Coexpression cluster:C1837

Full id: C1837_Neutrophils_Eosinophils_tongue_CD14_esophagus_Whole_blood

Phase1 CAGE Peaks

Hg19::chr1:153330322..153330336,+	p1@S100A9
Hg19::chr1:153333121..153333180,+	p@chr1:153333121..153333180 +
Hg19::chr1:153333155..153333181,-	p@chr1:153333155..153333181 -
Hg19::chr1:153333296..153333313,+	p@chr1:153333296..153333313 +
Hg19::chr1:153363539..153363557,-	p1@S100A8

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:0045113	regulation of integrin biosynthetic process	0.0014624853885336
GO:0045112	integrin biosynthetic process	0.0014624853885336
GO:0006954	inflammatory response	0.0014624853885336
GO:0009611	response to wounding	0.00232014234594365
GO:0005615	extracellular space	0.00289331912031146
GO:0006952	defense response	0.00295020337246601
GO:0009605	response to external stimulus	0.00297128665174546
GO:0031532	actin cytoskeleton reorganization	0.00353195680305831
GO:0044421	extracellular region part	0.00459120590743029
GO:0007009	plasma membrane organization and biogenesis	0.00459120590743029
GO:0006950	response to stress	0.0067680891531925
GO:0030595	leukocyte chemotaxis	0.0067680891531925
GO:0050900	leukocyte migration	0.00788879814578809
GO:0005509	calcium ion binding	0.00788879814578809
GO:0051128	regulation of cellular component organization and biogenesis	0.0235144913412218
GO:0042330	taxis	0.0298578589896392
GO:0006935	chemotaxis	0.0298578589896392
GO:0007626	locomotory behavior	0.0341155999948796
GO:0006417	regulation of translation	0.0341155999948796
GO:0031326	regulation of cellular biosynthetic process	0.0350441653430559
GO:0009889	regulation of biosynthetic process	0.0363846053814271
GO:0016477	cell migration	0.0372827430407898
GO:0030036	actin cytoskeleton organization and biogenesis	0.0377967039412606
GO:0030029	actin filament-based process	0.0381209320173468
GO:0016044	membrane organization and biogenesis	0.0397701443440885
GO:0007610	behavior	0.0397701443440885
GO:0051674	localization of cell	0.0480454413454034
GO:0006928	cell motility	0.0480454413454034

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
myeloid leukocyte	6.34e-51	72
defensive cell	1.23e-48	48
phagocyte	1.23e-48	48
monopoietic cell	3.99e-48	59
monocyte	3.99e-48	59
monoblast	3.99e-48	59
promonocyte	3.99e-48	59
macrophage dendritic cell progenitor	7.78e-46	61
classical monocyte	2.66e-43	42
CD14-positive, CD16-negative classical monocyte	2.66e-43	42
myeloid lineage restricted progenitor cell	9.94e-41	66
granulocyte monocyte progenitor cell	8.41e-40	67
myeloid cell	1.48e-34	108
common myeloid progenitor	1.48e-34	108
leukocyte	7.23e-28	136
nongranular leukocyte	3.73e-26	115
hematopoietic stem cell	2.24e-24	168
angioblastic mesenchymal cell	2.24e-24	168
hematopoietic oligopotent progenitor cell	4.22e-22	161
hematopoietic multipotent progenitor cell	4.22e-22	161
hematopoietic cell	1.02e-21	177
stuff accumulating cell	3.67e-21	87
hematopoietic lineage restricted progenitor cell	5.75e-21	120
granulocyte	1.87e-09	8
intermediate monocyte	1.17e-08	9
CD14-positive, CD16-positive monocyte	1.17e-08	9
endo-epithelial cell	2.40e-08	42

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	4.22e-43	98
blood island	4.22e-43	98
hemolymphoid system	1.67e-39	108
bone marrow	5.93e-34	76
immune system	9.41e-31	93
bone element	6.34e-30	82
skeletal element	7.39e-29	90
skeletal system	7.64e-24	100
lateral plate mesoderm	5.83e-14	203
blood	1.16e-09	15
haemolymphatic fluid	1.16e-09	15
organism substance	1.16e-09	15
musculoskeletal system	7.15e-08	167
adult organism	1.87e-07	114
embryonic structure	5.28e-07	564
mesoderm	8.34e-07	315
mesoderm-derived structure	8.34e-07	315
presumptive mesoderm	8.34e-07	315

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.