Publications

Publications

2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2009 | 2007 | 2004

2024

Sophie Heuer, Ina Burghaus, Maria Gose, Tobias Kessler, Felix Sahm, Philipp Vollmuth, Varun Venkataramani, Dirk Hoffmann, Matthias Schlesner, Miriam Ratliff, Carsten Hopf, Ulrich Herrlinger, Franz Ricklefs, Martin Bendszus, Sandro M. Krieg, Antje Wick, Wolfgang Wick and Frank Winkler. 2024. PerSurge (NOA-30) phase II trial of perampanel treatment around surgery in patients with progressive glioblastoma. DOI: 10.1186/s12885-024-11846-1
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Bianca Grosser, Christian M. Heyer, Johannes Austgen, Eva Sipos, Nic G. Reitsam, Andreas Hauser, Alison VanSchoiack, David Kroeppler, Dmytro Vlasenko, Andreas Probst, Alexander Novotny, Wilko Weichert, Gisela Keller, Matthias Schlesner and Bruno Märkl. 2024. Stroma AReactive Invasion Front Areas (SARIFA) proves prognostic relevance in gastric carcinoma and is based on a tumor–adipocyte interaction indicating an altered immune response. DOI: 10.1007/s10120-023-01436-8
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2023

M. Renner, M. Oleś, N. Paramasivam, A. Schneider, C. E. Heilig, C. Modugno, C. Herremans, A. Mock, D. Lipka, S. Bauer, T. Kindler, C. H. Brandts, U. Keilholz, M. Boerries, B. Kuster, D. Hübschmann, Matthias Schlesner, H. Glimm, R. F. Schlenk and S. Fröhling. 2023. 1936P Targeted therapy of desmoplastic small round cell tumor guided by multilayered molecular profiling [Abstract]. DOI: 10.1016/j.annonc.2023.09.1165
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Sebastian Sommer, Maximilian Schmutz, S. Benedikt, I. Sax, Sebastian Dintner, M. Eberle, A. Langer, Bruno Märkl, S. Hummler, Matthias Schlesner, Boris Kubuschok, Martin Trepel and Rainer Claus. 2023. Assessment of genetic tumor profiles and clonal evolution by liquid biopsy: the Augsburg Longitudinal Plasma Study (ALPS) [Abstract]. DOI: 10.1159/000533576
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Isabel Porth, Daniela Hirsch, Yonca Ceribas, Philip Weidner, Wilko Weichert, Thorsten Oliver Götze, Sven Perner, Kim Luley, Christian Moritz Heyer, Carolina de la Torre, Ralf-Dieter Hofheinz, Sylvie Lorenzen and Timo Gaiser. 2023. Comprehensive biomarker analysis of long-term response to trastuzumab in patients with HER2-positive advanced gastric or gastroesophageal adenocarcinoma. DOI: 10.1016/j.ejca.2023.01.022
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Maximilian Schönung, Mark Hartmann, Stephen Krämer, Sina Stäble, Mariam Hakobyan, Emely Kleinert, Theo Aurich, Defne Cobanoglu, Florian H. Heidel, Stefan Fröhling, Michael D. Milsom, Matthias Schlesner, Pavlo Lutsik and Daniel B. Lipka. 2023. Dynamic DNA methylation reveals novel cis-regulatory elements in mouse hematopoiesis. DOI: 10.1016/j.exphem.2022.11.001
