Coexpression cluster:C1781

Full id: C1781_anaplastic_Hair_Pericytes_mesothelioma_Fibroblast_lens_transitionalcell

Phase1 CAGE Peaks

Hg19::chr17:42634734..42634754,+	p3@FZD2
Hg19::chr17:42634810..42634825,+	p4@FZD2
Hg19::chr17:42634844..42634858,+	p1@FZD2
Hg19::chr17:42635049..42635107,+	p5@FZD2
Hg19::chr17:42635121..42635149,+	p1@AB590852

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:0007164	establishment of tissue polarity	0.0065936653714824
GO:0004926	non-G-protein coupled 7TM receptor activity	0.00706464146944543
GO:0030855	epithelial cell differentiation	0.0113034263511127
GO:0002009	morphogenesis of an epithelium	0.0148357470858354
GO:0016055	Wnt receptor signaling pathway	0.0273166136818556

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
non-terminally differentiated cell	1.03e-28	180
fibroblast	1.10e-15	75
neurectodermal cell	1.46e-08	59
contractile cell	5.63e-08	59
electrically responsive cell	7.84e-08	60
electrically active cell	7.84e-08	60
skin fibroblast	1.49e-07	23
animal cell	2.20e-07	679
eukaryotic cell	2.20e-07	679
muscle precursor cell	2.86e-07	57
myoblast	2.86e-07	57
multi-potent skeletal muscle stem cell	2.86e-07	57
muscle cell	6.90e-07	54

Uber Anatomy

Ontology term	p-value	n
somite	1.32e-09	83
paraxial mesoderm	1.32e-09	83
presomitic mesoderm	1.32e-09	83
presumptive segmental plate	1.32e-09	83
trunk paraxial mesoderm	1.32e-09	83
presumptive paraxial mesoderm	1.32e-09	83
organism subdivision	2.61e-09	365
multi-cellular organism	8.94e-08	659
dermomyotome	1.03e-07	70
trunk mesenchyme	3.62e-07	143
pigment epithelium of eye	4.93e-07	11
trunk	5.91e-07	216
vasculature of head	8.18e-07	11
vasculature of organ	8.18e-07	11

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
CTBP2#1488	5	62.7170003393281	1.02712351233917e-09	9.518345386441e-08
EGR1#1958	5	4.98817909481014	0.000323739800059071	0.00330735214500336
ELF1#1997	4	3.40647836704603	0.0123506610529955	0.0447350589482484
FOS#2353	3	5.39877318533664	0.0115389531727874	0.0421915320664058
GATA2#2624	3	7.6469590401324	0.00427906187925213	0.020329388327672
GATA3#2625	3	16.3419098143236	0.000467886519508923	0.00430154931434792
IRF3#3661	3	28.1891713268937	9.33088977565955e-05	0.00135612134327875
MYC#4609	5	5.2222818716094	0.000257394484885061	0.00276507124119635
NFYA#4800	3	11.0553484198983	0.00147089290764443	0.0094123267190415
NFYB#4801	3	10.0558759521219	0.00193816560672546	0.0113879087370352
RFX5#5993	3	7.22874649631706	0.0050291827895866	0.0234661493705774
SP2#6668	3	15.6921182963068	0.000527223591330277	0.0045638379324445
SRF#6722	3	8.27830695730069	0.00340484607377615	0.0173615232447567
TAF1#6872	5	3.34304628574529	0.00239460009087031	0.0135337214616811
TFAP2C#7022	3	6.48553716591613	0.00685895151794	0.0290593500297001
USF1#7391	5	6.36149927720796	9.59569864925045e-05	0.00136814357846972
YY1#7528	4	3.92893659988308	0.00719386626991762	0.0298427152591327

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.