Evidence for additive and synergistic action of mammalian enhancers during cell fate determination
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- dc.contributor.author Choi, Jinmi
- dc.contributor.author Lysakovskaia, Kseniia
- dc.contributor.author Sitk, Gregoire
- dc.contributor.author Demel, Carina
- dc.contributor.author Söding, Johannes
- dc.contributor.author Tian, Tian V.
- dc.contributor.author Graf, T. (Thomas)
- dc.contributor.author Cramer, Patrick
- dc.date.accessioned 2021-05-19T11:24:41Z
- dc.date.available 2021-05-19T11:24:41Z
- dc.date.issued 2021
- dc.description.abstract Enhancer activity drives cell differentiation and cell fate determination, but it remains unclear how enhancers cooperate during these processes. Here we investigate enhancer cooperation during transdifferentiation of human leukemia B-cells to macrophages. Putative enhancers are established by binding of the pioneer factor C/EBPα followed by chromatin opening and enhancer RNA (eRNA) synthesis from H3K4-monomethylated regions. Using eRNA synthesis as a proxy for enhancer activity, we find that most putative enhancers cooperate in an additive way to regulate transcription of assigned target genes. However, transcription from 136 target genes depends exponentially on the summed activity of its putative paired enhancers, indicating that these enhancers cooperate synergistically. The target genes are cell type-specific, suggesting that enhancer synergy can contribute to cell fate determination. Enhancer synergy appears to depend on cell type-specific transcription factors, and such interacting enhancers are not predicted from occupancy or accessibility data that are used to detect superenhancers.
- dc.description.sponsorship Fuinding: Max-Planck-Gesellschaft (Open-access funding), Deutsche Forschungsgemeinschaft (SFB860), Deutsche Forschungsgemeinschaft (SPP1935), Deutsche Forschungsgemeinschaft (SPP2191), European Research Council (693023)
- dc.format.mimetype application/pdf
- dc.identifier.citation Choi J, Lysakovskaia K, Stik G, Demel C, Söding J, Tian TV et al. Evidence for additive and synergistic action of mammalian enhancers during cell fate determination. Elife. 2021 Mar 26;10:e65381. DOI: 10.7554/eLife.65381
- dc.identifier.doi http://dx.doi.org/10.7554/eLife.65381
- dc.identifier.issn 2050-084X
- dc.identifier.uri http://hdl.handle.net/10230/47610
- dc.language.iso eng
- dc.publisher eLife Sciences Publications
- dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/693023
- dc.rights © Choi et al. This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri https://creativecommons.org/licenses/by/4.0/
- dc.subject.other Genètica
- dc.subject.other Leucèmia
- dc.subject.other Biologia computacional
- dc.title Evidence for additive and synergistic action of mammalian enhancers during cell fate determination
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion