Coexpression cluster:C832

Full id: C832_Neutrophils_CD14_Preadipocyte_Olfactory_tenocyte_mixed_Adipocyte

Phase1 CAGE Peaks

Hg19::chr14:62187163..62187261,+	p@chr14:62187163..62187261 +
Hg19::chr14:62188445..62188464,+	p@chr14:62188445..62188464 +
Hg19::chr14:62193465..62193490,+	p7@HIF1A
Hg19::chr14:62200863..62200874,+	p2@ENST00000555937
Hg19::chr14:62200903..62200934,+	p1@ENST00000555937
Hg19::chr14:62203595..62203676,+	p4@HIF1A
Hg19::chr14:62203749..62203798,+	p5@HIF1A
Hg19::chr14:62204889..62204963,+	p@chr14:62204889..62204963 +
Hg19::chr14:62205037..62205056,+	p@chr14:62205037..62205056 +
Hg19::chr14:62207483..62207506,+	p@chr14:62207483..62207506 +

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:0033483	gas homeostasis	0.00220770045920169
GO:0032906	transforming growth factor-beta2 production	0.00220770045920169
GO:0032364	oxygen homeostasis	0.00220770045920169
GO:0032909	regulation of transforming growth factor-beta2 production	0.00220770045920169
GO:0035035	histone acetyltransferase binding	0.00220770045920169
GO:0003705	RNA polymerase II transcription factor activity, enhancer binding	0.00993465206640763
GO:0001817	regulation of cytokine production	0.0129308169753242
GO:0001666	response to hypoxia	0.0132462027552102
GO:0046982	protein heterodimerization activity	0.0249470151889792
GO:0001816	cytokine production	0.0249470151889792
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.0278973058026396
GO:0005667	transcription factor complex	0.0374082577809176
GO:0045893	positive regulation of transcription, DNA-dependent	0.0374082577809176
GO:0003702	RNA polymerase II transcription factor activity	0.0374082577809176
GO:0045941	positive regulation of transcription	0.0374082577809176
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0374082577809176
GO:0048878	chemical homeostasis	0.0374082577809176
GO:0019899	enzyme binding	0.0374082577809176
GO:0031325	positive regulation of cellular metabolic process	0.040400918403391
GO:0046983	protein dimerization activity	0.040400918403391
GO:0009893	positive regulation of metabolic process	0.0411052799784697
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0424480588291962
GO:0044451	nucleoplasm part	0.0433861133721377
GO:0042592	homeostatic process	0.0441540091840339
GO:0005654	nucleoplasm	0.0458318615330272

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
defensive cell	1.07e-14	48
phagocyte	1.07e-14	48
classical monocyte	1.96e-14	42
CD14-positive, CD16-negative classical monocyte	1.96e-14	42
animal cell	3.54e-13	679
eukaryotic cell	3.54e-13	679
multi fate stem cell	2.69e-12	427
stem cell	3.49e-12	441
somatic stem cell	3.50e-12	433
myeloid leukocyte	6.75e-12	72
stuff accumulating cell	1.14e-11	87
monopoietic cell	1.34e-10	59
monocyte	1.34e-10	59
monoblast	1.34e-10	59
promonocyte	1.34e-10	59
macrophage dendritic cell progenitor	9.53e-10	61
native cell	6.13e-09	722
myeloid lineage restricted progenitor cell	8.66e-09	66
granulocyte monocyte progenitor cell	1.15e-08	67
somatic cell	2.40e-08	588
fibroblast	7.86e-08	76
connective tissue cell	1.89e-07	361
mesenchymal cell	4.68e-07	354

Uber Anatomy

Ontology term	p-value	n
musculoskeletal system	2.45e-11	167
mesoderm	4.39e-10	315
mesoderm-derived structure	4.39e-10	315
presumptive mesoderm	4.39e-10	315
connective tissue	6.66e-08	371
bone marrow	8.62e-08	76
skeletal system	1.99e-07	100
skeletal element	2.08e-07	90

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)
{{{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

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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.