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Peter Simmonds, Evelien M. Adriaenssens, F. Murilo Zerbini, Nicola G. A. Abrescia, Pakorn Aiewsakun, Poliane Alfenas-Zerbini, Yiming Bao, Jakub Barylski, Christian Drosten, Siobain Duffy, W. Paul Duprex, Bas E. Dutilh, Santiago F. Elena, Maria Laura García, Sandra Junglen, Aris Katzourakis, Eugene V. Koonin, Mart Krupovic, Jens H. Kuhn, Amy J. Lambert, Elliot J. Lefkowitz, Małgorzata Łobocka, Cédric Lood, Jennifer Mahony, Jan P. Meier-Kolthoff, Arcady R. Mushegian, Hanna M. Oksanen, Minna M. Poranen, Alejandro Reyes-Muñoz, David L. Robertson, Simon Roux, Luisa Rubino, Sead Sabanadzovic, Stuart Siddell, Tim Skern, Donald B. Smith, Matthew B. Sullivan, Nobuhiro Suzuki, Dann Turner, Koenraad Van Doorslaer, Anne-Mieke Vandamme, Arvind Varsani and Nikos Vasilakis. 2023. Four principles to establish a universal virus taxonomy. DOI: 10.1371/journal.pbio.3001922
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Yasmeen Niazi, Nagarajan Paramasivam, Joanna Blocka, Abhishek Kumar, Stefanie Huhn, Matthias Schlesner, Niels Weinhold, Rolf Sijmons, Mirjam De Jong, Brian Durie, Hartmut Goldschmidt, Kari Hemminki and Asta Försti. 2023. Investigation of rare non-coding variants in familial multiple myeloma. DOI: 10.3390/cells12010096
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Weiyin Zhou, Anja Fischer, Martin D. Ogwang, Wen Luo, Patrick Kerchan, Steven J. Reynolds, Constance N. Tenge, Pamela A. Were, Robert T. Kuremu, Walter N. Wekesa, Nestory Masalu, Esther Kawira, Tobias Kinyera, Isaac Otim, Ismail D. Legason, Hadijah Nabalende, Leona W. Ayers, Kishor Bhatia, James J. Goedert, Mateus H. Gouveia, Nathan Cole, Belynda Hicks, Kristine Jones, Michael Hummel, Mathias Schlesner, George Chagaluka, Nora Mutalima, Eric Borgstein, George N. Liomba, Steve Kamiza, Nyengo Mkandawire, Collins Mitambo, Elizabeth M. Molyneux, Robert Newton, Selina Glaser, Helene Kretzmer, Michelle Manning, Amy Hutchinson, Ann W. Hsing, Yao Tettey, Andrew A. Adjei, Stephen J. Chanock, Reiner Siebert, Meredith Yeager, Ludmila Prokunina-Olsson, Mitchell J. Machiela and Sam M. Mbulaiteye. 2023. Mosaic chromosomal alterations in peripheral blood leukocytes of children in sub-Saharan Africa. DOI: 10.1038/s41467-023-43881-0
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Mark Hartmann, Maximilian Schönung, Jovana Rajak, Joschka Hey, Valentin Maurer, Ling Hai, Sina Staeble, Jens Langstein, Katharina Bauer, Mariam Hakobyan, Laura Jardine, Sheila Bohler, Dominik Vonficht, Abdul-Habib Maag, Dirk Lebrecht, Katrin M. Bernt, Roland Roelz, Tobias Boch, Eleonora Khabirova, Pavlo Lutsik, Simon Haas, Muzlifah Haniffa, Sam Behjati, Jan-Philipp Mallm, Christian Buske, Michael D. Milsom, Stefan Fröhling, Marc-Jan Bonder, Charlotte Niemeyer, Christian Flotho, Christoph Plass, Miriam Erlacher, Matthias Schlesner and Daniel B. Lipka. 2023. OC 34 - Onco-fetal programming drives high-risk juvenile myelomonocytic leukemia, which can be targeted by anti-CD52 treatment [Abstract]. DOI: 10.1016/j.ejcped.2023.100065
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Heike Peterziel, Nora Jamaladdin, Dina ElHarouni, Xenia F. Gerloff, Sonja Herter, Petra Fiesel, Yannick Berker, Mirjam Blattner-Johnson, Kathrin Schramm, Barbara C. Jones, David Reuss, Laura Turunen, Aileen Friedenauer, Tim Holland-Letz, Martin Sill, Lena Weiser, Christopher Previti, Gnanaprakash Balasubramanian, Nicolas U. Gerber, Johannes Gojo, Caroline Hutter, Ingrid Øra, Olli Lohi, Antonis Kattamis, Bram de Wilde, Frank Westermann, Stephan Tippelt, Norbert Graf, Michaela Nathrath, Monika Sparber-Sauer, Astrid Sehested, Christof M. Kramm, Uta Dirksen, Olli Kallioniemi, Stefan M. Pfister, Cornelis M. van Tilburg, David T. W. Jones, Jani Saarela, Vilja Pietiäinen, Natalie Jäger, Matthias Schlesner, Annette Kopp-Schneider, Sina Oppermann, Till Milde, Olaf Witt and Ina Oehme. 