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Pipeline Olympics: continuable benchmarking of computational workflows for DNA methylation sequencing data against an experimental gold standard Lin, Yu-Yu; Breuer, Kersten; Weichenhan, Dieter; Lafrenz, Pascal; Sarnataro, Antonella; Wilk, Agata; Chepeleva, Maryna; Mucke, Oliver; Schonung, Maximilian; Petermann, Franziska; Kensche, Philip Reiner; Weiser, Lena; Thommen, Frank; Giacomelli, Gideon; Nordstroem, Karl; Gonzalez-Avalos, Edahi; Merkel, Angelika; Kretzmer, Helene; Fischer, Jonas; Kramer, Stephen; Iskar, Murat; Wolf, Stephan; Buchhalter, Ivo; Esteller, Manel; Lawerenz, Christian; Twardziok, Sven; Zapatka, Marc; Hovestadt, Volker; Schlesner, Matthias; Schulz, Marcel H.; Hoffmann, Steve; Gerhauser, Clarissa; Walter, Jorn; Hartmann, Mark; Lipka, Daniel B.; Assenov, Yassen; Bock, Christoph; Plass, Christoph; Toth, Reka; Lutsik, Pavlo Share Save
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Altered enhancer-promoter interaction leads to MNX1 expression in pediatric acute myeloid leukemia with t(7;12)(q36;p13) Weichenhan, Dieter; Riedel, Anna; Sollier, Etienne; Toprak, Umut H.; Hey, Joschka; Breuer, Kersten; Wierzbinska, Justyna A.; Touzart, Aurore; Lutsik, Pavlo; Baehr, Marion; Ostlund, Anders; Nilsson, Tina; Jacobsson, Susanna; Edler, Marcel; Waraky, Ahmed; Behrens, Yvonne Lisa; Goehring, Gudrun; Schlegelberger, Brigitte; Steinek, Clemens; Harz, Hartmann; Leonhardt, Heinrich; Dolnik, Anna; Reinhardt, Dirk; Bullinger, Lars; Palmqvist, Lars; Lipka, Daniel B.; Plass, Christoph Share Save
ARID1A regulates DNA repair through chromatin organization and its deficiency triggers DNA damage-mediated anti-tumor immune response Bakr, Ali; Della Corte, Giuditta; Veselinov, Olivera; Kelekci, Simge; Chen, Mei-Ju May; Lin, Yu-Yu; Sigismondo, Gianluca; Iacovone, Marika; Cross, Alice; Syed, Rabail; Jeong, Yunhee; Sollier, Etienne; Liu, Chun-Shan; Lutsik, Pavlo; Krijgsveld, Jeroen; Weichenhan, Dieter; Plass, Christoph; Popanda, Odilia; Schmezer, Peter Share Save
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Clinical impact of the genomic landscape and leukemogenic trajectories in non-intensively treated elderly acute myeloid leukemia patients (vol 37, pg 2187, 2023) Jahn, Ekaterina; Saadati, Maral; Fenaux, Pierre; Gobbi, Marco; Roboz, Gail J.; Bullinger, Lars; Lutsik, Pavlo; Riedel, Anna; Plass, Christoph; Jahn, Nikolaus; Walter, Claudia; Holzmann, Karlheinz; Hao, Yong; Naim, Sue; Schreck, Nicholas; Krzykalla, Julia; Benner, Axel; Keer, Harold N.; Azab, Mohammad; Dohner, Konstanze; Dohner, Hartmut Share Save
Clinical impact of the genomic landscape and leukemogenic trajectories in non-intensively treated elderly acute myeloid leukemia patients Jahn, Ekaterina; Saadati, Maral; Fenaux, Pierre; Gobbi, Marco; Roboz, Gail J.; Bullinger, Lars; Lutsik, Pavlo; Riedel, Anna; Plass, Christoph; Jahn, Nikolaus; Walter, Claudia; Holzmann, Karlheinz; Hao, Yong; Naim, Sue; Schreck, Nicholas; Krzykalla, Julia; Benner, Axel; Keer, Harold N.; Azab, Mohammad; Doehner, Konstanze; Doehner, Hartmut Share Save
