Coexpression cluster:C1598

Full id: C1598_CD34_CD133_CD4_CD8_Smooth_Cardiac_acute

Phase1 CAGE Peaks

Hg19::chr10:89705236..89705239,+	p1@ENST00000395256
Hg19::chr17:37011443..37011449,+	p1@ENST00000462007
Hg19::chr4:138369206..138369216,+	p1@ENST00000463671
Hg19::chr4:152020736..152020788,+	p1@RPS3A
Hg19::chr9:74204452..74204456,+	p1@ENST00000437667

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:0005843	cytosolic small ribosomal subunit (sensu Eukaryota)	0.0405039444248204
GO:0005830	cytosolic ribosome (sensu Eukaryota)	0.0405039444248204
GO:0006413	translational initiation	0.0405039444248204
GO:0015935	small ribosomal subunit	0.0405039444248204
GO:0022618	protein-RNA complex assembly	0.0405039444248204
GO:0044445	cytosolic part	0.0405039444248204
GO:0006917	induction of apoptosis	0.0405039444248204
GO:0012502	induction of programmed cell death	0.0405039444248204
GO:0033279	ribosomal subunit	0.0405039444248204
GO:0022613	ribonucleoprotein complex biogenesis and assembly	0.0405039444248204
GO:0043065	positive regulation of apoptosis	0.0405039444248204
GO:0043068	positive regulation of programmed cell death	0.0405039444248204

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
hematopoietic lineage restricted progenitor cell	5.70e-22	124
hematopoietic oligopotent progenitor cell	5.77e-20	165
hematopoietic multipotent progenitor cell	5.77e-20	165
hematopoietic stem cell	1.02e-19	172
angioblastic mesenchymal cell	1.02e-19	172
leukocyte	1.22e-18	140
nongranular leukocyte	3.91e-18	119
classical monocyte	9.85e-18	45
CD14-positive, CD16-negative classical monocyte	1.02e-17	42
hematopoietic cell	1.29e-16	182
myeloid lineage restricted progenitor cell	1.67e-13	70
macrophage dendritic cell progenitor	9.78e-13	65
granulocyte monocyte progenitor cell	1.45e-12	71
myeloid cell	3.48e-12	112
common myeloid progenitor	3.48e-12	112
monopoietic cell	6.99e-12	63
monocyte	6.99e-12	63
monoblast	6.99e-12	63
promonocyte	6.99e-12	63
myeloid leukocyte	3.53e-10	76
stem cell	8.96e-09	444
native cell	2.75e-08	722
lymphoid lineage restricted progenitor cell	4.70e-08	52
multi fate stem cell	5.66e-08	430
lymphocyte	6.31e-08	53
common lymphoid progenitor	6.31e-08	53
mesenchymal cell	7.05e-08	358
somatic stem cell	7.06e-08	436
connective tissue cell	1.73e-07	365
motile cell	5.90e-07	390

Uber Anatomy

Ontology term	p-value	n
bone marrow	1.02e-11	80
bone element	3.85e-11	86
skeletal element	1.24e-10	101
skeletal system	1.24e-10	101
musculoskeletal system	1.76e-07	167
connective tissue	2.89e-07	375
hematopoietic system	4.61e-07	102
blood island	4.61e-07	102

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

TF	#promoters	Enrichment	p-value	q-value
KAT2A#2648	1	123.218	0.00808948154454081	0.0319912667283993

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.