Coexpression cluster:C641

Full id: C641_CD14_Neutrophils_Peripheral_Basophils_Whole_Monocytederived_Eosinophils

Phase1 CAGE Peaks

Hg19::chr10:106009594..106009596,+	p@chr10:106009594..106009596 +
Hg19::chr11:6061520..6061539,+	p@chr11:6061520..6061539 +
Hg19::chr17:4641746..4641758,-	p@chr17:4641746..4641758 -
Hg19::chr17:57870810..57870824,+	p@chr17:57870810..57870824 +
Hg19::chr19:52264235..52264246,+	p6@FPR2
Hg19::chr1:153347033..153347045,-	p3@S100A12
Hg19::chr21:39627657..39627671,+	p@chr21:39627657..39627671 +
Hg19::chr21:39627673..39627684,+	p@chr21:39627673..39627684 +
Hg19::chr2:132275749..132275752,+	p@chr2:132275749..132275752 +
Hg19::chr3:194131791..194131795,-	p@chr3:194131791..194131795 -
Hg19::chr6:31238972..31238985,-	p12@HLA-C
Hg19::chr6:41196052..41196063,+	p3@TREML4
Hg19::chr6:41196079..41196088,+	p2@TREML4

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:0050832	defense response to fungus	0.0259961596961002
GO:0009620	response to fungus	0.0259961596961002
GO:0005626	insoluble fraction	0.0259961596961002
GO:0006805	xenobiotic metabolic process	0.0259961596961002
GO:0032393	MHC class I receptor activity	0.0259961596961002
GO:0009410	response to xenobiotic stimulus	0.0259961596961002
GO:0042742	defense response to bacterium	0.048525083909223
GO:0002474	antigen processing and presentation of peptide antigen via MHC class I	0.048525083909223
GO:0048002	antigen processing and presentation of peptide antigen	0.048525083909223
GO:0009617	response to bacterium	0.048525083909223

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
classical monocyte	1.37e-125	42
CD14-positive, CD16-negative classical monocyte	1.37e-125	42
defensive cell	2.97e-109	48
phagocyte	2.97e-109	48
monopoietic cell	2.26e-86	59
monocyte	2.26e-86	59
monoblast	2.26e-86	59
promonocyte	2.26e-86	59
macrophage dendritic cell progenitor	2.03e-83	61
myeloid lineage restricted progenitor cell	8.33e-77	66
granulocyte monocyte progenitor cell	1.34e-75	67
myeloid leukocyte	3.43e-75	72
stuff accumulating cell	6.04e-58	87
myeloid cell	1.32e-48	108
common myeloid progenitor	1.32e-48	108
nongranular leukocyte	3.39e-45	115
leukocyte	2.91e-40	136
hematopoietic lineage restricted progenitor cell	3.61e-40	120
hematopoietic stem cell	1.32e-31	168
angioblastic mesenchymal cell	1.32e-31	168
hematopoietic oligopotent progenitor cell	6.23e-31	161
hematopoietic multipotent progenitor cell	6.23e-31	161
hematopoietic cell	9.95e-30	177
mesenchymal cell	4.40e-12	354
connective tissue cell	9.75e-12	361
motile cell	1.62e-10	386
multi fate stem cell	5.07e-09	427
somatic stem cell	8.16e-09	433
stem cell	1.51e-08	441

Uber Anatomy

Ontology term	p-value	n
bone marrow	3.74e-66	76
bone element	5.43e-61	82
skeletal element	3.63e-55	90
hematopoietic system	7.09e-54	98
blood island	7.09e-54	98
immune system	3.09e-53	93
skeletal system	3.52e-49	100
hemolymphoid system	1.92e-48	108
musculoskeletal system	2.03e-27	167
lateral plate mesoderm	2.42e-23	203
mesoderm	3.16e-14	315
mesoderm-derived structure	3.16e-14	315
presumptive mesoderm	3.16e-14	315
connective tissue	2.89e-11	371
dura mater	4.90e-07	1
future meninx	4.90e-07	1
ectomeninx	4.90e-07	1
future dura mater	4.90e-07	1

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.