Ground state conditions induce rapid reorganization of core pluripotency factor binding before global epigenetic reprogramming

le Galonska, Christina, Ziller, Michael J., Karnik, Rahul, Meissner, Alexander
Foilsithe in Cell Stem Cell (2015)

Coverage recommendations for methylation analysis by whole genome bisulfite sequencing

le Ziller, Michael J., Hansen, Kasper D., Meissner, Alexander, Aryee, Martin J.
Foilsithe in Nat Methods (2014)

Targeted bisulfite sequencing of the dynamic DNA methylome

le Ziller, Michael J., Stamenova, Elena K., Gu, Hongcang, Gnirke, Andreas, Meissner, Alexander
Foilsithe in Epigenetics Chromatin (2016)

Transcription factor binding dynamics during human ESC differentiation

le Tsankov, Alexander M., Gu, Hongcang, Akopian, Veronika, Ziller, Michael J., Donaghey, Julie, Amit, Ido, Gnirke, Andreas, Meissner, Alexander
Foilsithe in Nature (2015)

Single-Cell RNA-Sequencing-Based CRISPRi Screening Resolves Molecular Drivers of Early Human Endoderm Development

le Genga, Ryan M.J., Kernfeld, Eric M., Parsi, Krishna M., Parsons, Teagan J., Ziller, Michael J., Maehr, René
Foilsithe in Cell Rep (2019)

Modeling metabolic networks in C. glutamicum: a comparison of rate laws in combination with various parameter optimization strategies

le Dräger, Andreas, Kronfeld, Marcel, Ziller, Michael J, Supper, Jochen, Planatscher, Hannes, Magnus, Jørgen B, Oldiges, Marco, Kohlbacher, Oliver, Zell, Andreas
Foilsithe 2009

The systems biology simulation core algorithm

le Keller, Roland, Dörr, Alexander, Tabira, Akito, Funahashi, Akira, Ziller, Michael J, Adams, Richard, Rodriguez, Nicolas, Novère, Nicolas Le, Hiroi, Noriko, Planatscher, Hannes, Zell, Andreas, Dräger, Andreas
Foilsithe 2013

Genomic Distribution and Inter-Sample Variation of Non-CpG Methylation across Human Cell Types

le Ziller, Michael J., Müller, Fabian, Liao, Jing, Zhang, Yingying, Gu, Hongcang, Bock, Christoph, Boyle, Patrick, Epstein, Charles B., Bernstein, Bradley E., Lengauer, Thomas, Gnirke, Andreas, Meissner, Alexander
Foilsithe 2011

Analysing human neural stem cell ontogeny by consecutive isolation of Notch active neural progenitors

le Edri, Reuven, Yaffe, Yakey, Ziller, Michael J., Mutukula, Naresh, Volkman, Rotem, David, Eyal, Jacob-Hirsch, Jasmine, Malcov, Hagar, Levy, Carmit, Rechavi, Gideon, Gat-Viks, Irit, Meissner, Alexander, Elkabetz, Yechiel
Foilsithe in Nat Commun (2015)

Charting a dynamic DNA methylation landscape of the human genome

le Ziller, Michael J., Gu, Hongcang, Müller, Fabian, Donaghey, Julie, Tsai, Linus T.-Y., Kohlbacher, Oliver, De Jager, Phil L., Rosen, Evan D., Bennett, David A., Bernstein, Bradley E., Gnirke, Andreas, Meissner, Alexander
Foilsithe 2013

Information recovery from low coverage whole-genome bisulfite sequencing

le Libertini, Emanuele, Heath, Simon C., Hamoudi, Rifat A., Gut, Marta, Ziller, Michael J., Czyz, Agata, Ruotti, Victor, Stunnenberg, Hendrik G., Frontini, Mattia, Ouwehand, Willem H., Meissner, Alexander, Gut, Ivo G., Beck, Stephan
Foilsithe in Nat Commun (2016)

Genetic and epigenetic variation, but not diet, shape the sperm methylome

le Shea, Jeremy M., Serra, Ryan W., Carone, Benjamin R., Shulha, Hennady P., Kucukural, Alper, Ziller, Michael J., Vallaster, Markus P., Gu, Hongcang, Tapper, Andrew R., Gardner, Paul D., Meissner, Alexander, Garber, Manuel, Rando, Oliver J.
Foilsithe in Dev Cell (2015)

