Coexpression cluster:C3518

Full id: C3518_lymphangiectasia_lymphoma_plasma_B_CD4_xeroderma_Dendritic

Phase1 CAGE Peaks

Hg19::chr15:79271225..79271235,+	p2@ENST00000316148
Hg19::chr15:81592487..81592496,+	p17@IL16
Hg19::chr15:81592512..81592540,+	p6@IL16

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:0050930	induction of positive chemotaxis	0.00170728835511598
GO:0050927	positive regulation of positive chemotaxis	0.00170728835511598
GO:0050918	positive chemotaxis	0.00170728835511598
GO:0050926	regulation of positive chemotaxis	0.00170728835511598
GO:0050921	positive regulation of chemotaxis	0.00170728835511598
GO:0050920	regulation of chemotaxis	0.00170728835511598
GO:0030595	leukocyte chemotaxis	0.00280483086911911
GO:0050900	leukocyte migration	0.00330787118803721
GO:0042330	taxis	0.012292476156835
GO:0006935	chemotaxis	0.012292476156835
GO:0007626	locomotory behavior	0.014046326921636
GO:0016477	cell migration	0.0165749244475843
GO:0007610	behavior	0.0189021210744983
GO:0005125	cytokine activity	0.0189021210744983
GO:0051674	localization of cell	0.0204341075002943
GO:0006928	cell motility	0.0204341075002943
GO:0005615	extracellular space	0.0265131838676834
GO:0042221	response to chemical stimulus	0.0279331344767586
GO:0009605	response to external stimulus	0.0284398297049582
GO:0044421	extracellular region part	0.0388408100788885
GO:0005102	receptor binding	0.0421537624822683
GO:0006955	immune response	0.0461355875962022

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
lymphocyte of B lineage	2.89e-33	24
pro-B cell	2.89e-33	24
lymphoid lineage restricted progenitor cell	2.43e-27	52
lymphocyte	1.00e-26	53
common lymphoid progenitor	1.00e-26	53
nucleate cell	1.48e-25	55
nongranular leukocyte	1.03e-15	115
leukocyte	6.53e-15	136
hematopoietic lineage restricted progenitor cell	1.63e-13	120
hematopoietic stem cell	7.28e-12	168
angioblastic mesenchymal cell	7.28e-12	168
hematopoietic cell	6.41e-11	177
hematopoietic oligopotent progenitor cell	1.54e-10	161
hematopoietic multipotent progenitor cell	1.54e-10	161
B cell	1.57e-09	14
mature B cell	8.31e-09	2
pre-B-II cell	8.31e-09	2
transitional stage B cell	8.31e-09	2
small pre-B-II cell	8.31e-09	2
immature B cell	8.31e-09	2
mature alpha-beta T cell	8.60e-07	18
alpha-beta T cell	8.60e-07	18
immature T cell	8.60e-07	18
mature T cell	8.60e-07	18
immature alpha-beta T cell	8.60e-07	18

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	1.80e-12	7
immune organ	1.80e-12	7
thymus	1.46e-08	4
hemolymphoid system gland	1.46e-08	4
thymic region	1.46e-08	4
pharyngeal gland	1.46e-08	4
thymus primordium	1.46e-08	4

Disease

Ontology term	p-value	n
lymphoma	3.57e-09	10

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.