2023. OTHR-04. Development of a functional plattform for real-time personalized drug sensitivity profiling of patient-derived 3D fresh tumor tissue cultures in the pediatric precision oncology program INFORM [Abstract]. DOI: 10.1093/neuonc/noad073.286
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M. Hartmann, M. Schonung, J. Rajak, J. Hey, V. Maurer, L. Hai, S. Staeble, J. Langstein, K. Bauer, M. Hakobyan, L. Jardine, S. Bohler, D. Vonficht, A. H. Maag, D. Lebrecht, K. M. Bernt, R. Roelz, T. Boch, E. Khabirova, P. Lutsik, S. Haas, A. M. Hani, S. Behjati, J.-P. Mallm, C. Buske, M. D. Milsom, S. Frohling, M.-J. Bonder, C. Niemeyer, C. Flotho, C. Plass, M. Erlacher, Matthias Schlesner and D. B. Lipka. 2023. Onco-fetal reprogramming in juvenile myelomonocytic leukemia upregulates surface markers which can be exploited as therapeutic targets [Abstract]. DOI: 10.1159/000533576
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Verena Turco, Kira Pfleiderer, Jessica Hunger, Natalie K. Horvat, Kianush Karimian-Jazi, Katharina Schregel, Manuel Fischer, Gianluca Brugnara, Kristine Jähne, Volker Sturm, Yannik Streibel, Duy Nguyen, Sandro Altamura, Dennis A. Agardy, Shreya S. Soni, Abdulrahman Alsasa, Theresa Bunse, Matthias Schlesner, Martina U. Muckenthaler, Ralph Weissleder, Wolfgang Wick, Sabine Heiland, Philipp Vollmuth, Martin Bendszus, Christopher B. Rodell, Michael O. Breckwoldt and Michael Platten. 2023. T cell-independent eradication of experimental glioma by intravenous TLR7/8-agonist-loaded nanoparticles. DOI: 10.1038/s41467-023-36321-6
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Dieter Weichenhan, Anna Riedel, Charlotte Meinen, Alisa Basic, Reka Toth, Marion Bähr, Pavlo Lutsik, Joschka Hey, Etienne Sollier, Umut H. Toprak, Simge Kelekçi, Yu-Yu Lin, Mariam Hakobyan, Aurore Touzart, Ashish Goyal, Justyna A. Wierzbinska, Matthias Schlesner, Frank Westermann, Daniel B. Lipka and Christoph Plass. 2023. Translocation t(6;7) in AML-M4 cell line GDM-1 results in MNX1 activation through enhancer-hijacking. DOI: 10.1038/s41375-023-01865-5
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Enrique Blanco-Carmona, Ashwin Narayanan, Inmaculada Hernandez, Juan C. Nieto, Marc Elosua-Bayes, Xueyuan Sun, Claudia Schmidt, Necmettin Pamir, Koray Özduman, Christel Herold-Mende, Francesca Pagani, Manuela Cominelli, Julian Taranda, Wolfgang Wick, Andreas von Deimling, Pietro Luigi Poliani, Michael Rehli, Matthias Schlesner, Holger Heyn and Şevin Turcan. 2023. Tumor heterogeneity and tumor-microglia interactions in primary and recurrent IDH1-mutant gliomas. DOI: 10.1016/j.xcrm.2023.101249
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2022

