Coexpression cluster:C2645

Full id: C2645_Neutrophils_Mast_CD4_Whole_chronic_Monocytederived_meningioma

Phase1 CAGE Peaks

Hg19::chr22:37621736..37621790,-	p7@RAC2
Hg19::chr22:37628003..37628037,-	p9@RAC2
Hg19::chr22:37628892..37628908,-	p@chr22:37628892..37628908 -
Hg19::chr22:37637680..37637701,-	p1@M64595

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:0030031	cell projection biogenesis	0.0432709290003532
GO:0042330	taxis	0.0432709290003532
GO:0006935	chemotaxis	0.0432709290003532
GO:0007626	locomotory behavior	0.0432709290003532
GO:0005635	nuclear envelope	0.0432709290003532
GO:0032990	cell part morphogenesis	0.0432709290003532
GO:0048858	cell projection morphogenesis	0.0432709290003532
GO:0030030	cell projection organization and biogenesis	0.0432709290003532
GO:0008284	positive regulation of cell proliferation	0.0432709290003532
GO:0030036	actin cytoskeleton organization and biogenesis	0.0432709290003532
GO:0030029	actin filament-based process	0.0432709290003532
GO:0003924	GTPase activity	0.0432709290003532
GO:0007610	behavior	0.0432709290003532

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>

---

Cell Type

Ontology term	p-value	n
hematopoietic stem cell	1.01e-46	172
angioblastic mesenchymal cell	1.01e-46	172
hematopoietic cell	5.94e-45	182
hematopoietic oligopotent progenitor cell	2.71e-44	165
hematopoietic multipotent progenitor cell	2.71e-44	165
leukocyte	2.87e-41	140
nongranular leukocyte	2.85e-38	119
hematopoietic lineage restricted progenitor cell	2.93e-38	124
myeloid cell	1.70e-23	112
common myeloid progenitor	1.70e-23	112
myeloid leukocyte	4.31e-22	76
myeloid lineage restricted progenitor cell	8.94e-20	70
lymphocyte	1.96e-19	53
common lymphoid progenitor	1.96e-19	53
lymphoid lineage restricted progenitor cell	2.50e-19	52
CD14-positive, CD16-negative classical monocyte	2.67e-18	42
somatic stem cell	3.70e-18	436
granulocyte monocyte progenitor cell	4.08e-18	71
multi fate stem cell	4.83e-18	430
stem cell	2.52e-17	444
monopoietic cell	3.10e-17	63
monocyte	3.10e-17	63
monoblast	3.10e-17	63
promonocyte	3.10e-17	63
connective tissue cell	3.26e-16	365
mesenchymal cell	3.97e-16	358
macrophage dendritic cell progenitor	5.70e-16	65
somatic cell	6.74e-16	591
classical monocyte	3.35e-15	45
native cell	2.56e-14	722
T cell	8.05e-12	25
pro-T cell	8.05e-12	25
mature alpha-beta T cell	1.19e-09	18
alpha-beta T cell	1.19e-09	18
immature T cell	1.19e-09	18
mature T cell	1.19e-09	18
immature alpha-beta T cell	1.19e-09	18
motile cell	7.62e-09	390
lymphocyte of B lineage	6.60e-08	24
pro-B cell	6.60e-08	24

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	5.07e-25	112
lateral plate mesoderm	1.09e-23	216
hematopoietic system	7.68e-23	102
blood island	7.68e-23	102
bone marrow	2.40e-16	80
immune system	3.13e-15	115
connective tissue	8.75e-15	375
bone element	1.20e-12	86
skeletal element	3.81e-10	101
skeletal system	3.81e-10	101
cardiovascular system	3.27e-09	110
vessel	3.84e-09	69
musculoskeletal system	1.10e-08	167
circulatory system	2.19e-08	113
blood vessel	1.38e-07	60
epithelial tube open at both ends	1.38e-07	60
blood vasculature	1.38e-07	60
vascular cord	1.38e-07	60
artery	1.64e-07	42
arterial blood vessel	1.64e-07	42
arterial system	1.64e-07	42
splanchnic layer of lateral plate mesoderm	5.41e-07	84

Disease

Ontology term	p-value	n
hematologic cancer	1.58e-09	51
immune system cancer	1.58e-09	51
leukemia	5.88e-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

---

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

---

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

---

This analysis result is provided for C0 - C305 clusters.