Publications of Helene Kretzmer

Hetzel, S.; Mattei, A. L.; Kretzmer, H.; Qu, C.; Chen, X.; Fan, Y.; Wu, G.; Roberts, K. G.; Luger, S.; Litzow, M. et al.; Rowe, J.; Paietta, E.; Stock, W.; Mardis, E. R.; Wilson, R. K.; Downing, J. R.; Mullighan, C. G.; Meissner, A.: Acute lymphoblastic leukemia displays a distinct highly methylated genome. Nature Cancer 2022 (2022)

Pour, M.; Sampath Kumar, A.; Farag, N.; Bolondi, A.; Kretzmer, H.; Walther, M.; Wittler, L.; Meissner, A.; Nachman, I.: Emergence and patterning dynamics of mouse-definitive endoderm. iScience 25 (1), (1):103556 (2022)

Andergassen, D.; Smith, Z. D.; Kretzmer, H.; Rinn, J. L.; Meissner, A.: Diverse epigenetic mechanisms maintain parental imprints within the embryonic and extraembryonic lineages. Developmental Cell 56 (21), e4, pp. 2995 - 3005 (2021)

Hetzel, S.; Gießelmann, P.; Reinert, K.; Meissner, A.; Kretzmer, H.: RLM: Fast and simplified extraction of Read-Level Methylation metrics from bisulfite sequencing data. Bioinformatics 37 (21), pp. 3934 - 3935 (2021)

Wu, H.-J.; Landshammer, A.; Stamenova, E. K.; Bolondi, A.; Kretzmer, H.; Meissner, A.; Michor, F.: Topological isolation of developmental regulators in mammalian genomes. Nature Communications 12, 4897 (2021)

Haggerty, C.; Kretzmer, H.; Riemenschneider, C.; Sampath Kumar, A.; Mattei, A. L.; Bailly, N.; Gottfreund, J.; Giesselmann, P.; Weigert, R.; Brändl, B. et al.; Giehr, P.; Buschow, R.; Galonska, C.; von Meyenn, F.; Pappalardi, M. B.; McCabe, M. T.; Wittler, L.; Giesecke-Thiel, C.; Mielke, T.; Meierhofer, D.; Timmermann, B.; Müller, F.-J.; Walter, J.; Meissner, A.: Dnmt1 has de novo activity targeted to transposable elements. Nature Structural and Molecular Biology 2021 (2021)

Bolondi, A.; Haut, L.; Gassaloglu, S. I.; Burton, P.; Kretzmer, H.; Buschow, R.; Meissner, A.; Herrmann, B. G.; Veenvliet, J. V.: Generation of Mouse Pluripotent Stem Cell-derived Trunk-like Structures: An in vitro Model of Post-implantation Embryogenesis. Bio-protocol 11 (11), e4042 (2021)

Hübschmann, D.; Kleinheinz, K.; Wagener, R.; Bernhart, S. H.; López, C.; Toprak, U. H.; Sungalee, S.; Ishaque, N.; Kretzmer, H.; Kreuz, M. et al.; Waszak, S. M.; Paramasivam, N.; Ammerpohl, O.; Aukema, S. M.; Beekman, R.; Bergmann, A. K.; Bieg, M.; Binder, H.; Borkhardt, A.; Borst, C.; Brors, B.; Bruns, P.; de Santa Pau, E. C.; Claviez, A.; Doose, G.; Haake, A.; Karsch, D.; Haas, S.; Hansmann, M.-L.; Hoell, J. I.; Hovestadt, V.; Huang, B.; Hummel, M.; Jäger-Schmidt, C.; Kerssemakers, J. N. A.; Korbel, J. O.; Kube, D.; Lawerenz, C.; Lenze, D.; Martens, J. H. A.; Ott, G.; Radlwimmer, B.; Reisinger, E.; Richter, J.; Rico, D.; Rosenstiel, P.; Rosenwald, A.; Schillhabel, M.; Stilgenbauer, S.; Stadler, P. F.; Martín-Subero, J. I.; Szczepanowski, M.; Warsow, G.; Weniger, M. A.; Zapatka, M.; Valencia, A.; Stunnenberg, H. G.; Lichter, P.; Möller, P.; Loeffler, M.; Eils, R.; Klapper, W.; Hoffmann, S.; Trümper, L.; ICGC MMML-Seq consortium; ICGC DE-Mining consortium; BLUEPRINT consortium; Küppers, R.; Schlesner, M.; Siebert, R.: Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas. Leukemia: the Journal of Normal and Malignant Hemopoiese ; Official Journal of the Leukemia Research Fund U.K. 2021 (2021)

Veenvliet, J. V.; Bolondi, A.; Kretzmer, H.; Haut, L.; Scholze-Wittler, M.; Schifferl, D.; Koch, F.; Guignard, L.; Sampath Kumar, A.; Pustet, M. et al.; Heimann, S.; Buschow, R.; Wittler, L.; Timmermann, B.; Meissner, A.; Herrmann, B. G.: Mouse embryonic stem cells self-organize into trunk-like structures with neural tube and somites. Science 370 (6522), eaba4937 (2020)

Kretzmer, H.; Biran, A.; Purroy, N.; Lemvigh, C. K.; Clement, K.; Gruber, M.; Gu, H.; Rassenti, L.; Mohammad, A. W.; Lesnick, C. et al.; Slager, S. L.; Braggio, E.; Shanafelt, T. D.; Kay, N. E.; Fernandes, S. M.; Brown, J. R.; Wang, L.; Li, S.; Livak, K. J.; Neuberg, D. S.; Klages, S.; Timmermann, B.; Kipps, T. J.; Campo, E.; Gnirke, A.; Wu, C. J.; Meissner, A.: Pre-neoplastic alterations define CLL DNA methylome and persist through disease progression and therapy. Blood Cancer Discovery 2 (1), 2:1–16 (2020)

Riege, K.; Kretzmer, H.; Sahm, A.; McDade, S. S.; Hoffmann, S.; Fischer, M.: Dissecting the DNA binding landscape and gene regulatory network of p63 and p53. eLife 9, e63266 (2020)

Grosswendt, S.; Kretzmer, H.; Smith, Z. D.; Sampath Kumar, A.; Hetzel, S.; Wittler, L.; Klages, S.; Timmermann, B.; Mukherji, S.; Meissner, A.: Epigenetic regulator function through mouse gastrulation. Nature 584, pp. 102 - 108 (2020)

Gießelmann, P.; Brändl, B.; Raimondeau, E.; Bowen, R.; Rohrandt, C.; Tandon, R.; Kretzmer, H.; Assum, G.; Galonska, C.; Siebert, R. et al.; Ammerpohl, O.; Heron, A.; Schneider, S. A.; Ladewig, J.; Koch, P.; Schuldt, B. M.; Graham, J. E.; Meissner, A.; Müller, F.-J.: Analysis of short tandem repeat expansions and their methylation state with nanopore sequencing. bioRxiv (Preprint Server), 480285 (2019)

Giesselmann, P.; Hetzel, S.; Müller, F.-J.; Meissner, A.; Kretzmer, H.: Nanopype: A modular and scalable nanopore data processing pipeline. Bioinformatics 2019, btz461 (2019)

Chan, M. M.; Smith, Z. D.; Grosswendt, S.; Kretzmer, H.; Norman, T. M.; Adamson, B.; Jost, M.; Quinn, J. J.; Yang, D.; Jones, M. G. et al.; Khodaverdian, A.; Nir, Y.; Meissner, A.; Weissman, J. S.: Molecular recording of mammalian Embryogenesis. Nature 570 (7759), pp. 77 - 82 (2019)