Tobias Kessler, Ling Hai, Dirk C. Hoffmann, Henriette Mandelbaum, Ruifan Xie, Jakob Ito, Erik Jung, Sophie Weil, Philipp Sievers, Varun Venkataramani, Daniel Dominguez Azorin, Kathi Ernst, Denise Reibold, Rainer Will, Mario L. Suva, Christel Herold-Mende, Felix Sahm, Frank Winkler, Matthias Schlesner and Wolfgang Wick. 2022. A connectivity signature for glioblastoma [Abstract]. DOI: 10.14791/btrt.2022.10.f-1285
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Mikael Beyene, Philipp A. Toussaint, Scott Thiebes, Matthias Schlesner, Benedikt Brors and Ali Sunyaev. 2022. A scoping review of distributed ledger technology in genomics: thematic analysis and directions for future research. DOI: 10.1093/jamia/ocac077
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David Hausmann, Dirk C. Hoffmann, Varun Venkataramani, Erik Jung, Sandra Horschitz, Svenja K. Tetzlaff, Ammar Jabali, Ling Hai, Tobias Kessler, Daniel D. Azoŕin, Sophie Weil, Alexandros Kourtesakis, Philipp Sievers, Antje Habel, Michael O. Breckwoldt, Matthia A. Karreman, Miriam Ratliff, Julia M. Messmer, Yvonne Yang, Ekin Reyhan, Susann Wendler, Cathrin Löb, Chanté Mayer, Katherine Figarella, Matthias Osswald, Gergely Solecki, Felix Sahm, Olga Garaschuk, Thomas Kuner, Philipp Koch, Matthias Schlesner, Wolfgang Wick and Frank Winkler. 2022. Autonomous rhythmic activity in glioma networks drives brain tumour growth. DOI: 10.1038/s41586-022-05520-4
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Nicola Giesen, Nagarajan Paramasivam, Umut H. Toprak, Daniel Huebschmann, Jing Xu, Sebastian Uhrig, Mehmet Samur, Stella Bähr, Martina Fröhlich, Sadaf S. Mughal, Elias K. Mai, Anna Jauch, Carsten Müller-Tidow, Benedikt Brors, Nikhil Munshi, Hartmut Goldschmidt, Niels Weinhold, Matthias Schlesner and Marc S. Raab. 2022. Comprehensive genomic analysis of refractory multiple myeloma reveals a complex mutational landscape associated with drug resistance and novel therapeutic vulnerabilities. DOI: 10.3324/haematol.2021.279360
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Melinda Czeh, Sina Stäble, Stephen Krämer, Lena Tepe, Sweta Talyan, Joana Carrelha, Yiran Meng, Barbara Heitplatz, Marius Schwabenland, Michael D. Milsom, Christoph Plass, Marco Prinz, Matthias Schlesner, Miguel A. Andrade-Navarro, Claus Nerlov, Sten Eirik W. Jacobsen, Daniel B. Lipka and Frank Rosenbauer. 2022. DNMT1 deficiency impacts on plasmacytoid dendritic cells in homeostasis and autoimmune disease. DOI: 10.4049/jimmunol.2100624
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Marina Laplana, Matthias Bieg, Christian Faltus, Svitlana Melnik, Olga Bogatyrova, Zuguang Gu, Thomas Muley, Michael Meister, Hendrik Dienemann, Esther Herpel, Christopher I. Amos, Matthias Schlesner, Roland Eils, Christoph Plass and Angela Risch. 2022. Differentially methylated regions within lung cancer risk loci are enriched in deregulated enhancers. DOI: 10.1080/15592294.2021.1878723
