Coexpression cluster:C3836

Full id: C3836_CD14_Neutrophils_acute_Basophils_granulocyte_Peripheral_CD14CD16

Phase1 CAGE Peaks

Hg19::chr19:8567478..8567493,-	p2@PRAM1
Hg19::chr19:8567505..8567540,-	p1@PRAM1
Hg19::chr3:132036271..132036287,+	p2@ACPP

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:0043313	regulation of neutrophil degranulation	0.000843832175517092
GO:0043312	neutrophil degranulation	0.000843832175517092
GO:0002446	neutrophil mediated immunity	0.000843832175517092
GO:0043300	regulation of leukocyte degranulation	0.00303757227383912
GO:0042119	neutrophil activation	0.00303757227383912
GO:0043299	leukocyte degranulation	0.00325439800609893
GO:0002444	myeloid leukocyte mediated immunity	0.00325439800609893
GO:0017157	regulation of exocytosis	0.00474557792093556
GO:0002274	myeloid leukocyte activation	0.00759158332536239
GO:0003993	acid phosphatase activity	0.00809709272566009
GO:0045055	regulated secretory pathway	0.0121878752959624
GO:0002443	leukocyte mediated immunity	0.0164360789575464
GO:0007229	integrin-mediated signaling pathway	0.0167258717763662
GO:0051049	regulation of transport	0.0175338233669729
GO:0002252	immune effector process	0.0175338233669729
GO:0006887	exocytosis	0.0175338233669729
GO:0045321	leukocyte activation	0.0267334628352254
GO:0001775	cell activation	0.0289528229905302
GO:0004725	protein tyrosine phosphatase activity	0.0289528229905302
GO:0045045	secretory pathway	0.0302710975838983
GO:0032940	secretion by cell	0.0356466141067249
GO:0004721	phosphoprotein phosphatase activity	0.0358508992017105
GO:0046903	secretion	0.0420267309543528
GO:0016791	phosphoric monoester hydrolase activity	0.0459026564231758

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
myeloid cell	3.65e-55	108
common myeloid progenitor	3.65e-55	108
myeloid leukocyte	3.30e-52	72
monopoietic cell	1.50e-47	59
monocyte	1.50e-47	59
monoblast	1.50e-47	59
promonocyte	1.50e-47	59
macrophage dendritic cell progenitor	3.87e-45	61
hematopoietic stem cell	8.23e-45	168
angioblastic mesenchymal cell	8.23e-45	168
granulocyte monocyte progenitor cell	5.30e-43	67
defensive cell	1.57e-42	48
phagocyte	1.57e-42	48
myeloid lineage restricted progenitor cell	5.17e-42	66
hematopoietic oligopotent progenitor cell	3.12e-41	161
hematopoietic multipotent progenitor cell	3.12e-41	161
hematopoietic cell	2.75e-40	177
classical monocyte	5.10e-38	42
CD14-positive, CD16-negative classical monocyte	5.10e-38	42
leukocyte	5.33e-34	136
nongranular leukocyte	6.64e-31	115
hematopoietic lineage restricted progenitor cell	3.71e-26	120
stuff accumulating cell	3.02e-14	87
intermediate monocyte	1.58e-09	9
CD14-positive, CD16-positive monocyte	1.58e-09	9
granulocyte	3.58e-09	8

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	5.12e-45	98
blood island	5.12e-45	98
adult organism	1.63e-42	114
hemolymphoid system	2.57e-40	108
bone marrow	2.31e-36	76
immune system	9.74e-33	93
bone element	8.72e-32	82
skeletal element	1.07e-26	90
skeletal system	3.35e-23	100
neural tube	1.49e-16	56
neural rod	1.49e-16	56
future spinal cord	1.49e-16	56
neural keel	1.49e-16	56
regional part of nervous system	4.54e-15	53
regional part of brain	4.54e-15	53
lateral plate mesoderm	1.85e-13	203
regional part of forebrain	5.59e-13	41
forebrain	5.59e-13	41
anterior neural tube	5.59e-13	41
future forebrain	5.59e-13	41
telencephalon	2.07e-10	34
brain grey matter	2.10e-10	34
gray matter	2.10e-10	34
neural plate	9.60e-10	82
presumptive neural plate	9.60e-10	82
regional part of telencephalon	1.38e-09	32
cerebral hemisphere	2.24e-09	32
brain	2.99e-09	68
future brain	2.99e-09	68
central nervous system	3.05e-09	81
neurectoderm	4.25e-09	86
tissue	7.31e-09	773
blood	3.24e-08	15
haemolymphatic fluid	3.24e-08	15
organism substance	3.24e-08	15
regional part of cerebral cortex	4.46e-08	22
musculoskeletal system	6.52e-08	167
nervous system	1.47e-07	89
pre-chordal neural plate	3.46e-07	61
neocortex	3.97e-07	20

Disease

Ontology term	p-value	n
myeloid leukemia	1.38e-11	31
leukemia	5.75e-09	39

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.