Coexpression cluster:C996

Full id: C996_CD4_CD8_Natural_CD19_Whole_blood_Peripheral

Phase1 CAGE Peaks

Hg19::chr11:64512524..64512536,-	p11@RASGRP2
Hg19::chr11:64512542..64512604,-	p4@RASGRP2
Hg19::chr13:74707811..74707813,-	p@chr13:74707811..74707813 -
Hg19::chr14:91884115..91884127,-	p4@CCDC88C
Hg19::chr1:101707580..101707583,+	p@chr1:101707580..101707583 +
Hg19::chr4:40232957..40232960,+	p@chr4:40232957..40232960 +
Hg19::chr7:2981171..2981174,-	p@chr7:2981171..2981174 -
Hg19::chr7:2983379..2983381,-	p@chr7:2983379..2983381 -

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:0031648	protein destabilization	0.00682905290600423
GO:0043621	protein self-association	0.0143370005756672
GO:0030165	PDZ domain binding	0.0143370005756672
GO:0005626	insoluble fraction	0.0143370005756672
GO:0031647	regulation of protein stability	0.0143370005756672
GO:0051260	protein homooligomerization	0.0174407218005431
GO:0001932	regulation of protein amino acid phosphorylation	0.0174407218005431
GO:0033238	regulation of amine metabolic process	0.0174407218005431
GO:0006521	regulation of amino acid metabolic process	0.0174407218005431
GO:0051259	protein oligomerization	0.0181053835448897
GO:0042325	regulation of phosphorylation	0.0181053835448897
GO:0051174	regulation of phosphorus metabolic process	0.0181053835448897
GO:0019220	regulation of phosphate metabolic process	0.0181053835448897
GO:0019904	protein domain specific binding	0.0309176447148182
GO:0016055	Wnt receptor signaling pathway	0.0329376168016293

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
hematopoietic stem cell	5.45e-39	172
angioblastic mesenchymal cell	5.45e-39	172
hematopoietic cell	1.79e-36	182
hematopoietic oligopotent progenitor cell	4.10e-35	165
hematopoietic multipotent progenitor cell	4.10e-35	165
leukocyte	2.48e-33	140
nongranular leukocyte	7.57e-30	119
lymphocyte	9.00e-27	53
common lymphoid progenitor	9.00e-27	53
hematopoietic lineage restricted progenitor cell	1.18e-26	124
lymphoid lineage restricted progenitor cell	2.91e-26	52
T cell	9.07e-14	25
pro-T cell	9.07e-14	25
mature alpha-beta T cell	1.78e-12	18
alpha-beta T cell	1.78e-12	18
immature T cell	1.78e-12	18
mature T cell	1.78e-12	18
immature alpha-beta T cell	1.78e-12	18
myeloid cell	4.22e-12	112
common myeloid progenitor	4.22e-12	112
lymphocyte of B lineage	1.20e-11	24
pro-B cell	1.20e-11	24
CD14-positive, CD16-negative classical monocyte	9.26e-11	42
myeloid leukocyte	2.34e-09	76
classical monocyte	3.12e-09	45
B cell	5.60e-09	14
CD8-positive, alpha-beta T cell	3.14e-08	11
granulocyte monocyte progenitor cell	5.37e-07	71

Uber Anatomy

Ontology term	p-value	n
adult organism	1.60e-14	115
hematopoietic system	2.38e-13	102
blood island	2.38e-13	102
hemolymphoid system	1.48e-12	112
blood	1.49e-09	15
haemolymphatic fluid	1.49e-09	15
organism substance	1.49e-09	15

Disease

Ontology term	p-value	n
hematologic cancer	3.47e-10	51
immune system cancer	3.47e-10	51
leukemia	8.12e-08	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.