FULL LIST OF PUBLICATIONS ON PUBMED



SELECTED PUBLICATIONS


Krebs AR, Imanci D, Hoerner L, Gaidatzis D, Burger L, Schübeler D.(2017) Genome-wide Single-Molecule Footprinting Reveals High RNA Polymerase II Turnover at Paused Promoters..
Molecular Cell, 2017 Aug 03. 67, 411-422

Domcke S, Bardet AF, Ginno PA, Hartl D, Burger L , Schübeler D (2015) Competition between DNA methylation and transcription factors determines binding of NRF1..
Nature. 2015 Dec4;528(7583):575-9.

Baubec T, Colombo D, Wirbelauer C, Schmidt J, Burger L, Krebs A, Akalin A, Schübeler D. (2015) Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation..
Nature, 2015 Jan 21. doi: 10.1038/nature14176.

Krebs A, 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, 2014 Sep 26;3:e04094. doi: 10.7554/eLife.04094.

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, 2014 Aug 19; 111(33):E3415-21.

Baubec T, Schübeler D (2014) Genomic patterns and context specific interpretation of DNA methylation.
Curr Opin Genet Dev., 2014 Apr; 25:85-92.

Ginno P, Schübeler D (2013) Twisting chromatin in stem cells.
EMBO J. Aug 28, 2013; 32(17): 2304–2306.

Baubec T, Ivánek R, Lienert F, Schübeler D (2013) Methylation-Dependent and -Independent Genomic Targeting Principles of the MBD Protein Family.
Cell, 2013 Apr 11;153(2):480-92.

Arnold P, Schöler A, Pachkov M, Balwierz PJ, Jørgensen H, Stadler MB, van Nimwegen E, Schübeler D (2013) Modeling of epigenome dynamics identifies transcription factors that mediate Polycomb targeting.
Genome Res., Jan;23(1):60-73

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

Krebs A, Schübeler D (2012) Tracking the evolution of cancer methylomes.
Nat Genet., 44, 1173-1177

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., 8:593

Tiwari VK, Burger L, Nikoletopoulou V, Deogracias R, Thakurela S, Wirbelauer C, Kaut J, Terranova R, Hoerner L, Mielke C, Boege F, Murr R, Peters AH, Yves-Alain Barde, Schübeler D (2012) A Genomic targets of Topoisomerase IIbeta regulate neuronal differentiation and survival and are defined by their chromatin state.
PNAS, 109(16):E934-43

Vijay K. Tiwari, Michael B. Stadler*, Christiane Wirbelauer, Renato Paro, Dirk Schübeler* and Christian Beisel (2011) A chromatin-modifying function for JNK at NF-Y bound Promoters during Stem Cell Differentiation.
Nature Genetics, 44, 94-100
(*=corr. author)

Michael B. Stadler, Rabih Murr, Lukas Burger, Robert Ivanek, Florian Lienert, Anne Schöler, Christiane Wirbelauer, Edward J. Oakeley, Dimos Gaidatzis, Vijay K. Tiwari and Dirk Schübeler (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(11):1091-7

Bell O, Tiwari VK, Thomä NH, Schübeler D (2011) Determinants and dynamics of genome accessibility.
Nat Rev Genet. 2011 Jul 12. doi: 10.1038/nrg3017. [Epub ahead of print]

Lienert F., Mohn F., Tiwari, V., Baubec, T., Roloff, T., Gaidatzis, D., Stadler, M. and Schübeler, D (2011) Genomic prevalence of heterochromatic H3K9me2 and transcription do not discriminate pluripotent from terminally differentiated cells.
PLoS Genetics 7(6): e1002090.

Dirk Schübeler (2010) Chromatin in Multicolor.
Cell 143: 183-4

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

Schübeler D (2009) Epigenomics: Methylation matters.
Nature 462:296-297

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

Bell O, Conrad T, Kind J, Wirbelauer C, Akhtar A, Schübeler D (2008) Transcription-coupled methylation of histone H3 at lysine 36 regulates dosage compensation by enhancing recruitment of the MSL complex in Drosophila.
Mol Cell Biol 28: 3401-3409

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

Bell O, Wirbelauer C, Hild M, Scharf AN, Schwaiger M, Macalpine DM, Zilbermann F, van Leeuwen F, Bell SP, Imhof A, Garza D Peters AH, Schübeler D (2007) Localized H3K36 methylation states define histone H4K16 acetylation during transcriptional elongation in Drosophila.
EMBO J 26:4974-4984

Schübeler D (2007) Enhancing genome annotation with chromatin.
Nature Genet 39:284-285

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)

Wirbelauer C, Bell O, Schübeler D (2005) Variant histone H3.3 is deposited at sites of nucleosomal displacement throughout transcribed genes while active histone modifications show a promoter-proximal bias.
Genes Dev (19:1761-1766)

Schübeler D, MacAlpine D, Scalzo D, Wirbelauer C, Kooperberg C, van Leeuwen F, Gottschling D, O'Neill L, Turner B, Delrow J, Bell SP, Groudine M (2004) The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote.
Genes Dev 18:1263-1271

Schübeler D, Scalzo D, Kooperberg C, van Steensel B, Delrow J, Groudine M (2002) Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing.
Nature Genet 32:438-442

Schübeler D, Francastel C, Cimbora DM, Reik A, Martin DI, Groudine M (2000) Nuclear localization and histone acetylation: a pathway for chromatin opening and transcriptional activation of the human beta- globin locus.
Genes Dev 14:940-950

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