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List of works by Dirk Schübeler

A chromatin-modifying function of JNK during stem cell differentiation ⬇️

scientific article published on December 18, 2011

A complex chromatin landscape revealed by patterns of nuclease sensitivity and histone modification within the mouse beta-globin locus

scientific article

A genome-scale map of DNA methylation turnover identifies site-specific dependencies of DNMT and TET activity

scientific article published on 29 May 2020

Accessibility of the Drosophila genome discriminates PcG repression, H4K16 acetylation and replication timing

scientific article published on 20 June 2010

Aging-Dependent Demethylation of Regulatory Elements Correlates with Chromatin State and Improved β Cell Function

scientific article published on 26 August 2015

Author Correction: H3K64 trimethylation marks heterochromatin and is dynamically remodeled during developmental reprogramming

scientific article published on 01 August 2018

BLUEPRINT to decode the epigenetic signature written in blood.

scientific article

Binding of high mobility group A proteins to the mammalian genome occurs as a function of AT-content

scientific article published on 21 December 2017

CG dinucleotides enhance promoter activity independent of DNA methylation

scientific article published on 01 February 2019

Cell cycle-resolved chromatin proteomics reveals the extent of mitotic preservation of the genomic regulatory landscape

scientific article published in Nature Communications

ChIPs of the beta-globin locus: unraveling gene regulation within an active domain

scientific article

Characterizing light-regulated retinal microRNAs reveals rapid turnover as a common property of neuronal microRNAs

scientific article published in May 2010

Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels

scientific article

Chromatin state marks cell-type- and gender-specific replication of the Drosophila genome

scientific article published on March 2009

Chromatin: sub out the replacement

scientific article published on July 2009

Cis-regulatory landscapes of four cell types of the retina

scientific article published on 20 October 2017

Corrigendum: DNA-binding factors shape the mouse methylome at distal regulatory regions

scientific article published in Nature

DNA damage detection in nucleosomes involves DNA register shifting

scientific article published on 29 May 2019

DNA methylation density influences the stability of an epigenetic imprint and Dnmt3a/b-independent de novo methylation.

scientific article published on November 2002

DNA methylation in ES cells requires the lysine methyltransferase G9a but not its catalytic activity

scientific article published on 25 September 2008

DNA methylation is required for the control of stem cell differentiation in the small intestine

scientific article published on March 2014

DNA replication-timing analysis of human chromosome 22 at high resolution and different developmental states

scientific article

DNA sequence explains seemingly disordered methylation levels in partially methylated domains of Mammalian genomes.

scientific article

DNA-binding factors shape the mouse methylome at distal regulatory regions

scientific article published on 14 December 2011

Determinants and dynamics of genome accessibility

scientific article published on 12 July 2011

Dynamic DNA methylation orchestrates cardiomyocyte development, maturation and disease.

scientific article

Epigenomics: mapping the methylome

scientific article

Evidence for Converging DNA Methylation Pathways in Placenta and Cancer

scientific article

Gene regulation and priming by topoisomerase IIα in embryonic stem cells

scientific article published in January 2013

Genomation: a toolkit to summarize, annotate and visualize genomic intervals

scientific article published on 21 November 2014

Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing

scientific article published on 30 September 2002

Genome-wide Single-Molecule Footprinting Reveals High RNA Polymerase II Turnover at Paused Promoters.

scientific article published on 19 July 2017

Genomic Prevalence of Heterochromatic H3K9me2 and Transcription Do Not Discriminate Pluripotent from Terminally Differentiated Cells ⬇️

scientific article published on June 2, 2011

Genomic patterns and context specific interpretation of DNA methylation

scientific article published on 07 March 2014

Genomic patterns of DNA methylation: targets and function of an epigenetic mark

scientific article published on 26 April 2007

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation

scientific article

H3K64 trimethylation marks heterochromatin and is dynamically remodeled during developmental reprogramming.

