:0001008!3.37e-09!45;UBERON:0000464!6.27e-09!104;UBERON:0000065!1.23e-08!53;UBERON:0000077!1.36e-08!130;UBERON:0006554!2.63e-08!44;UBERON:0001444!6.29e-08!48;UBERON:0000062!7.25e-08!511;UBERON:0000922!7.36e-08!612;UBERON:0000078!9.64e-08!18;UBERON:0003064!1.14e-07!37;UBERON:0002050!1.22e-07!605;UBERON:0005423!1.22e-07!605;UBERON:0006947!1.77e-07!3;UBERON:0004054!1.77e-07!3;UBERON:0000466!2.15e-07!126;UBERON:0000923!3.96e-07!604;UBERON:0005291!3.96e-07!604;UBERON:0006598!3.96e-07!604;UBERON:0002532!3.96e-07!604;UBERON:0001949!4.38e-07!3;UBERON:0001041!7.93e-07!98;UBERON:0004815!8.08e-07!3;UBERON:0002031!8.08e-07!3;UBERON:0001003!8.14e-07!14;UBERON:0007376!8.14e-07!14;UBERON:0007383!8.14e-07!14;UBERON:0000475!9.46e-07!365
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Revision as of 14:48, 21 May 2012


Full id: C4421_glassy_squamous_colon_nasal_salivary_Prostate_seminal



Phase1 CAGE Peaks

Hg19::chr4:48988259..48988270,+p3@CWH43
Hg19::chr4:48988285..48988298,+p1@CWH43
Hg19::chr4:48988301..48988312,+p2@CWH43


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>


Uber Anatomy
Ontology termp-valuen
respiratory system1.57e-1672
orifice1.86e-1635
endoderm-derived structure3.16e-16169
endoderm3.16e-16169
presumptive endoderm3.16e-16169
oral opening1.15e-1321
digestive system5.32e-13155
digestive tract5.32e-13155
primitive gut5.32e-13155
saliva-secreting gland1.01e-116
gland of oral region1.01e-116
gland of foregut1.01e-116
oral gland1.01e-116
oral cavity1.01e-116
gland of gut3.37e-1110
mouth5.83e-1128
stomodeum5.83e-1128
gland1.01e-1059
adult organism1.03e-10115
surface structure1.79e-1095
subdivision of digestive tract2.90e-10129
endodermal part of digestive tract2.90e-10129
renal system3.37e-0945
anatomical space6.27e-09104
respiratory tract1.23e-0853
mixed endoderm/mesoderm-derived structure1.36e-08130
urinary system structure2.63e-0844
subdivision of head6.29e-0848
organ7.25e-08511
embryo7.36e-08612
mixed ectoderm/mesoderm/endoderm-derived structure9.64e-0818
intermediate mesoderm1.14e-0737
embryonic structure1.22e-07605
developing anatomical structure1.22e-07605
male genital duct1.77e-073
internal male genitalia1.77e-073
immaterial anatomical entity2.15e-07126
germ layer3.96e-07604
embryonic tissue3.96e-07604
presumptive structure3.96e-07604
epiblast (generic)3.96e-07604
gingival epithelium4.38e-073
foregut7.93e-0798
lower respiratory tract epithelium8.08e-073
epithelium of bronchus8.08e-073
skin epidermis8.14e-0714
outer epithelium8.14e-0714
enveloping layer of ectoderm8.14e-0714
organism subdivision9.46e-07365


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.