Coexpression cluster:C2235

Full id: C2235_Mast_CD14_Basophils_immature_Neutrophils_Monocytederived_mature

Phase1 CAGE Peaks

Hg19::chr12:69327112..69327126,+	p@chr12:69327112..69327126 +
Hg19::chr15:86124881..86124895,+	p35@AKAP13
Hg19::chr19:13947099..13947104,-	p1@LOC284454
Hg19::chr9:127048437..127048462,+	p10@NEK6

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:0004674	protein serine/threonine kinase activity	0.0117724961403574
GO:0004691	cAMP-dependent protein kinase activity	0.0117724961403574
GO:0009966	regulation of signal transduction	0.0117724961403574
GO:0030071	regulation of mitotic metaphase/anaphase transition	0.0117724961403574
GO:0007091	mitotic metaphase/anaphase transition	0.0117724961403574
GO:0004690	cyclic nucleotide-dependent protein kinase activity	0.0117724961403574
GO:0004672	protein kinase activity	0.0165849601211184
GO:0016773	phosphotransferase activity, alcohol group as acceptor	0.0211838772948868
GO:0016301	kinase activity	0.02669602727628
GO:0016772	transferase activity, transferring phosphorus-containing groups	0.02669602727628
GO:0007242	intracellular signaling cascade	0.02669602727628
GO:0007059	chromosome segregation	0.02669602727628
GO:0019992	diacylglycerol binding	0.02669602727628
GO:0007088	regulation of mitosis	0.0281470938565469
GO:0043123	positive regulation of I-kappaB kinase/NF-kappaB cascade	0.0387994826056314
GO:0043122	regulation of I-kappaB kinase/NF-kappaB cascade	0.0396760250169122
GO:0007249	I-kappaB kinase/NF-kappaB cascade	0.0440474291966009
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.0440474291966009
GO:0009967	positive regulation of signal transduction	0.0440474291966009
GO:0016740	transferase activity	0.0440474291966009
GO:0035023	regulation of Rho protein signal transduction	0.0440474291966009
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.0440474291966009
GO:0007266	Rho protein signal transduction	0.0477194477002178
GO:0060089	molecular transducer activity	0.0477194477002178
GO:0004871	signal transducer activity	0.0477194477002178

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
myeloid leukocyte	6.81e-42	72
myeloid lineage restricted progenitor cell	1.08e-39	66
granulocyte monocyte progenitor cell	9.07e-39	67
classical monocyte	2.04e-36	42
CD14-positive, CD16-negative classical monocyte	2.04e-36	42
monopoietic cell	2.81e-36	59
monocyte	2.81e-36	59
monoblast	2.81e-36	59
promonocyte	2.81e-36	59
defensive cell	1.84e-35	48
phagocyte	1.84e-35	48
leukocyte	3.34e-35	136
macrophage dendritic cell progenitor	1.94e-34	61
hematopoietic lineage restricted progenitor cell	1.24e-30	120
nongranular leukocyte	4.15e-30	115
hematopoietic stem cell	9.52e-28	168
angioblastic mesenchymal cell	9.52e-28	168
hematopoietic cell	4.23e-27	177
myeloid cell	7.60e-27	108
common myeloid progenitor	7.60e-27	108
hematopoietic oligopotent progenitor cell	3.65e-25	161
hematopoietic multipotent progenitor cell	3.65e-25	161
stuff accumulating cell	8.17e-24	87
mesenchymal cell	7.11e-12	354
connective tissue cell	7.37e-12	361
motile cell	2.05e-10	386
multi fate stem cell	8.29e-08	427
stem cell	1.49e-07	441
somatic stem cell	2.87e-07	433
histamine secreting cell	5.84e-07	5
biogenic amine secreting cell	5.84e-07	5
granulocytopoietic cell	5.84e-07	5
mast cell	5.84e-07	5
mast cell progenitor	5.84e-07	5
basophil mast progenitor cell	5.84e-07	5

Uber Anatomy

Ontology term	p-value	n
immune system	8.67e-37	93
bone marrow	6.71e-36	76
bone element	3.87e-35	82
hematopoietic system	8.94e-35	98
blood island	8.94e-35	98
hemolymphoid system	2.35e-34	108
skeletal element	3.68e-31	90
skeletal system	7.52e-29	100
musculoskeletal system	2.76e-13	167
connective tissue	1.22e-10	371
lateral plate mesoderm	1.75e-10	203

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.