scientific article

Heterochromatin protein 1 (HP1) modulates replication timing of the Drosophila genome

scientific article

High-throughput engineering of a mammalian genome reveals building principles of methylation states at CG rich regions

scientific article

Identification of Dlk1-Dio3 imprinted gene cluster noncoding RNAs as novel candidate biomarkers for liver tumor promotion

scientific article

Identification of active regulatory regions from DNA methylation data ⬇️

scientific article published on July 4, 2013

Identification of genetic elements that autonomously determine DNA methylation states

scientific article published on 2 October 2011

Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors.

scientific article

Localized H3K36 methylation states define histone H4K16 acetylation during transcriptional elongation in Drosophila

scientific article

Mammalian ISWI and SWI/SNF selectively mediate binding of distinct transcription factors

scientific article published on 17 April 2019

Mechanisms of OCT4-SOX2 motif readout on nucleosomes

scientific article published on 23 April 2020

Methylated DNA immunoprecipitation (MeDIP).

scientific article

Methylation-dependent and -independent genomic targeting principles of the MBD protein family.

scientific article published in April 2013

Modeling of epigenome dynamics identifies transcription factors that mediate Polycomb targeting

scientific article

Molecular Co-occupancy Identifies Transcription Factor Binding Cooperativity In Vivo

scientific article published on 01 December 2020

Molecular determinants of nucleosome retention at CpG-rich sequences in mouse spermatozoa

scientific article published on 16 June 2013

Multidimensional pooled shRNA screens in human THP-1 cells identify candidate modulators of macrophage polarization

scientific article

New insights into the biology and origin of mature aggressive B-cell lymphomas by combined epigenomic, genomic, and transcriptional profiling

scientific article

Non-genotoxic carcinogen exposure induces defined changes in the 5-hydroxymethylome

scientific article (publication date: 3 October 2012)

Non-mendelian Inheritance in Mammals Is Highly Constrained

scientific article published on 01 November 2018

PAX8 and MECOM are interaction partners driving ovarian cancer

scientific article

PcG proteins, DNA methylation, and gene repression by chromatin looping.

scientific article

Phenobarbital mediates an epigenetic switch at the constitutive androstane receptor (CAR) target gene Cyp2b10 in the liver of B6C3F1 mice

scientific article (publication date: 2011)

Pioneering Activity of the C-Terminal Domain of EBF1 Shapes the Chromatin Landscape for B Cell Programming

scientific article published on 01 March 2016

Protein complex interactor analysis and differential activity of KDM3 subfamily members towards H3K9 methylation

scientific article

Publisher Correction: DNA damage detection in nucleosomes involves DNA register shifting

scientific article published on 01 July 2019

RNA polymerase II: just stopping by

scientific article published on 01 July 2007

Repressive and active histone methylation mark distinct promoters in human and mouse spermatozoa

scientific article published on 16 May 2010

Short sequences can efficiently recruit histone H3 lysine 27 trimethylation in the absence of enhancer activity and DNA methylation

scientific article

Sox4 is a master regulator of epithelial-mesenchymal transition by controlling Ezh2 expression and epigenetic reprogramming

scientific article published on June 2013

Target genes of Topoisomerase IIβ regulate neuronal survival and are defined by their chromatin state

scientific article published on 2 April 2012

Targeting neuronal and glial cell types with synthetic promoter AAVs in mice, non-human primates and humans

scientific article published on 08 July 2019

Targets and dynamics of promoter DNA methylation during early mouse development ⬇️

scientific article published on November 7, 2010

The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote

scientific article published in June 2004

Tracking the evolution of cancer methylomes

scientific article published in November 2012

Transcription factor occupancy can mediate active turnover of DNA methylation at regulatory regions.

scientific article

Transcription-coupled methylation of histone H3 at lysine 36 regulates dosage compensation by enhancing recruitment of the MSL complex in Drosophila melanogaster

scientific article published on 17 March 2008

Variant histone H3.3 is deposited at sites of nucleosomal displacement throughout transcribed genes while active histone modifications show a promoter-proximal bias

scientific article

YAP1 Exerts Its Transcriptional Control via TEAD-Mediated Activation of Enhancers

scientific article published on 21 August 2015

monaLisa: an R/Bioconductor package for identifying regulatory motifs

scientific article published in 2022

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