Coexpression cluster:C509

Full id: C509_Neutrophils_Eosinophils_CD14_Whole_CD34_CD19_Peripheral

Phase1 CAGE Peaks

Hg19::chr10:99894399..99894453,+	p1@C10orf28
Hg19::chr11:95522907..95522989,-	p1@FAM76B
Hg19::chr12:105501487..105501562,+	p1@KIAA1033
Hg19::chr12:118810688..118810744,-	p1@TAOK3
Hg19::chr16:50775971..50776014,+	p1@CYLD
Hg19::chr17:62502968..62503006,-	p2@DDX5
Hg19::chr18:9137005..9137035,+	p@chr18:9137005..9137035 +
Hg19::chr21:34697258..34697336,+	p1@IFNAR1
Hg19::chr22:30279148..30279192,+	p1@MTMR3
Hg19::chr2:128145498..128145563,-	p1@MAP3K2
Hg19::chr2:24583314..24583433,-	p1@ITSN2
Hg19::chr2:64751475..64751556,+	p1@AFTPH
Hg19::chr5:147763539..147763586,+	p1@FBXO38
Hg19::chr7:106809432..106809455,+	p1@HBP1
Hg19::chr8:96145974..96146041,+	p1@PLEKHF2
Hg19::chrX:100663186..100663241,+	p1@HNRNPH2
Hg19::chrX:44732415..44732450,+	p1@KDM6A
Hg19::chrX:54070731..54070781,-	p1@PHF8

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:0030133	transport vesicle	0.0188889352968199
GO:0007254	JNK cascade	0.0188889352968199
GO:0031098	stress-activated protein kinase signaling pathway	0.0188889352968199
GO:0007243	protein kinase cascade	0.0188889352968199
GO:0043687	post-translational protein modification	0.0277494551879854
GO:0019962	interferon-alpha/beta binding	0.0277494551879854
GO:0004905	interferon-alpha/beta receptor activity	0.0277494551879854
GO:0046329	negative regulation of JNK cascade	0.0322552606000145
GO:0005737	cytoplasm	0.0322552606000145
GO:0000165	MAPKKK cascade	0.0322552606000145
GO:0006464	protein modification process	0.0322552606000145
GO:0030121	AP-1 adaptor complex	0.0322552606000145
GO:0019961	interferon binding	0.0322552606000145
GO:0004904	interferon receptor activity	0.0322552606000145
GO:0044424	intracellular part	0.0322552606000145
GO:0043412	biopolymer modification	0.0322552606000145
GO:0045786	negative regulation of progression through cell cycle	0.0408542297560198
GO:0045351	interferon type I biosynthetic process	0.0408542297560198
GO:0032606	interferon type I production	0.0408542297560198

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	1.26e-44	140
hematopoietic stem cell	3.25e-38	172
angioblastic mesenchymal cell	3.25e-38	172
hematopoietic lineage restricted progenitor cell	2.43e-37	124
hematopoietic oligopotent progenitor cell	1.05e-35	165
hematopoietic multipotent progenitor cell	1.05e-35	165
nongranular leukocyte	4.54e-34	119
hematopoietic cell	2.47e-32	182
myeloid leukocyte	4.70e-32	76
granulocyte monocyte progenitor cell	2.21e-28	71
myeloid lineage restricted progenitor cell	1.35e-27	70
CD14-positive, CD16-negative classical monocyte	5.65e-27	42
myeloid cell	8.75e-26	112
common myeloid progenitor	8.75e-26	112
macrophage dendritic cell progenitor	1.60e-25	65
classical monocyte	1.52e-24	45
monopoietic cell	1.54e-24	63
monocyte	1.54e-24	63
monoblast	1.54e-24	63
promonocyte	1.54e-24	63
lymphoid lineage restricted progenitor cell	1.52e-09	52
lymphocyte	4.22e-09	53
common lymphoid progenitor	4.22e-09	53
mature alpha-beta T cell	7.08e-08	18
alpha-beta T cell	7.08e-08	18
immature T cell	7.08e-08	18
mature T cell	7.08e-08	18
immature alpha-beta T cell	7.08e-08	18
mesenchymal cell	1.06e-07	358
connective tissue cell	7.34e-07	365

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	8.55e-31	102
blood island	8.55e-31	102
hemolymphoid system	2.58e-28	112
adult organism	7.74e-26	115
bone marrow	5.29e-24	80
bone element	2.65e-22	86
skeletal element	4.91e-19	101
skeletal system	4.91e-19	101
immune system	1.67e-17	115
neural tube	2.26e-08	57
neural rod	2.26e-08	57
future spinal cord	2.26e-08	57
neural keel	2.26e-08	57
anterior neural tube	1.18e-07	42
regional part of forebrain	1.99e-07	41
forebrain	1.99e-07	41
future forebrain	1.99e-07	41

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.