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http://dx.doi.org/10.25673/111388
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DC Element | Wert | Sprache |
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dc.contributor.author | Grau, Jan | - |
dc.contributor.author | Schmidt, Florian | - |
dc.contributor.author | Schulz, Marcel Holger | - |
dc.date.accessioned | 2023-10-26T06:48:58Z | - |
dc.date.available | 2023-10-26T06:48:58Z | - |
dc.date.issued | 2023 | - |
dc.identifier.uri | https://opendata.uni-halle.de//handle/1981185920/113342 | - |
dc.identifier.uri | http://dx.doi.org/10.25673/111388 | - |
dc.description.abstract | Several studies suggested that transcription factor (TF) binding to DNA may be impaired or enhanced by DNA methylation. We present MeDeMo, a toolbox for TF motif analysis that combines information about DNA methylation with models capturing intra-motif dependencies. In a large-scale study using ChIP-seq data for 335 TFs, we identify novel TFs that show a binding behaviour associated with DNA methylation. Overall, we find that the presence of CpG methylation decreases the likelihood of binding for the majority of methylation-associated TFs. For a considerable subset of TFs, we show that intra-motif dependencies are pivotal for accurately modelling the impact of DNA methylation on TF binding. We illustrate that the novel methylation-aware TF binding models allow to predict differential ChIP-seq peaks and improve the genome-wide analysis of TF binding. Our work indicates that simplistic models that neglect the effect of DNA methylation on DNA binding may lead to systematic underperformance for methylation-associated TFs. | eng |
dc.language.iso | eng | - |
dc.rights.uri | https://creativecommons.org/licenses/by-nc/4.0/ | - |
dc.subject.ddc | 576 | - |
dc.title | Widespread effects of DNA methylation and intra-motif dependencies revealed by novel transcription factor binding models | eng |
dc.type | Article | - |
local.versionType | publishedVersion | - |
local.bibliographicCitation.journaltitle | Nucleic acids research | - |
local.bibliographicCitation.volume | 51 | - |
local.bibliographicCitation.issue | 18 | - |
local.bibliographicCitation.pagestart | 1 | - |
local.bibliographicCitation.pageend | 20 | - |
local.bibliographicCitation.publishername | Oxford Univ. Press | - |
local.bibliographicCitation.publisherplace | Oxford | - |
local.bibliographicCitation.doi | 10.1093/nar/gkad693 | - |
local.openaccess | true | - |
dc.identifier.ppn | 1868087328 | - |
cbs.publication.displayform | 2023 | - |
local.bibliographicCitation.year | 2023 | - |
cbs.sru.importDate | 2023-10-26T06:48:30Z | - |
local.bibliographicCitation | Enthalten in Nucleic acids research - Oxford : Oxford Univ. Press, 1974 | - |
local.accessrights.dnb | free | - |
Enthalten in den Sammlungen: | Open Access Publikationen der MLU |
Dateien zu dieser Ressource:
Datei | Beschreibung | Größe | Format | |
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gkad693.pdf | 5.18 MB | Adobe PDF | ![]() Öffnen/Anzeigen |