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Heike Peterziel, Nora Jamaladdin, Dina ElHarouni, Xenia F. Gerloff, Sonja Herter, Petra Fiesel, Yannick Berker, Mirjam Blattner-Johnson, Kathrin Schramm, Barbara C. Jones, David Reuss, Laura Turunen, Aileen Friedenauer, Tim Holland-Letz, Martin Sill, Lena Weiser, Christopher Previti, Gnanaprakash Balasubramanian, Nicolas U. Gerber, Johannes Gojo, Caroline Hutter, Ingrid Øra, Olli Lohi, Antonis Kattamis, Bram de Wilde, Frank Westermann, Stephan Tippelt, Norbert Graf, Michaela Nathrath, Monika Sparber-Sauer, Astrid Sehested, Christof M. Kramm, Uta Dirksen, Olli Kallioniemi, Stefan M. Pfister, Cornelis M. van Tilburg, David T. W. Jones, Jani Saarela, Vilja Pietiäinen, Natalie Jäger, Matthias Schlesner, Annette Kopp-Schneider, Sina Oppermann, Till Milde, Olaf Witt and Ina Oehme. 2022. Drug sensitivity profiling of 3D tumor tissue cultures in the pediatric precision oncology program INFORM. DOI: 10.1038/s41698-022-00335-y
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Paurnima Patil, Umut H. Toprak, Julian Seufert, Till Braun, Stephan H. Bernhart, Laura Wiehle, Annika Müller, Matthias Schlesner, Marco Herling, Peter Lichter, Stephan Stilgenbauer, Reiner Siebert and Marc Zapatka. 2022. Exploration of whole genome and transcriptome sequencing data lacks evidence for oncogenic viral elements to drive the pathogenesis of T-cell prolymphocytic leukemia. DOI: 10.1080/10428194.2022.2116933
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Cristina Lopez, Nikolai Schleussner, Stephan H. Bernhart, Kortine Kleinheinz, Stephanie Sungalee, Henrike L. Sczakiel, Helene Kretzmer, Umut H. Toprak, Selina Glaser, Rabea Wagener, Ole Ammerpohl, Susanne Bens, Maciej Giefing, Juan C. Gonzalez Sanchez, Gordana Apic, Daniel Hubschmann, Martin Janz, Markus Kreuz, Anja Mottok, Judith M. Muller, Julian Seufert, Steve Hoffmann, Jan O. Korbel, Robert B. Russell, Roland Schule, Lorenz Trumper, Wolfram Klapper, Bernhard Radlwimmer, Peter Lichter, Ralf Kuppers, Matthias Schlesner, Stephan Mathas and Reiner Siebert. 2022. Focal structural variants revealed by whole genome sequencing disrupt the histone demethylase KDM4C in B cell lymphomas. DOI: 10.3324/haematol.2021.280005
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Maria del Carmen Montero-Calasanz, Adnan Yaramis, Manfred Rohde, Peter Schumann, Hans-Peter Klenk and Jan P. Meier-Kolthoff. 2022. Genotype–phenotype correlations within the Geodermatophilaceae. DOI: 10.3389/fmicb.2022.975365
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Correction published at: https://doi.org/10.3389/fmicb.2022.1100319

Lizhen Zhu, Beiping Miao, Dagmara Dymerska, Magdalena Kuswik, Elena Bueno-Martínez, Lara Sanoguera-Miralles, Eladio A. Velasco, Nagarajan Paramasivam, Matthias Schlesner, Abhishek Kumar, Ying Yuan, Jan Lubinski, Obul Reddy Bandapalli, Kari Hemminki and Asta Försti. 2022. Germline variants of CYBA and TRPM4 predispose to familial colorectal cancer. DOI: 10.3390/cancers14030670
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Weiyin Zhou, Anja Pfaus, Martin Ogwang, Wen Luo, Patrick Kerchan, Steven Reynolds, Constance N. Tenge, Pamela A. Were, Robert T. Kuremu, Walter N. Wekesa, Nestory Masalu, Esther Kawira, Tobias Kinyera, Isaac Otim, Ismail D. Legason, Hadijah Nabalende, Leona W. Ayers, Kishor Bhatia, James J. Gödert, Nathan Cole, Belynda Hicks, Kristine Jones, Michael Hummel, Matthias Schlesner, George Chagaluka, Nora Mutalima, Eric Borgstein, George N. Liomba, Steve Kamiza, Nyengo Mkandawire, Collins Mitambo, Elizabeth Molyneux, Robert Newton, Selina Glaser, Michelle Manning, Amy Hutchinson, Ann W. Hsing, Yao Tettey, Andrew Anthony Adjei, Stephen J. Chanock, Reiner Siebert, Meredith Yeager, Mitchell Machiela and Sam M. Mbulaiteye. 2022. Increased frequency of mosaic chromosomal alterations in peripheral blood samples of Sub-Saharan African children with endemic Burkitt lymphoma [Abstract]. DOI: 10.1182/blood-2022-169500
