Coexpression cluster:C1358

Full id: C1358_Endothelial_gall_thyroid_throat_colon_Lymphatic_chorionic

Phase1 CAGE Peaks

Hg19::chr12:27732320..27732331,+	p@chr12:27732320..27732331 +
Hg19::chr13:102379103..102379108,-	p@chr13:102379103..102379108 -
Hg19::chr17:54893310..54893315,-	p15@C17orf67
Hg19::chr21:43735628..43735639,-	p2@TFF3
Hg19::chr5:88119580..88119602,-	p17@MEF2C
Hg19::chr6:112418355..112418366,+	p@chr6:112418355..112418366 +

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:0001958	endochondral ossification	0.0146574049732053
GO:0001974	blood vessel remodeling	0.0146574049732053
GO:0002062	chondrocyte differentiation	0.0146574049732053
GO:0001649	osteoblast differentiation	0.0301166920655731
GO:0051216	cartilage development	0.0301166920655731
GO:0030141	secretory granule	0.0301166920655731
GO:0031214	biomineral formation	0.0425851167937675
GO:0001503	ossification	0.0425851167937675
GO:0007507	heart development	0.0425851167937675
GO:0007586	digestion	0.0425851167937675
GO:0046849	bone remodeling	0.0425851167937675
GO:0048771	tissue remodeling	0.0426903518488907
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0493142082827577
GO:0048514	blood vessel morphogenesis	0.0493142082827577
GO:0001568	blood vessel development	0.0493142082827577
GO:0001944	vasculature development	0.0493142082827577
GO:0007517	muscle development	0.0493142082827577

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
lymphangioblast	5.53e-07	6
endothelial cell of lymphatic vessel	5.53e-07	6
vascular lymphangioblast	5.53e-07	6

Uber Anatomy

Ontology term	p-value	n
adult organism	1.53e-34	115
neocortex	5.60e-09	20
regional part of cerebral cortex	9.49e-09	22
cerebral hemisphere	1.39e-08	32
anterior neural tube	1.84e-08	42
telencephalon	1.86e-08	34
regional part of telencephalon	4.92e-08	33
regional part of forebrain	4.95e-08	41
forebrain	4.95e-08	41
future forebrain	4.95e-08	41
neural tube	9.38e-08	57
neural rod	9.38e-08	57
future spinal cord	9.38e-08	57
neural keel	9.38e-08	57
regional part of brain	1.27e-07	59
anatomical cluster	1.39e-07	286
gray matter	1.64e-07	34
brain grey matter	1.64e-07	34
anatomical conduit	2.31e-07	241
cerebral cortex	4.38e-07	25
pallium	4.38e-07	25

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)
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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

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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.