Coexpression cluster:C916

Full id: C916_Natural_CD8_CD14_Basophils_Whole_Peripheral_CD4

Phase1 CAGE Peaks

Hg19::chr17:10017864..10017880,-	p16@GAS7
Hg19::chr17:10017891..10017924,-	p9@GAS7
Hg19::chr17:10018796..10018825,+	p@chr17:10018796..10018825 +
Hg19::chr1:25228796..25228804,-	p@chr1:25228796..25228804 -
Hg19::chr1:25245820..25245840,-	p@chr1:25245820..25245840 -
Hg19::chr1:25248726..25248732,-	p@chr1:25248726..25248732 -
Hg19::chr1:25249270..25249275,-	p@chr1:25249270..25249275 -
Hg19::chr1:25254150..25254174,-	p2@EF491807
Hg19::chr1:25254177..25254220,-	p1@EF491807

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:0045786	negative regulation of progression through cell cycle	0.00278412055790254
GO:0000074	regulation of progression through cell cycle	0.00278412055790254
GO:0051726	regulation of cell cycle	0.00278412055790254
GO:0022402	cell cycle process	0.00633631022849388
GO:0007049	cell cycle	0.00882937210526807
GO:0050680	negative regulation of epithelial cell proliferation	0.00882937210526807
GO:0048523	negative regulation of cellular process	0.0113398994525439
GO:0048519	negative regulation of biological process	0.0113398994525439
GO:0050678	regulation of epithelial cell proliferation	0.0132663844202363
GO:0050673	epithelial cell proliferation	0.0132663844202363
GO:0003700	transcription factor activity	0.0132663844202363
GO:0048869	cellular developmental process	0.0163683765033966
GO:0030154	cell differentiation	0.0163683765033966
GO:0007050	cell cycle arrest	0.0318070797147764
GO:0032502	developmental process	0.0485201580171879
GO:0003677	DNA binding	0.0499127809821499

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
leukocyte	3.47e-54	140
hematopoietic stem cell	3.59e-48	172
angioblastic mesenchymal cell	3.59e-48	172
hematopoietic cell	8.29e-48	182
hematopoietic oligopotent progenitor cell	5.51e-45	165
hematopoietic multipotent progenitor cell	5.51e-45	165
nongranular leukocyte	1.57e-43	119
hematopoietic lineage restricted progenitor cell	2.85e-42	124
CD14-positive, CD16-negative classical monocyte	6.86e-27	42
myeloid leukocyte	3.24e-25	76
classical monocyte	5.00e-23	45
myeloid cell	2.59e-22	112
common myeloid progenitor	2.59e-22	112
lymphocyte	9.21e-22	53
common lymphoid progenitor	9.21e-22	53
lymphoid lineage restricted progenitor cell	1.45e-21	52
granulocyte monocyte progenitor cell	7.60e-21	71
macrophage dendritic cell progenitor	5.05e-20	65
myeloid lineage restricted progenitor cell	3.53e-19	70
monopoietic cell	3.89e-19	63
monocyte	3.89e-19	63
monoblast	3.89e-19	63
promonocyte	3.89e-19	63
mesenchymal cell	2.78e-17	358
connective tissue cell	6.98e-17	365
motile cell	7.35e-15	390
T cell	1.25e-11	25
pro-T cell	1.25e-11	25
mature alpha-beta T cell	2.99e-11	18
alpha-beta T cell	2.99e-11	18
immature T cell	2.99e-11	18
mature T cell	2.99e-11	18
immature alpha-beta T cell	2.99e-11	18
lymphocyte of B lineage	3.26e-09	24
pro-B cell	3.26e-09	24
CD8-positive, alpha-beta T cell	6.57e-08	11

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	7.14e-27	102
blood island	7.14e-27	102
hemolymphoid system	9.98e-23	112
bone marrow	2.72e-17	80
bone element	2.83e-17	86
connective tissue	4.57e-16	375
skeletal element	8.47e-14	101
skeletal system	8.47e-14	101
immune system	1.12e-10	115
blood	5.78e-09	15
haemolymphatic fluid	5.78e-09	15
organism substance	5.78e-09	15

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.