Coexpression cluster:C478

Full id: C478_blood_Whole_Reticulocytes_liver_skeletal_lung_Neutrophils

Phase1 CAGE Peaks

Hg19::chr11:5247855..5247868,+	p1@DQ655984
Hg19::chr11:5247857..5247902,-	p2@HBB
Hg19::chr11:5247918..5247954,-	p5@HBB
Hg19::chr12:10875643..10875687,+	p@chr12:10875643..10875687 +
Hg19::chr12:25204833..25204837,+	p26@LRMP
Hg19::chr15:77973117..77973119,+	p@chr15:77973117..77973119 +
Hg19::chr16:223575..223610,+	p@chr16:223575..223610 +
Hg19::chr16:223611..223622,+	p@chr16:223611..223622 +
Hg19::chr17:47302378..47302387,-	p@chr17:47302378..47302387 -
Hg19::chr19:7755354..7755360,-	p@chr19:7755354..7755360 -
Hg19::chr1:172425609..172425633,-	p@chr1:172425609..172425633 -
Hg19::chr1:28906381..28906392,-	p3@SNORA61
Hg19::chr21:35902242..35902243,+	p@chr21:35902242..35902243 +
Hg19::chr5:86705141..86705152,-	p@chr5:86705141..86705152 -
Hg19::chr7:141998622..141998625,+	p7@TRBV1
Hg19::chr7:150233619..150233622,+	p@chr7:150233619..150233622 +
Hg19::chr8:21924232..21924243,+	p27@EPB49
Hg19::chr9:21031599..21031600,-	p3@PTPLAD2
Hg19::chr9:77567516..77567525,-	p10@C9orf40
Hg19::chrX:133894375..133894379,-	p1@ENST00000363050

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:0006906	vesicle fusion	0.0169630723455826
GO:0007516	hemocyte development	0.0169630723455826
GO:0042386	hemocyte differentiation	0.0169630723455826
GO:0006903	vesicle targeting	0.0169630723455826
GO:0051650	establishment of vesicle localization	0.0169630723455826
GO:0051648	vesicle localization	0.0169630723455826
GO:0007010	cytoskeleton organization and biogenesis	0.0169630723455826
GO:0051017	actin filament bundle formation	0.0169630723455826
GO:0051693	actin filament capping	0.0169630723455826
GO:0051016	barbed-end actin filament capping	0.0169630723455826
GO:0030835	negative regulation of actin filament depolymerization	0.0169630723455826
GO:0030834	regulation of actin filament depolymerization	0.0169630723455826
GO:0030042	actin filament depolymerization	0.0169630723455826
GO:0051656	establishment of organelle localization	0.0169630723455826
GO:0005344	oxygen transporter activity	0.0179282200907595
GO:0005833	hemoglobin complex	0.0179282200907595
GO:0015671	oxygen transport	0.0179282200907595
GO:0015669	gas transport	0.0179282200907595
GO:0051640	organelle localization	0.0179282200907595
GO:0006944	membrane fusion	0.0186518664011759
GO:0007015	actin filament organization	0.0186518664011759
GO:0008064	regulation of actin polymerization and/or depolymerization	0.0186518664011759
GO:0051261	protein depolymerization	0.0186518664011759
GO:0030832	regulation of actin filament length	0.0186518664011759
GO:0032535	regulation of cellular component size	0.0186518664011759
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.0186518664011759
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0195985291444856
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.0195985291444856
GO:0033043	regulation of organelle organization and biogenesis	0.0195985291444856
GO:0019825	oxygen binding	0.0195985291444856
GO:0008154	actin polymerization and/or depolymerization	0.0202948970506126
GO:0006996	organelle organization and biogenesis	0.0214567854777106
GO:0051128	regulation of cellular component organization and biogenesis	0.0312180513871598
GO:0051248	negative regulation of protein metabolic process	0.0315081544032493
GO:0005737	cytoplasm	0.0357002929817791
GO:0030097	hemopoiesis	0.0459898790239126
GO:0048534	hemopoietic or lymphoid organ development	0.0480650732299859
GO:0002520	immune system development	0.0492218306408048

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
erythroid lineage cell	4.95e-25	2
erythroblast	4.95e-25	2
megakaryocyte-erythroid progenitor cell	4.95e-25	2
erythroid progenitor cell	4.95e-25	2
reticulocyte	4.95e-25	2
proerythroblast	4.95e-25	2
basophilic erythroblast	4.95e-25	2
polychromatophilic erythroblast	4.95e-25	2
orthochromatic erythroblast	4.95e-25	2

Uber Anatomy

Ontology term	p-value	n
blood	1.48e-49	15
haemolymphatic fluid	1.48e-49	15
organism substance	1.48e-49	15
adult organism	2.02e-18	114
lower lobe of right lung	6.82e-13	1
right lung lobe	6.82e-13	1
lower lobe of lung	6.82e-13	1
lobe of lung	6.82e-13	1
right lung	6.82e-13	1
dura mater	9.73e-13	1
future meninx	9.73e-13	1
ectomeninx	9.73e-13	1
future dura mater	9.73e-13	1
hematopoietic system	1.24e-10	98
blood island	1.24e-10	98
hemolymphoid system	1.54e-09	108
hemopoietic organ	1.68e-07	7
immune organ	1.68e-07	7
meninx	5.28e-07	2
membrane organ	5.28e-07	2
meningeal cluster	5.28e-07	2

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.