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Ruzhica Bogeska, Ana-Matea Mikecin, Paul Kaschutnig, Malak Fawaz, Marleen Büchler-Schäff, Duy Le, Miguel Ganuza, Angelika Vollmer, Stella V. Paffenholz, Noboru Asada, Esther Rodriguez-Correa, Felix Frauhammer, Florian Buettner, Melanie Ball, Julia Knoch, Sina Stäble, Dagmar Walter, Amelie Petri, Martha J. Carreño-Gonzalez, Vinona Wagner, Benedikt Brors, Simon Haas, Daniel B. Lipka, Marieke A.G. Essers, Vivienn Weru, Tim Holland-Letz, Jan-Philipp Mallm, Karsten Rippe, Stephan Krämer, Matthias Schlesner, Shannon McKinney Freeman, Maria Carolina Florian, Katherine Y. King, Paul S. Frenette, Michael A. Rieger and Michael D. Milsom. 2022. Inflammatory exposure drives long-lived impairment of hematopoietic stem cell self-renewal activity and accelerated aging. DOI: 10.1016/j.stem.2022.06.012
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Hamed Alborzinia, Andrés F. Flórez, Sina Kreth, Lena M. Brückner, Umut Yildiz, Moritz Gartlgruber, Dorett I. Odoni, Gernot Poschet, Karolina Garbowicz, Chunxuan Shao, Corinna Klein, Jasmin Meier, Petra Zeisberger, Michal Nadler-Holly, Matthias Ziehm, Franziska Paul, Jürgen Burhenne, Emma Bell, Marjan Shaikhkarami, Roberto Würth, Sabine A. Stainczyk, Elisa M. Wecht, Jochen Kreth, Michael Büttner, Naveed Ishaque, Matthias Schlesner, Barbara Nicke, Carlo Stresemann, María Llamazares-Prada, Jan H. Reiling, Matthias Fischer, Ido Amit, Matthias Selbach, Carl Herrmann, Stefan Wölfl, Kai-Oliver Henrich, Thomas Höfer, Andreas Trumpp and Frank Westermann. 2022. MYCN mediates cysteine addiction and sensitizes neuroblastoma to ferroptosis. DOI: 10.1038/s43018-022-00355-4
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Mark Hartmann, Ling Hai, Joschka Hey, Maximilian Schönung, Valentin Maurer, Jovana Rajak, Sina Stäble, Jens Langstein, Katharina Bauer, Mariam Hakobyan, Laura Jardine, Sheila Bohler, Dominik Vonficht, Abdul-Habib Maag, Dirk Lebrecht, Kathrin M. Bernt, Roland Rölz, Tobias Boch, Eleonora Khabirova, Pavlo Lutsik, Oliver Stegle, Simon Haas, Muzlifah Haniffa, Sam Behjati, Jan-Philipp Mallm, Christian Buske, Stefan Fröhling, Christoph Plass, Charlotte M. Niemeyer, Christian Flotho, Marc Jan Bonder, Miriam Erlacher, Matthias Schlesner and Daniel B. Lipka. 2022. Multi-omics profiling of JMML HSPCs reveals onco-fetal reprogramming and identifies novel prognostic biomarkers and therapeutic targets in high-risk JMML [Abstract]. DOI: 10.1182/blood-2022-162224
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Dina ElHarouni, Heike Peterziel, Kathrin Schramm, Till Milde, Sina Oppermann, Ina Öhme, Olaf Witt, Matthias Schlesner and Natalie Jager. 2022. Multiomics analysis of pediatric solid tumors within the INFORM precision oncology study: from functional drug profiling to biomarker identification [Abstract].
