Coexpression cluster:C565

Full id: C565_CD34_CD133_acute_thymus_Hodgkin_Burkitt_testis

Phase1 CAGE Peaks

Hg19::chr12:58329819..58329867,-	p1@ENST00000547492 p1@ENST00000551421 p1@ENST00000553102 p1@uc001sqo.2
Hg19::chr15:50367664..50367673,-	p@chr15:50367664..50367673 -
Hg19::chr15:51295063..51295067,-	p@chr15:51295063..51295067 -
Hg19::chr17:38545799..38545823,-	p4@TOP2A
Hg19::chr18:36894194..36894210,+	p@chr18:36894194..36894210 +
Hg19::chr19:3479160..3479176,-	p7@C19orf77
Hg19::chr21:16816472..16816488,-	p@chr21:16816472..16816488 -
Hg19::chr22:43660399..43660404,+	p@chr22:43660399..43660404 +
Hg19::chr2:16659873..16659891,-	p@chr2:16659873..16659891 -
Hg19::chr2:207565092..207565103,-	p@chr2:207565092..207565103 -
Hg19::chr3:87841949..87841976,+	p@chr3:87841949..87841976 +
Hg19::chr4:75196177..75196198,-	p1@ENST00000513776 p1@uc003hhv.1
Hg19::chr5:146864161..146864177,+	p@chr5:146864161..146864177 +
Hg19::chr6:130834916..130834919,-	p@chr6:130834916..130834919 -
Hg19::chr6:46847996..46847997,-	p12@GPR116
Hg19::chr8:82607407..82607417,-	p2@SLC10A5

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:0045870	positive regulation of retroviral genome replication	0.00479806899799835
GO:0019035	viral integration complex	0.00479806899799835
GO:0009330	DNA topoisomerase complex (ATP-hydrolyzing)	0.00479806899799835
GO:0030263	apoptotic chromosome condensation	0.010278852721011
GO:0045091	regulation of retroviral genome replication	0.010278852721011
GO:0045070	positive regulation of viral genome replication	0.010278852721011
GO:0045090	retroviral genome replication	0.010278852721011
GO:0048524	positive regulation of viral reproduction	0.010278852721011
GO:0005814	centriole	0.010278852721011
GO:0008508	bile acid:sodium symporter activity	0.010278852721011
GO:0006266	DNA ligation	0.010278852721011
GO:0015125	bile acid transmembrane transporter activity	0.010278852721011
GO:0003918	DNA topoisomerase (ATP-hydrolyzing) activity	0.010278852721011
GO:0005080	protein kinase C binding	0.010278852721011
GO:0042826	histone deacetylase binding	0.0115116372212286
GO:0045069	regulation of viral genome replication	0.0116469659001242
GO:0043130	ubiquitin binding	0.0116469659001242
GO:0032182	small conjugating protein binding	0.0116469659001242
GO:0050792	regulation of viral reproduction	0.0116469659001242
GO:0006265	DNA topological change	0.0116469659001242
GO:0003916	DNA topoisomerase activity	0.0116469659001242
GO:0008144	drug binding	0.0126590733377437
GO:0030261	chromosome condensation	0.0126590733377437
GO:0030262	apoptotic nuclear changes	0.0126590733377437
GO:0008028	monocarboxylic acid transmembrane transporter activity	0.0126590733377437
GO:0044450	microtubule organizing center part	0.0127250924038854
GO:0019079	viral genome replication	0.0154477049253973
GO:0006997	nuclear organization and biogenesis	0.0188408388029977
GO:0005343	organic acid:sodium symporter activity	0.0188408388029977
GO:0019058	viral infectious cycle	0.0239557574527735
GO:0022415	viral reproductive process	0.0264231617084463
GO:0007059	chromosome segregation	0.0264940328844091
GO:0008022	protein C-terminus binding	0.0322086059666091
GO:0019901	protein kinase binding	0.0340525037523818
GO:0008094	DNA-dependent ATPase activity	0.0340525037523818
GO:0015370	solute:sodium symporter activity	0.0345342885688741
GO:0008632	apoptotic program	0.0345342885688741
GO:0031402	sodium ion binding	0.0346565724290078
GO:0046943	carboxylic acid transmembrane transporter activity	0.0346565724290078
GO:0005342	organic acid transmembrane transporter activity	0.0346565724290078
GO:0019900	kinase binding	0.0346565724290078
GO:0046982	protein heterodimerization activity	0.03587546151678
GO:0015294	solute:cation symporter activity	0.0380345867309035
GO:0003682	chromatin binding	0.0384698454457164
GO:0048015	phosphoinositide-mediated signaling	0.0402144554204852
GO:0005813	centrosome	0.0402144554204852
GO:0005815	microtubule organizing center	0.0448269676400632
GO:0042803	protein homodimerization activity	0.0471622913629572
GO:0007218	neuropeptide signaling pathway	0.0491093518050705
GO:0006814	sodium ion transport	0.0495522148119735

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
CD34-positive, CD38-negative hematopoietic stem cell	7.46e-16	1

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	7.11e-09	7
immune organ	7.11e-09	7

Disease

Ontology term	p-value	n
myeloid leukemia	1.36e-07	31

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.