Coexpression cluster:C4606

Full id: C4606_mature_choriocarcinoma_Endothelial_pancreatic_CD14_aorta_endometrial

Phase1 CAGE Peaks

Hg19::chr6:44187265..44187308,+	p3@SLC29A1
Hg19::chr6:44187309..44187329,+	p4@SLC29A1
Hg19::chr6:44187334..44187387,+	p2@SLC29A1

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

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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

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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>

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Cell Type

Ontology term	p-value	n
endothelial cell	1.92e-15	35
meso-epithelial cell	3.13e-14	44
endothelial cell of vascular tree	4.27e-13	24
blood vessel endothelial cell	9.54e-11	18
embryonic blood vessel endothelial progenitor cell	9.54e-11	18
granulocyte monocyte progenitor cell	3.46e-08	71
lining cell	5.24e-08	57
barrier cell	5.24e-08	57
kidney cell	8.21e-08	18
kidney epithelial cell	8.21e-08	18
myeloid lineage restricted progenitor cell	5.98e-07	70
macrophage dendritic cell progenitor	6.36e-07	65
epithelial cell of nephron	7.54e-07	16
endothelial cell of artery	8.60e-07	9

Uber Anatomy

Ontology term	p-value	n
mesoderm	1.24e-13	448
mesoderm-derived structure	1.24e-13	448
presumptive mesoderm	1.24e-13	448
epithelial tube	1.02e-12	118
lateral plate mesoderm	5.50e-12	216
endothelium	9.54e-11	18
blood vessel endothelium	9.54e-11	18
cardiovascular system endothelium	9.54e-11	18
multi-cellular organism	1.23e-10	659
immune system	5.00e-10	115
embryo	6.15e-10	612
simple squamous epithelium	1.58e-09	22
anatomical group	1.88e-09	626
anatomical system	3.39e-09	625
abdominal segment of trunk	5.09e-09	61
abdomen	5.09e-09	61
embryonic structure	5.93e-09	605
developing anatomical structure	5.93e-09	605
germ layer	6.84e-09	604
embryonic tissue	6.84e-09	604
presumptive structure	6.84e-09	604
epiblast (generic)	6.84e-09	604
abdomen element	1.38e-08	55
abdominal segment element	1.38e-08	55
vessel	2.28e-08	69
tube	2.90e-08	194
squamous epithelium	3.79e-08	25
anatomical conduit	4.38e-08	241
anatomical cavity	6.22e-08	70
immaterial anatomical entity	1.04e-07	126
subdivision of trunk	1.10e-07	113
body cavity precursor	1.54e-07	63
intraembryonic coelom	2.43e-07	21
anatomical cluster	2.76e-07	286
trunk region element	4.72e-07	107
excretory tube	5.90e-07	17
mesonephric epithelium	5.90e-07	17
mesonephric tubule	5.90e-07	17
nephric duct	5.90e-07	17
kidney epithelium	5.90e-07	17
renal duct	5.90e-07	17
mesonephric duct	5.90e-07	17
pronephric duct	5.90e-07	17
vasculature	6.98e-07	79
vascular system	6.98e-07	79
mesonephros	7.10e-07	18
pronephros	7.10e-07	18
nephrogenic cord	7.10e-07	18
pronephric mesoderm	7.10e-07	18
rostral part of nephrogenic cord	7.10e-07	18
presumptive pronephric mesoderm	7.10e-07	18
nephron epithelium	7.54e-07	16
nephron	7.54e-07	16
uriniferous tubule	7.54e-07	16
metanephric mesenchyme	7.54e-07	16
nephrogenic mesenchyme	7.54e-07	16
blood vessel	8.50e-07	60
epithelial tube open at both ends	8.50e-07	60
blood vasculature	8.50e-07	60
vascular cord	8.50e-07	60
bone marrow	8.57e-07	80
endothelial tube	8.60e-07	9
arterial system endothelium	8.60e-07	9
endothelium of artery	8.60e-07	9

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

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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

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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

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This analysis result is provided for C0 - C305 clusters.