Coexpression cluster:C498

Full id: C498_Eosinophils_Neutrophils_CD19_Burkitt_diffuse_lymphoma_CD14

Phase1 CAGE Peaks

	Short description
Hg19::chr12:40618919..40618928,+	p9@LRRK2
Hg19::chr13:46960645..46960658,-	- p@chr13:46960645..46960658
Hg19::chr13:46961337..46961359,-	p2@KIAA0226L
Hg19::chr13:46961366..46961394,-	p1@KIAA0226L
Hg19::chr13:46961530..46961558,-	p6@KIAA0226L
Hg19::chr13:46961580..46961620,-	p4@KIAA0226L
Hg19::chr13:46961859..46961883,-	p5@KIAA0226L
Hg19::chr14:69152139..69152172,-	p1@ENST00000556919
Hg19::chr14:69152180..69152191,-	p3@ENST00000556919
Hg19::chr16:27325202..27325307,+	p1@IL4R
Hg19::chr16:81772633..81772676,+	p1@uc002fgs.2
Hg19::chr16:81812884..81812907,+	p1@PLCG2
Hg19::chr16:81812917..81812933,+	p2@PLCG2
Hg19::chr1:226862756..226862831,-	p1@ITPKB-IT1
Hg19::chr1:244212954..244212968,-	p@chr1:244212954..244212968 -
Hg19::chr2:69001969..69001981,+	p8@ARHGAP25
Hg19::chr3:151923200..151923235,-	p@chr3:151923200..151923235 -
Hg19::chr5:56111170..56111185,+	p9@MAP3K1
Hg19::chr5:56111207..56111219,+	p3@MAP3K1

Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data

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No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data

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GO ID	GO name	FDR corrected p-value
GO:0005057	receptor signaling protein activity	0.00883028193442909
GO:0004913	interleukin-4 receptor activity	0.00883028193442909
GO:0019979	interleukin-4 binding	0.00883028193442909
GO:0005096	GTPase activator activity	0.0230670501762326
GO:0008047	enzyme activator activity	0.0313681190628453
GO:0007165	signal transduction	0.0340275895393832
GO:0004709	MAP kinase kinase kinase activity	0.0340275895393832
GO:0007154	cell communication	0.0350460138096726
GO:0004674	protein serine/threonine kinase activity	0.0366141190724578
GO:0030695	GTPase regulator activity	0.0366141190724578
GO:0004907	interleukin receptor activity	0.0408633383501864
GO:0019965	interleukin binding	0.0424669262345909
GO:0004435	phosphoinositide phospholipase C activity	0.0424669262345909
GO:0004434	inositol or phosphatidylinositol phosphodiesterase activity	0.0424669262345909
GO:0004629	phospholipase C activity	0.0483525701900892
GO:0004896	hematopoietin/interferon-class (D200-domain) cytokine receptor activity	0.0483525701900892
GO:0004672	protein kinase activity	0.0483525701900892
GO:0060089	molecular transducer activity	0.0483525701900892
GO:0004871	signal transducer activity	0.0483525701900892
GO:0006468	protein amino acid phosphorylation	0.0483525701900892
GO:0004702	receptor signaling protein serine/threonine kinase activity	0.0483525701900892

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data

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Cell Type

Ontology term	p-value	n
hematopoietic stem cell	2.41e-57	172
angioblastic mesenchymal cell	2.41e-57	172
leukocyte	2.62e-57	140
hematopoietic oligopotent progenitor cell	3.33e-53	165
hematopoietic multipotent progenitor cell	3.33e-53	165
hematopoietic cell	8.03e-53	182
nongranular leukocyte	6.82e-45	119
hematopoietic lineage restricted progenitor cell	1.20e-44	124
myeloid cell	1.54e-32	112
common myeloid progenitor	1.54e-32	112
myeloid leukocyte	1.66e-31	76
granulocyte monocyte progenitor cell	1.04e-27	71
myeloid lineage restricted progenitor cell	3.64e-25	70
macrophage dendritic cell progenitor	4.93e-25	65
monopoietic cell	3.67e-24	63
monocyte	3.67e-24	63
monoblast	3.67e-24	63
promonocyte	3.67e-24	63
CD14-positive, CD16-negative classical monocyte	1.87e-23	42
classical monocyte	3.90e-20	45
lymphocyte	5.30e-18	53
common lymphoid progenitor	5.30e-18	53
lymphoid lineage restricted progenitor cell	1.87e-17	52
lymphocyte of B lineage	2.50e-13	24
pro-B cell	2.50e-13	24
B cell	4.68e-10	14
mature alpha-beta T cell	7.01e-07	18
alpha-beta T cell	7.01e-07	18
immature T cell	7.01e-07	18
mature T cell	7.01e-07	18
immature alpha-beta T cell	7.01e-07	18

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	3.25e-33	112
hematopoietic system	6.28e-33	102
blood island	6.28e-33	102
bone marrow	2.01e-23	80
bone element	1.42e-20	86
immune system	2.00e-20	115
adult organism	4.26e-18	115
skeletal element	2.49e-14	101
skeletal system	2.49e-14	101
lateral plate mesoderm	1.70e-08	216
blood	8.41e-08	15
haemolymphatic fluid	8.41e-08	15
organism substance	8.41e-08	15

Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data

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No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data

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This analysis result is provided for C0 - C305 clusters.