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The GAPDH redox switch safeguards reductive capacity and enables survival of stressed tumour cells Talwar, Deepti; Miller, Colin G. G.; Grossmann, Justus; Szyrwiel, Lukasz; Schwecke, Torsten; Demichev, Vadim; Mikecin Drazic, Ana-Matea; Mayakonda, Anand; Lutsik, Pavlo; Veith, Carmen; Milsom, Michael D. D.; Mueller-Decker, Karin; Muelleder, Michael; Ralser, Markus; Dick, Tobias P. P. Share Save
Translocation t(6;7) in AML-M4 cell line GDM-1 results in MNX1 activation through enhancer-hijacking Weichenhan, Dieter; Riedel, Anna; Meinen, Charlotte; Basic, Alisa; Toth, Reka; Baehr, Marion; Lutsik, Pavlo; Hey, Joschka; Sollier, Etienne; Toprak, Umut H.; Kelekci, Simge; Lin, Yu-Yu; Hakobyan, Mariam; Touzart, Aurore; Goyal, Ashish; Wierzbinska, Justyna A.; Schlesner, Matthias; Westermann, Frank; Lipka, Daniel B.; Plass, Christoph Share Save
TAL1 activation in T-cell acute lymphoblastic leukemia: a novel oncogenic 3' neo-enhancer Smith, Charlotte; Goyal, Ashish; Weichenhan, Dieter; Allemand, Eric; Mayakonda, Anand; Toprak, Umut; Riedel, Anna; Balducci, Estelle; Manojkumar, Manisha; Pejkovska, Anastasija; Muecke, Oliver; Sollier, Etienne; Bakr, Ali; Breuer, Kersten; Lutsik, Pavlo; Hermine, Olivier; Spicuglia, Salvatore; Asnafi, Vahid; Plass, Christoph; Touzart, Aurore Share Save
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Club cells employ regeneration mechanisms during lung tumorigenesis Chen, Yuanyuan; Toth, Reka; Chocarro, Sara; Weichenhan, Dieter; Hey, Joschka; Lutsik, Pavlo; Sawall, Stefan; Stathopoulos, Georgios T.; Plass, Christoph; Sotillo, Rocio Share Save
Genetic and methylation profiles distinguish benign, malignant and spitzoid melanocytic tumors Zaremba, Anne; Jansen, Philipp; Murali, Rajmohan; Mayakonda, Anand; Riedel, Anna; Philip, Manuel; Rose, Christian; Schaller, Joerg; Mueller, Hansgeorg; Kutzner, Heinz; Moller, Inga; Stadtler, Nadine; Kretz, Julia; Sucker, Antje; Bankfalvi, Agnes; Livingstone, Elisabeth; Zimmer, Lisa; Horn, Susanne; Paschen, Annette; Plass, Christoph; Schadendorf, Dirk; Hadaschik, Eva; Lutsik, Pavlo; Griewank, Klaus Share Save
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A leukemia-protective germline variant mediates chromatin module formation via transcription factor nucleation Llimos, Gerard; Gardeux, Vincent; Koch, Ute; Kribelbauer, Judith F.; Hafner, Antonina; Alpern, Daniel; Pezoldt, Joern; Litovchenko, Maria; Russeil, Julie; Dainese, Riccardo; Moia, Riccardo; Mahmoud, Abdurraouf Mokhtar; Rossi, Davide; Gaidano, Gianluca; Plass, Christoph; Lutsik, Pavlo; Gerhauser, Clarissa; Waszak, Sebastian M.; Boettiger, Alistair; Radtke, Freddy; Deplancke, Bart Share Save
Epigenetic reprogramming of airway macrophages promotes polarization and inflammation in muco-obstructive lung disease Hey, Joschka; Paulsen, Michelle; Toth, Reka; Weichenhan, Dieter; Butz, Simone; Schatterny, Jolanthe; Liebers, Reinhard; Lutsik, Pavlo; Plass, Christoph; Mall, Marcus A. Share Save
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