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SELECTED PUBLICATIONS
Dirk Schübeler


Krebs AR, Imanci D, Hoerner L, Gaidatzis D, Burger L, Schübeler D (2017) Genome-wide single molecule footprinting quantifies steps of transcription initiation and reveals high RNA polymerase II turnover at paused promoters.
Mol Cell 67:411-422.e4

Domcke S*, Bardet AF*, Ginno P, Hartl D, Burger L, Schübeler D (2015) Competition between DNA methylation and transcription factors determines binding of NRF1.
Nature. 528:575-9
* joint 1st authors

Baubec T, Colombo DF, Wirbelauer C, Schmidt J, Burger L, Krebs AR, Akalin A, Schübeler D (2015) Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation.
Nature. 520:243-8

Schübeler D (2015) Function and information content of DNA methylation.
Nature. 517:321-6
Invited insight review

Krebs AR, Dessus-Babus S, Burger L, Schübeler D (2014) High-throughput engineering of a mammalian genome reveals building principles of methylation states at CG rich regions.
Elife. 3:e04094

Jermann P, Hoerner L, Burger L, Schübeler D (2014) Short sequences can efficiently recruit histone H3 lysine 27 trimethylation in the absence of enhancer activity and DNA methylation.
Proc Natl Acad Sci USA. 111:E3415-21

Feldmann A, Ivanek R, Murr R, Gaidatzis D, Burger L, Schübeler D (2013) Transcription factor occupancy mediates active turnover of DNA methylation at regulatory regions.
PLoS Genetics. 9:e1003994

Baubec T, Ivanek R, Lienert F, Schübeler D (2013) Methylation-dependent and -independent genomic targeting principles of the MBD protein family.
Cell. 153:480-492

Arnold P, Schöler A, Pachkov M, Balwierz PJ, Jorgensen H, Stadler MB, van Nimwegen E*, Schübeler D* (2013) Modeling of epigenome dynamics identifies transcription factors that mediate Polycomb targeting.
Genome Res. 23:60-73
* corresponding authors

Schübeler D (2012) Epigenetic islands in a genetic ocean.
Science. 338:756-757

Tippmann SC, Ivanek R, Gaidatzis D, Schöler A, Hoerner L, van Nimwegen E, Stadler PF, Stadler MB, Schübeler D (2012) Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA level.
Mol Syst Biol. 17;8:593

Tiwari VK, Stadler MB*, Wirbelauer C, Paro R, Schübeler D*, Beisel C (2012) A chromatin-modifying function for JNK at NF-Y bound Promoters during Stem Cell Differentiation.
Nature Genet. 44:94-100
* corresponding authors

Stadler MB, Murr R, Burger L, Ivanek R, Lienert F, Schöler A, van Nimwegen E, Wirbelauer C, Oakeley EJ, Gaidatzis D, Tiwari VK, Schübeler D (2011) DNA binding factors shape the mouse methylome at distal regulatory regions.
Nature. 480:490-495

Lienert F, Wirbelauer C, Som I, Dean A, Mohn F, Schübeler D. (2011) Identification of genetic elements that autonomously determine DNA methylation states.
Nat Genet. 43:1091-7

Bell O, Tiwari VK, Thomä NH, Schübeler D (2011) Determinants and dynamics of genome accessibility.
Nat Rev Genet. 12:554-64

Bell O, Schwaiger M, Oakeley EJ, Lienert F, Beisel C, Stadler MB, Schübeler D (2010) DNA accessibility discriminates sites of PcG repression, H4K16 acetylation and replication initiation throughout the genome.
Nat Struct Mol Biol. 17:894-900

Schwaiger M, Stadler M, Bell O, Kohler H, Oakeley E, Schübeler D (2009) Chromatin state marks cell-type and gender specific replication of the Drosophila genome.
Genes Dev. 23:589-601

Mohn F, Weber M, Rebhan M, Roloff TC, Richter J, Stadler MB, Bibel M, Schübeler D (2008) Polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors.
Molecular Cell. 30:755-766

Weber M, Hellmann I, Stadler MB, Ramos L, Pääbo S, Rebhan M, Schübeler D (2007) Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome.
Nature Genet. 39:457-466

Weber M, Davies J, Wittig D, Oakeley E, Haase M, Lam WL, Schübeler D (2005) Chromosome-wide and promoter-specific analyses reveal sites of differential DNA methylation in normal and transformed human cells.
Nature Genet. 37:853-862

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