Global delay in nascent strand DNA methylation

le Charlton, Jocelyn, Downing, Timothy L., Smith, Zachary D., Gu, Hongcang, Clement, Kendell, Pop, Ramona, Akopian, Veronika, Klages, Sven, Santos, David P., Tsankov, Alexander M., Timmermann, Bernd, Ziller, Michael J., Kiskinis, Evangelos, Gnirke, Andreas, Meissner, Alexander
Foilsithe in Nat Struct Mol Biol (2018)

Epigenomics and chromatin dynamics

le Akopian, Veronika, Chan, Michelle M, Clement, Kendell, Galonska, Christina, Gifford, Casey A, Lehtola, Elizabeth, Liao, Jing, Samavarchi-Tehrani, Payman, Sindhu, Camille, Smith, Zachary D, Tsankov, Alexander M, Webster, Jamie, Zhang, Yingying, Ziller, Michael J, Meissner, Alexander
Foilsithe 2012

Epigenetic Memory Underlies Cell-Autonomous Heterogeneous Behavior of Hematopoietic Stem Cells

le Yu, Vionnie W.C., Yusuf, Rushdia Z., Oki, Toshihiko, Wu, Juwell, Saez, Borja, Wang, Xin, Cook, Colleen, Baryawno, Ninib, Ziller, Michael J., Lee, Eunjung, Gu, Hongcang, Meissner, Alexander, Lin, Charles P., Kharchenko, Peter V., Scadden, David T.
Foilsithe in Cell (2017)

Genome-wide tracking of dCas9-methyltransferase footprints

le Galonska, Christina, Charlton, Jocelyn, Mattei, Alexandra L., Donaghey, Julie, Clement, Kendell, Gu, Hongcang, Mohammad, Arman W., Stamenova, Elena K., Cacchiarelli, Davide, Klages, Sven, Timmermann, Bernd, Cantz, Tobias, Schöler, Hans R., Gnirke, Andreas, Ziller, Michael J., Meissner, Alexander
Foilsithe in Nat Commun (2018)

Genetic determinants and epigenetic effects of pioneer factor occupancy

le Donaghey, Julie, Thakurela, Sudhir, Charlton, Jocelyn, Chen, Jennifer, Smith, Zachary D., Gu, Hongcang, Pop, Ramona, Clement, Kendell, Stamenova, Elena, Karnik, Rahul, Kelley, David R., Gifford, Casey A., Cacchiarelli, Davide, Rinn, John L., Gnirke, Andreas, Ziller, Michael J., Meissner, Alexander
Foilsithe in Nat Genet (2018)

Dissecting the Functional Consequences of de Novo DNA Methylation Dynamics in Human Motor Neuron Differentiation and Physiology

le Ziller, Michael J., Ortega, Juan A., Quinlan, Katharina A., Santos, David P., Gu, Hongcang, Martin, Eric J., Galonska, Christina, Pop, Ramona, Maidl, Susanne, Di Pardo, Alba, Huang, Mei, Meltzer, Herbert Y., Gnirke, Andreas, Heckman, CJ, Meissner, Alexander, Kiskinis, Evangelos
Foilsithe in Cell Stem Cell (2018)

A stably self-renewing adult blood-derived induced neural stem cell exhibiting patternability and epigenetic rejuvenation

le Sheng, Chao, Jungverdorben, Johannes, Wiethoff, Hendrik, Lin, Qiong, Flitsch, Lea J., Eckert, Daniela, Hebisch, Matthias, Fischer, Julia, Kesavan, Jaideep, Weykopf, Beatrice, Schneider, Linda, Holtkamp, Dominik, Beck, Heinz, Till, Andreas, Wüllner, Ullrich, Ziller, Michael J., Wagner, Wolfgang, Peitz, Michael, Brüstle, Oliver
Foilsithe in Nat Commun (2018)

Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells

le Liao, Jing, Karnik, Rahul, Gu, Hongcang, Ziller, Michael J., Clement, Kendell, Tsankov, Alexander M., Akopian, Veronika, Gifford, Casey A., Donaghey, Julie, Galonska, Christina, Pop, Ramona, Reyon, Deepak, Tsai, Shengdar Q., Mallard, William, Joung, J. Keith, Rinn, John L., Gnirke, Andreas, Meissner, Alexander
Foilsithe in Nat Genet (2015)