Coexpression cluster:C1638

Full id: C1638_Dendritic_CD14_CD19_granulocyte_immature_acute_xeroderma

Phase1 CAGE Peaks

Hg19::chr11:615942..615957,-	p1@IRF7
Hg19::chr16:85932760..85932775,+	p1@IRF8
Hg19::chr3:150996176..150996198,-	p5@P2RY14
Hg19::chr3:150996239..150996276,-	p3@P2RY14
Hg19::chr3:150996322..150996336,-	p2@P2RY14

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:0000122	negative regulation of transcription from RNA polymerase II promoter	0.0031410574327759
GO:0045892	negative regulation of transcription, DNA-dependent	0.0031410574327759
GO:0045029	UDP-activated nucleotide receptor activity	0.0031410574327759
GO:0003702	RNA polymerase II transcription factor activity	0.0031410574327759
GO:0016481	negative regulation of transcription	0.0031410574327759
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0031410574327759
GO:0015065	uridine nucleotide receptor activity	0.0031410574327759
GO:0031324	negative regulation of cellular metabolic process	0.00387566435067731
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.00405724075135865
GO:0009892	negative regulation of metabolic process	0.00405724075135865
GO:0006366	transcription from RNA polymerase II promoter	0.00792110884661063
GO:0003705	RNA polymerase II transcription factor activity, enhancer binding	0.016104641718451
GO:0048523	negative regulation of cellular process	0.016104641718451
GO:0003704	specific RNA polymerase II transcription factor activity	0.016104641718451
GO:0048519	negative regulation of biological process	0.016104641718451
GO:0006955	immune response	0.016104641718451
GO:0001608	nucleotide receptor activity, G-protein coupled	0.016104641718451
GO:0045028	purinergic nucleotide receptor activity, G-protein coupled	0.016104641718451
GO:0016502	nucleotide receptor activity	0.016104641718451
GO:0001614	purinergic nucleotide receptor activity	0.016104641718451
GO:0002376	immune system process	0.0191868854807885
GO:0003700	transcription factor activity	0.0213752109800616
GO:0030099	myeloid cell differentiation	0.024483254351918
GO:0009615	response to virus	0.0298436809913163
GO:0030097	hemopoiesis	0.0469804302644277
GO:0048534	hemopoietic or lymphoid organ development	0.0485232872745847
GO:0002520	immune system development	0.0491439233431777

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	9.16e-22	136
hematopoietic stem cell	5.72e-16	168
angioblastic mesenchymal cell	5.72e-16	168
hematopoietic lineage restricted progenitor cell	1.50e-15	120
nongranular leukocyte	1.81e-14	115
hematopoietic cell	6.11e-14	177
hematopoietic oligopotent progenitor cell	2.62e-13	161
hematopoietic multipotent progenitor cell	2.62e-13	161
myeloid leukocyte	3.79e-11	72
granulocyte monocyte progenitor cell	1.21e-09	67
B cell	2.65e-09	14
lymphoid lineage restricted progenitor cell	9.69e-08	52
macrophage dendritic cell progenitor	1.06e-07	61
lymphocyte	1.92e-07	53
common lymphoid progenitor	1.92e-07	53
myeloid lineage restricted progenitor cell	1.97e-07	66
classical monocyte	5.03e-07	42
CD14-positive, CD16-negative classical monocyte	5.03e-07	42
myeloid cell	6.77e-07	108
common myeloid progenitor	6.77e-07	108
nucleate cell	6.94e-07	55

Uber Anatomy

Ontology term	p-value	n
adult organism	3.03e-61	114
neural tube	1.64e-15	56
neural rod	1.64e-15	56
future spinal cord	1.64e-15	56
neural keel	1.64e-15	56
hematopoietic system	2.22e-14	98
blood island	2.22e-14	98
regional part of nervous system	6.06e-14	53
regional part of brain	6.06e-14	53
hemolymphoid system	5.62e-13	108
regional part of forebrain	1.05e-11	41
forebrain	1.05e-11	41
anterior neural tube	1.05e-11	41
future forebrain	1.05e-11	41
neural plate	1.89e-10	82
presumptive neural plate	1.89e-10	82
brain grey matter	4.73e-10	34
gray matter	4.73e-10	34
telencephalon	4.97e-10	34
neurectoderm	2.19e-09	86
cerebral hemisphere	4.59e-09	32
regional part of telencephalon	5.52e-09	32
brain	6.77e-09	68
future brain	6.77e-09	68
central nervous system	9.57e-09	81
immune system	2.24e-08	93
bone marrow	6.54e-08	76
blood	2.15e-07	15
haemolymphatic fluid	2.15e-07	15
organism substance	2.15e-07	15
nervous system	3.28e-07	89
neural nucleus	3.33e-07	9
nucleus of brain	3.33e-07	9

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.