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Hao Li, Jan P. Meier-Kolthoff, Canxin Hu, Zhongjie Wang, Jun Zhu, Wei Zheng, Yun Tian and Feng Guo. 2022. Panoramic insights into microevolution and macroevolution of a Prevotella copri-containing lineage in primate guts. DOI: 10.1016/j.gpb.2021.10.006
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Yannick Berker, Dina ElHarouni, Heike Peterziel, Petra Fiesel, Olaf Witt, Ina Oehme, Matthias Schlesner and Sina Oppermann. 2022. Patient-by-patient deep transfer learning for drug-response profiling using confocal fluorescence microscopy of pediatric patient-derived tumor-cell spheroids. DOI: 10.1109/tmi.2022.3205554
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Corinne Hübers, Ashik Ahmed Abdul Pari, Denise Grieshober, Martin Petkov, Alexander Schmidt, Tatjana Messmer, Christian Moritz Heyer, Sebastian Schölch, Stephanie S. Kapel, Nicolas Gengenbacher, Mahak Singhal, Benjamin Schieb, Claudine Fricke, Rainer Will, Kim Remans, Jochen Sven Utikal, Christoph Reissfelder, Matthias Schlesner, Kairbaan M. Hodivala-Dilke, Sander Kersten, Sergij Goerdt, Hellmut G. Augustin and Moritz Felcht. 2022. Primary tumor–derived systemic nANGPTL4 inhibits metastasis. DOI: 10.1084/jem.20202595
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Areeba Patel, Helin Dogan, Alexander Payne, Elena Krause, Philipp Sievers, Natalie Schoebe, Daniel Schrimpf, Christina Blume, Damian Stichel, Nadine Holmes, Philipp Euskirchen, Jürgen Hench, Stephan Frank, Violaine Rosenstiel-Goidts, Miriam Ratliff, Nima Etminan, Andreas Unterberg, Christoph Dieterich, Christel Herold-Mende, Stefan M. Pfister, Wolfgang Wick, Matthew Loose, Andreas von Deimling, Martin Sill, David T. W. Jones, Matthias Schlesner and Felix Sahm. 2022. Rapid-CNS2: rapid comprehensive adaptive nanopore-sequencing of CNS tumors, a proof-of-concept study. DOI: 10.1007/s00401-022-02415-6
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Jan P. Meier-Kolthoff, Joaquim Sardà Carbasse, Rosa L. Peinado-Olarte and Markus Göker. 2022. TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. DOI: 10.1093/nar/gkab902
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Josefine Radke, Naveed Ishaque, Randi Koll, Zuguang Gu, Elisa Schumann, Lina Sieverling, Sebastian Uhrig, Daniel Hübschmann, Umut H. Toprak, Cristina López, Xavier Pastor Hostench, Simone Borgoni, Dilafruz Juraeva, Fabienne Pritsch, Nagarajan Paramasivam, Gnana Prakash Balasubramanian, Matthias Schlesner, Shashwat Sahay, Marc Weniger, Debora Pehl, Helena Radbruch, Anja Osterloh, Agnieszka Korfel, Martin Misch, Julia Onken, Katharina Faust, Peter Vajkoczy, Dag Moskopp, Yawen Wang, Andreas Jödicke, Lorenz Trümper, Ioannis Anagnostopoulos, Dido Lenze, Ralf Küppers, Michael Hummel, Clemens A. Schmitt, Otmar D. Wiestler, Stephan Wolf, Andreas Unterberg, Roland Eils, Christel Herold-Mende, Benedikt Brors, Reiner Siebert, Stefan Wiemann and Frank L. Heppner. 2022. The genomic and transcriptional landscape of primary central nervous system lymphoma. DOI: 10.1038/s41467-022-30050-y
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Author list includes ICGC MMML-Seq Consortium. For full list of members see publisher website.

