DNA methylation and histone  jointly repress transposable elements and aberrant intragenic transcripts
J. Choi, D.B. Lyons, M.Y. Kim, J.D. Moore, D. Zilberman, Molecular Cell 77 (2020) 310–323.e7.
LibreCat: https://research-explorer.ista.ac.at/record/9526
DOI: 10.1016/j.molcel.2019.10.011
PMID: 31732458

DNA demethylation by ROa in rice vegetative cells promotes methylation in sperm
M.Y. Kim, A. Ono, S. Scholten, T. Kinoshita, D. Zilberman, T. Okamoto, R.L. Fischer, Proceedings of the National Academy of Sciences 116 (2019) 9652–9657.
LibreCat: https://research-explorer.ista.ac.at/record/9460
DOI: 10.1073/pnas.1821435116
PMID: 31000601

DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development
K.D. Harris, J.P.B. Lloyd, K. Domb, D. Zilberman, A. Zemach, Epigenetics and Chromatin 12 (2019).
LibreCat: https://research-explorer.ista.ac.at/record/9530
DOI: 10.1186/s13072-019-0307-4
PMID: 31601251

FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis
J.M. Frost, M.Y. Kim, G.T. Park, P.-H. Hsieh, M. Nakamura, S.J.H. Lin, H. Yoo, J. Choi, Y. Ikeda, T. Kinoshita, Y. Choi, D. Zilberman, R.L. Fischer, Proceedings of the National Academy of Sciences 115 (2018) 20–29.
LibreCat: https://research-explorer.ista.ac.at/record/9471
DOI: 10.1073/pnas.1713333115
PMID: 29712855

DDM1 and Lsh remodelers allow methylation of DNA wrapped in nucleosomes
D.B. Lyons, D. Zilberman, ELife 6 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/9445
DOI: 10.7554/elife.30674
PMID: 29140247

An evolutionary case for functional gene body methylation in plants and animals
D. Zilberman, Genome Biology 18 (2017).
LibreCat: https://research-explorer.ista.ac.at/record/9506
DOI: 10.1186/s13059-017-1230-2
PMID: 28486944

Mechanism for DNA transposons to generate introns on genomic scales
J.T. Huff, D. Zilberman, S.W. Roy, Nature 538 (2016) 533–536.
LibreCat: https://research-explorer.ista.ac.at/record/9456
DOI: 10.1038/nature20110
PMID: 27760113

DNA demethylation is initiated in the central cells of Arabidopsis and rice
K. Park, M.Y. Kim, M. Vickers, J.-S. Park, Y. Hyun, T. Okamoto, D. Zilberman, R.L. Fischer, X. Feng, Y. Choi, S. Scholten, Proceedings of the National Academy of Sciences 113 (2016) 15138–15143.
LibreCat: https://research-explorer.ista.ac.at/record/9477
DOI: 10.1073/pnas.1619047114
PMID: 27956642

Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues
P.-H. Hsieh, S. He, T. Buttress, H. Gao, M. Couchman, R.L. Fischer, D. Zilberman, X. Feng, Proceedings of the National Academy of Sciences 113 (2016) 15132–15137.
LibreCat: https://research-explorer.ista.ac.at/record/9473
DOI: 10.1073/pnas.1619074114
PMID: 27956643

Evolution and function of genomic imprinting in plants
J.A. Rodrigues, D. Zilberman, Genes and Development 29 (2015) 2517–2531.
LibreCat: https://research-explorer.ista.ac.at/record/9532
DOI: 10.1101/gad.269902.115
PMID: 26680300

DNA methylation as a system of plant genomic immunity
M.Y. Kim, D. Zilberman, Trends in Plant Science 19 (2014) 320–326.
LibreCat: https://research-explorer.ista.ac.at/record/9519
DOI: 10.1016/j.tplants.2014.01.014
PMID: 24618094 

Dnm-independent CG methylation contributes to nucleosome positioning in diverse eukaryotes
J.T. Huff, D. Zilberman, Cell 156 (2014) 1286–1297.
LibreCat: https://research-explorer.ista.ac.at/record/9458
DOI: 10.1016/j.cell.2014.01.029
PMID: 24630728

The AAA-ATPase molecular chaperone Cd/ disassembles sumoylated centromeres, decondenses heterochromatin, and activates ribosomal RNA genes
Z. Mérai, N. Chumak, M. García-Aguilar, T.-F. Hsieh, T. Nishimura, V.K. Schoft, J. Bindics, L. alusarz, S. Arnoux, S. Opravil, K. Mechtler, D. Zilberman, R.L. Fischer, H. Tamaru, Proceedings of the National Academy of Sciences 111 (2014) 16166–16171.
LibreCat: https://research-explorer.ista.ac.at/record/9479
DOI: 10.1073/pnas.1418564111
PMID: 25344531

The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access -containing heterochromatin
A. Zemach, M.Y. Kim, P.-H. Hsieh, D. Coleman-Derr, L. Eshed-Williams, K. Thao, S.L. Harmer, D. Zilberman, Cell 153 (2013) 193–205.
LibreCat: https://research-explorer.ista.ac.at/record/9459
DOI: 10.1016/j.cell.2013.02.033
PMID: 23540698

Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm
J.A. Rodrigues, R. Ruan, T. Nishimura, M.K. Sharma, R. Sharma, P.C. Ronald, R.L. Fischer, D. Zilberman, Proceedings of the National Academy of Sciences 110 (2013) 7934–7939.
LibreCat: https://research-explorer.ista.ac.at/record/9481
DOI: 10.1073/pnas.1306164110
PMID: 23613580

A conversation across generations: Soma-germ cell crosstalk in plants
X. Feng, D. Zilberman, H. Dickinson, Developmental Cell 24 (2013) 215–225.
LibreCat: https://research-explorer.ista.ac.at/record/9520
DOI: 10.1016/j.devcel.2013.01.014
PMID: 23410937

Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes
C.A. Ibarra, X. Feng, V.K. Schoft, T.-F. Hsieh, R. Uzawa, J.A. Rodrigues, A. Zemach, N. Chumak, A. Machlicova, T. Nishimura, D. Rojas, R.L. Fischer, H. Tamaru, D. Zilberman, Science 337 (2012) 1360–1364.
LibreCat: https://research-explorer.ista.ac.at/record/9451
DOI: 10.1126/science.1224839
PMID: 22984074

DNA methylation, A.Z, and the regulation of constitutive expression
D. Coleman-Derr, D. Zilberman, Cold Spring Harbor Symposia on Quantitative Biology 77 (2012) 147–154.
LibreCat: https://research-explorer.ista.ac.at/record/9535
DOI: 10.1101/sqb.2012.77.014944
PMID: 23250988

EM and PR cooperate to repress key regulators of Arabidopsis development
S.Y. Kim, J. Lee, L. Eshed-Williams, D. Zilberman, Z.R. Sung, PLoS Genetics 8 (2012).
LibreCat: https://research-explorer.ista.ac.at/record/9499
DOI: 10.1371/journal.pgen.1002512
PMID: 22457632

Deposition of histone variant A.Z within gene bodies regulates responsive genes
D. Coleman-Derr, D. Zilberman, PLoS Genetics 8 (2012).
LibreCat: https://research-explorer.ista.ac.at/record/9497
DOI: 10.1371/journal.pgen.1002988
PMID: 23071449