Coexpression cluster:C780

Full id: C780_Dendritic_CD14_CD14CD16_CD19_splenic_xeroderma_spleen

Phase1 CAGE Peaks

Hg19::chr10:134146041..134146067,-	p6@STK32C
Hg19::chr14:100531693..100531705,+	p6@EVL
Hg19::chr17:5138099..5138164,-	p1@SCIMP
Hg19::chr17:5138587..5138602,-	p3@SCIMP
Hg19::chr1:112016563..112016574,+	p2@C1orf162
Hg19::chr6:36973406..36973438,+	p1@FGD2
Hg19::chr6:36973449..36973454,+	p4@FGD2
Hg19::chr6:36996408..36996411,+	p@chr6:36996408..36996411 +
Hg19::chr7:100272664..100272708,+	p14@GNB2
Hg19::chr9:74920462..74920487,+	p1@ENST00000451152

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:0030027	lamellipodium	0.00176828189709051
GO:0031252	leading edge	0.00304382497822467
GO:0030036	actin cytoskeleton organization and biogenesis	0.0191085120955059
GO:0030029	actin filament-based process	0.0191085120955059
GO:0005522	profilin binding	0.0191085120955059
GO:0042995	cell projection	0.0191085120955059
GO:0032488	Cdc42 protein signal transduction	0.0203012799919833
GO:0043088	regulation of Cdc42 GTPase activity	0.0203012799919833
GO:0032489	regulation of Cdc42 protein signal transduction	0.0203012799919833
GO:0005246	calcium channel regulator activity	0.0221429395266416
GO:0032319	regulation of Rho GTPase activity	0.0221429395266416
GO:0017124	SH3 domain binding	0.0338135608774231
GO:0046847	filopodium formation	0.0347714729057789
GO:0030035	microspike biogenesis	0.0347714729057789
GO:0007010	cytoskeleton organization and biogenesis	0.0359745203502693
GO:0005925	focal adhesion	0.0363003890048804
GO:0016247	channel regulator activity	0.0363003890048804
GO:0005924	cell-substrate adherens junction	0.0363003890048804
GO:0030055	cell-matrix junction	0.0363003890048804
GO:0007015	actin filament organization	0.0363003890048804
GO:0022603	regulation of anatomical structure morphogenesis	0.0363003890048804
GO:0022604	regulation of cell morphogenesis	0.0363003890048804
GO:0008360	regulation of cell shape	0.0363003890048804
GO:0001726	ruffle	0.0363003890048804
GO:0030031	cell projection biogenesis	0.0405046679240081
GO:0005912	adherens junction	0.0420526351365762
GO:0009653	anatomical structure morphogenesis	0.0440925912246133
GO:0008154	actin polymerization and/or depolymerization	0.0440925912246133

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
leukocyte	2.60e-57	140
hematopoietic stem cell	2.33e-56	172
angioblastic mesenchymal cell	2.33e-56	172
hematopoietic oligopotent progenitor cell	7.50e-53	165
hematopoietic multipotent progenitor cell	7.50e-53	165
nongranular leukocyte	1.36e-50	119
hematopoietic lineage restricted progenitor cell	7.19e-50	124
hematopoietic cell	6.45e-49	182
myeloid leukocyte	2.79e-33	76
myeloid cell	2.51e-32	112
common myeloid progenitor	2.51e-32	112
granulocyte monocyte progenitor cell	1.15e-31	71
macrophage dendritic cell progenitor	1.09e-30	65
myeloid lineage restricted progenitor cell	4.20e-30	70
monopoietic cell	8.48e-30	63
monocyte	8.48e-30	63
monoblast	8.48e-30	63
promonocyte	8.48e-30	63
CD14-positive, CD16-negative classical monocyte	1.87e-27	42
classical monocyte	1.20e-23	45
lymphocyte	6.82e-18	53
common lymphoid progenitor	6.82e-18	53
lymphoid lineage restricted progenitor cell	1.47e-17	52
lymphocyte of B lineage	4.97e-13	24
pro-B cell	4.97e-13	24
B cell	2.89e-09	14
intermediate monocyte	8.45e-08	9
CD14-positive, CD16-positive monocyte	8.45e-08	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	8.10e-34	102
blood island	8.10e-34	102
adult organism	1.09e-31	115
hemolymphoid system	1.89e-31	112
bone marrow	4.31e-26	80
bone element	4.66e-22	86
immune system	9.80e-21	115
skeletal element	9.54e-17	101
skeletal system	9.54e-17	101
neural tube	1.99e-09	57
neural rod	1.99e-09	57
future spinal cord	1.99e-09	57
neural keel	1.99e-09	57
lateral plate mesoderm	1.28e-08	216
anterior neural tube	7.38e-08	42
regional part of forebrain	1.25e-07	41
forebrain	1.25e-07	41
future forebrain	1.25e-07	41

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.