Coexpression cluster:C514

Full id: C514_Lymphatic_Endothelial_mycosis_appendix_heart_CD14_migratory

Phase1 CAGE Peaks

Hg19::chr12:47053880..47053887,+	p@chr12:47053880..47053887 +
Hg19::chr15:89736241..89736275,+	p@chr15:89736241..89736275 +
Hg19::chr17:28534879..28534889,-	p@chr17:28534879..28534889 -
Hg19::chr17:28534912..28534942,-	p@chr17:28534912..28534942 -
Hg19::chr17:38179836..38179841,-	p3@MED24
Hg19::chr17:45933057..45933064,-	p3@SP6
Hg19::chr17:75873825..75873826,+	p@chr17:75873825..75873826 +
Hg19::chr19:48613987..48613999,-	p5@PLA2G4C
Hg19::chr1:169703213..169703227,-	p1@SELE
Hg19::chr1:43917566..43917577,-	p6@HYI
Hg19::chr4:114238344..114238353,+	p58@ANK2
Hg19::chr4:38057520..38057536,-	p@chr4:38057520..38057536 -
Hg19::chr4:38057595..38057624,-	p@chr4:38057595..38057624 -
Hg19::chr4:38057720..38057727,-	p@chr4:38057720..38057727 -
Hg19::chr6:29527501..29527515,-	p1@UBD
Hg19::chr8:80680913..80680917,-	p@chr8:80680913..80680917 -
Hg19::chr8:90769563..90769576,-	p1@ENST00000523859
Hg19::chr8:90769801..90769825,+	p4@RIPK2

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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GO ID	GO name	FDR corrected p-value
GO:0006954	inflammatory response	0.00647906594947299
GO:0009611	response to wounding	0.00983701397986704
GO:0008903	hydroxypyruvate isomerase activity	0.0127385733489111
GO:0006952	defense response	0.0127385733489111
GO:0009605	response to external stimulus	0.0129117202217266
GO:0046475	glycerophospholipid catabolic process	0.0150696823597155
GO:0047499	calcium-independent phospholipase A2 activity	0.0193733097010132
GO:0019369	arachidonic acid metabolic process	0.022599866037022
GO:0050700	CARD domain binding	0.0271142515575275
GO:0030274	LIM domain binding	0.0271142515575275
GO:0007567	parturition	0.0328589881048493
GO:0006950	response to stress	0.0363166120593536
GO:0009395	phospholipid catabolic process	0.045157841689947
GO:0042809	vitamin D receptor binding	0.048153480631656
GO:0016455	RNA polymerase II transcription mediator activity	0.048153480631656

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 of vascular tree	2.42e-53	24
lymphangioblast	1.64e-41	6
endothelial cell of lymphatic vessel	1.64e-41	6
vascular lymphangioblast	1.64e-41	6
endothelial cell	6.18e-40	36
meso-epithelial cell	2.35e-31	45
lining cell	1.17e-23	58
barrier cell	1.17e-23	58
blood vessel endothelial cell	4.49e-23	18
embryonic blood vessel endothelial progenitor cell	4.49e-23	18
capillary endothelial cell	1.05e-21	3
mesodermal cell	8.69e-10	121
endothelial cell of umbilical vein	9.81e-10	3
endothelial cell of artery	2.53e-07	9

Uber Anatomy

Ontology term	p-value	n
lymphoid system	4.09e-33	10
lymphatic vessel	4.97e-31	8
lymph vasculature	4.97e-31	8
lymphatic part of lymphoid system	4.97e-31	8
blood vessel endothelium	4.49e-23	18
endothelium	4.49e-23	18
cardiovascular system endothelium	4.49e-23	18
microcirculatory vessel	1.05e-21	3
endothelium of capillary	1.05e-21	3
capillary	1.05e-21	3
vessel	1.22e-19	68
simple squamous epithelium	1.12e-18	22
vasculature	9.72e-17	78
vascular system	9.72e-17	78
squamous epithelium	2.67e-16	25
cardiovascular system	8.43e-13	109
circulatory system	2.26e-12	112
anatomical conduit	2.72e-08	240
epididymis	4.40e-08	1
epithelial tube open at both ends	7.49e-08	59
blood vessel	7.49e-08	59
blood vasculature	7.49e-08	59
vascular cord	7.49e-08	59
tonsil	7.59e-08	1
mucosa-associated lymphoid tissue	7.59e-08	1
lymphoid tissue	7.59e-08	1
tonsillar ring	7.59e-08	1
splanchnic layer of lateral plate mesoderm	8.08e-08	83
endothelial tube	2.53e-07	9
arterial system endothelium	2.53e-07	9
endothelium of artery	2.53e-07	9
anatomical cluster	2.54e-07	373
vein	4.62e-07	9
venous blood vessel	4.62e-07	9
venous system	4.62e-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.