Coexpression cluster:C3046

Full id: C3046_testis_CD4_CD19_Natural_Mast_CD8_lymph

Phase1 CAGE Peaks

Hg19::chr10:75532373..75532392,-	p5@FLJ44715
Hg19::chr14:58862630..58862662,+	p1@TOMM20L
Hg19::chr1:113160826..113160844,-	p8@ST7L

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0008417	fucosyltransferase activity	0.0111268103143765
GO:0006486	protein amino acid glycosylation	0.0257152949487813
GO:0043413	biopolymer glycosylation	0.0257152949487813
GO:0009101	glycoprotein biosynthetic process	0.0257152949487813
GO:0009100	glycoprotein metabolic process	0.0257152949487813
GO:0016758	transferase activity, transferring hexosyl groups	0.0289503120216649
GO:0016757	transferase activity, transferring glycosyl groups	0.039120452137054

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><br><br>

---

Cell Type

Ontology term	p-value	n
leukocyte	1.49e-22	136
nongranular leukocyte	2.32e-20	115
hematopoietic lineage restricted progenitor cell	1.03e-19	120
hematopoietic stem cell	9.77e-16	168
angioblastic mesenchymal cell	9.77e-16	168
lymphoid lineage restricted progenitor cell	3.18e-15	52
lymphocyte	9.01e-15	53
common lymphoid progenitor	9.01e-15	53
hematopoietic cell	4.56e-14	177
nucleate cell	6.40e-14	55
hematopoietic oligopotent progenitor cell	7.75e-14	161
hematopoietic multipotent progenitor cell	7.75e-14	161
mature alpha-beta T cell	4.69e-11	18
alpha-beta T cell	4.69e-11	18
immature T cell	4.69e-11	18
mature T cell	4.69e-11	18
immature alpha-beta T cell	4.69e-11	18
CD4-positive, alpha-beta T cell	1.97e-10	6
intermediate monocyte	1.29e-09	9
CD14-positive, CD16-positive monocyte	1.29e-09	9
T cell	1.89e-09	25
pro-T cell	1.89e-09	25
classical monocyte	5.27e-09	42
CD14-positive, CD16-negative classical monocyte	5.27e-09	42
myeloid leukocyte	2.43e-07	72
defensive cell	3.27e-07	48
phagocyte	3.27e-07	48
granulocyte monocyte progenitor cell	8.09e-07	67

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

---

Novel motifs

JASPAR motifs

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

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

---

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
E2F6#1876	3	5.01715573169739	0.0079176980688633	0.0320311616289903
ELF1#1997	3	4.25809795880754	0.0129517987505461	0.0459936385483945

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

---

This analysis result is provided for C0 - C305 clusters.