Genome-wide profiling of transcribed enhancers during macrophage activation

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dc.contributor.authorSchmeier, Sebastian
dc.date.accessioned2021-10-08T07:04:04Z
dc.date.available2021-10-08T07:04:04Z
dc.date.issued2017
dc.description.abstractBACKGROUND: Macrophages are sentinel cells essential for tissue homeostasis and host defence. Owing to their plasticity, macrophages acquire a range of functional phenotypes in response to microenvironmental stimuli, of which M(IFN-γ) and M(IL-4/IL-13) are well known for their opposing pro- and anti-inflammatory roles. Enhancers have emerged as regulatory DNA elements crucial for transcriptional activation of gene expression. RESULTS: Using cap analysis of gene expression and epigenetic data, we identify on large-scale transcribed enhancers in bone marrow-derived mouse macrophages, their time kinetics, and target protein-coding genes. We observe an increase in target gene expression, concomitant with increasing numbers of associated enhancers, and find that genes associated with many enhancers show a shift towards stronger enrichment for macrophage-specific biological processes. We infer enhancers that drive transcriptional responses of genes upon M(IFN-γ) and M(IL-4/IL-13) macrophage activation and demonstrate stimuli specificity of regulatory associations. Finally, we show that enhancer regions are enriched for binding sites of inflammation-related transcription factors, suggesting a link between stimuli response and enhancer transcriptional control. CONCLUSIONS: Our study provides new insights into genome-wide enhancer-mediated transcriptional control of macrophage genes, including those implicated in macrophage activation, and offers a detailed genome-wide catalogue of transcribed enhancers in bone marrow-derived mouse macrophages.
dc.identifier.apacitationSchmeier, S. (2017). Genome-wide profiling of transcribed enhancers during macrophage activation. <i>Epigenetics & Chromatin</i>, 10(1), 174 - 177. http://hdl.handle.net/11427/34418en_ZA
dc.identifier.chicagocitationSchmeier, Sebastian "Genome-wide profiling of transcribed enhancers during macrophage activation." <i>Epigenetics & Chromatin</i> 10, 1. (2017): 174 - 177. http://hdl.handle.net/11427/34418en_ZA
dc.identifier.citationSchmeier, S. 2017. Genome-wide profiling of transcribed enhancers during macrophage activation. <i>Epigenetics & Chromatin.</i> 10(1):174 - 177. http://hdl.handle.net/11427/34418en_ZA
dc.identifier.issn1756-8935
dc.identifier.ris TY - Journal Article AU - Schmeier, Sebastian AB - BACKGROUND: Macrophages are sentinel cells essential for tissue homeostasis and host defence. Owing to their plasticity, macrophages acquire a range of functional phenotypes in response to microenvironmental stimuli, of which M(IFN-γ) and M(IL-4/IL-13) are well known for their opposing pro- and anti-inflammatory roles. Enhancers have emerged as regulatory DNA elements crucial for transcriptional activation of gene expression. RESULTS: Using cap analysis of gene expression and epigenetic data, we identify on large-scale transcribed enhancers in bone marrow-derived mouse macrophages, their time kinetics, and target protein-coding genes. We observe an increase in target gene expression, concomitant with increasing numbers of associated enhancers, and find that genes associated with many enhancers show a shift towards stronger enrichment for macrophage-specific biological processes. We infer enhancers that drive transcriptional responses of genes upon M(IFN-γ) and M(IL-4/IL-13) macrophage activation and demonstrate stimuli specificity of regulatory associations. Finally, we show that enhancer regions are enriched for binding sites of inflammation-related transcription factors, suggesting a link between stimuli response and enhancer transcriptional control. CONCLUSIONS: Our study provides new insights into genome-wide enhancer-mediated transcriptional control of macrophage genes, including those implicated in macrophage activation, and offers a detailed genome-wide catalogue of transcribed enhancers in bone marrow-derived mouse macrophages. DA - 2017 DB - OpenUCT DP - University of Cape Town IS - 1 J1 - Epigenetics & Chromatin LK - https://open.uct.ac.za PY - 2017 SM - 1756-8935 T1 - Genome-wide profiling of transcribed enhancers during macrophage activation TI - Genome-wide profiling of transcribed enhancers during macrophage activation UR - http://hdl.handle.net/11427/34418 ER - en_ZA
dc.identifier.urihttp://hdl.handle.net/11427/34418
dc.identifier.vancouvercitationSchmeier S. Genome-wide profiling of transcribed enhancers during macrophage activation. Epigenetics & Chromatin. 2017;10(1):174 - 177. http://hdl.handle.net/11427/34418.en_ZA
dc.language.isoeng
dc.publisher.departmentDivision of Immunology
dc.publisher.facultyFaculty of Health Sciences
dc.sourceEpigenetics & Chromatin
dc.source.journalissue1
dc.source.journalvolume10
dc.source.pagination174 - 177
dc.source.urihttps://dx.doi.org/10.1186/s13072-017-0158-9
dc.subject.otherTranscriptional enhancers
dc.subject.othereRNA
dc.subject.otherTranscriptional regulation
dc.subject.otherMacrophage activation
dc.titleGenome-wide profiling of transcribed enhancers during macrophage activation
dc.typeJournal Article
uct.type.publicationResearch
uct.type.resourceJournal Article
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