Paurnima Patil, Sina Hillebrecht, Emil Chteinberg, Cristina López, Umut H. Toprak, Julian Seufert, Stephan H. Bernhart, Helene Kretzmer, Anke K. Bergmann, Susanne Bens, Josef Högel, Annika Müller, Billy Michael Jebaraj, Alexandra Schrader, Patricia Johansson, Dolors Costa, Matthias Schlesner, Jan Dürig, Marco Herling, Elias Campo, Stephan Stilgenbauer, Laura Wiehle and Reiner Siebert. 2022. T‐cell prolymphocytic leukemia is associated with deregulation of oncogenic microRNAs on transcriptional and epigenetic level. DOI: 10.1002/gcc.23034
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Diamanto Skopelitou, Aayushi Srivastava, Beiping Miao, Abhishek Kumar, Dagmara Dymerska, Nagarajan Paramasivam, Matthias Schlesner, Jan Lubinski, Kari Hemminki, Asta Försti and Obul Reddy Bandapalli. 2022. Whole exome sequencing identifies novel germline variants of SLC15A4 gene as potentially cancer predisposing in familial colorectal cancer. DOI: 10.1007/s00438-022-01896-0
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Alberto J. Martín-Rodríguez and Jan P. Meier-Kolthoff. 2022. Whole genome-based taxonomy of Shewanella and Parashewanella. DOI: 10.1099/ijsem.0.005438
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Beiping Miao, Diamanto Skopelitou, Aayushi Srivastava, Sara Giangiobbe, Dagmara Dymerska, Nagarajan Paramasivam, Abhishek Kumar, Magdalena Kuświk, Wojciech Kluźniak, Katarzyna Paszkowska-Szczur, Matthias Schlesner, Jan Lubinski, Kari Hemminki, Asta Försti and Obul Reddy Bandapalli. 2022. Whole-exome sequencing identifies a novel germline variant in PTK7 gene in familial colorectal cancer. DOI: 10.3390/ijms23031295
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Dina ElHarouni, Yannick Berker, Heike Peterziel, Apurva Gopisetty, Laura Turunen, Sina Kreth, Sabine A. Stainczyk, Ina Oehme, Vilja Pietiäinen, Natalie Jäger, Olaf Witt, Matthias Schlesner and Sina Oppermann. 2022. iTReX: Interactive exploration of mono- and combination therapy dose response profiling data. DOI: 10.1016/j.phrs.2021.105996
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2021

Diamanto Skopelitou, Beiping Miao, Aayushi Srivastava, Abhishek Kumar, Magdalena Kuświk, Dagmara Dymerska, Nagarajan Paramasivam, Matthias Schlesner, Jan Lubiński, Kari Hemminki, Asta Försti and Obul Reddy Bandapalli. 2021. A novel low-risk germline variant in the SH2 domain of the SRC gene affects multiple pathways in familial colorectal cancer. DOI: 10.3390/jpm11040262
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Abhishek Kumar, Nagarajan Paramasivam, Obul Reddy Bandapalli, Matthias Schlesner, Tianhui Chen, Rolf Sijmons, Dagmara Dymerska, Katarzyna Golebiewska, Magdalena Kuswik, Jan Lubinski, Kari Hemminki and Asta Försti. 2021. A rare large duplication of MLH1 identified in Lynch syndrome. DOI: 10.1186/s13053-021-00167-0
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Doina Ciobanu, Alicia Clum, Steven Ahrendt, William B. Andreopoulos, Asaf Salamov, Sandy Chan, C. Alisha Quandt, Brian Foster, Jan P. Meier-Kolthoff, Yung Tsu Tang, Patrick Schwientek, Gerald L. Benny, Matthew E. Smith, Diane Bauer, Shweta Deshpande, Kerrie Barry, Alex Copeland, Steven W. Singer, Tanja Woyke, Igor V. Grigoriev, Timothy Y. James and Jan-Fang Cheng. 2021. A single-cell genomics pipeline for environmental microbial eukaryotes. DOI: 10.1016/j.isci.2021.102290
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Elisa Espinet, Zuguang Gu, Charles D. Imbusch, Nathalia A. Giese, Magdalena Büscher, Mariam Safavi, Silke Weisenburger, Corinna Klein, Vanessa Vogel, Mattia Falcone, Jacob Insua-Rodríguez, Manuel Reitberger, Vera Thiel, Steffi O. Kossi, Alexander Muckenhuber, Karnjit Sarai, Alex Y. L. Lee, Elyne Backx, Soheila Zarei, Matthias M. Gaida, Manuel Rodríguez-Paredes, Elisa Donato, Hsi-Yu Yen, Roland Eils, Matthias Schlesner, Nicole Pfarr, Thilo Hackert, Christoph Plass, Benedikt Brors, Katja Steiger, Dieter Weichenhan, H. Efsun Arda, Ilse Rooman, Janel L. Kopp, Oliver Strobel, Wilko Weichert, Martin R. Sprick and Andreas Trumpp. 2021. Aggressive PDACs show hypomethylation of repetitive elements and the execution of an intrinsic IFN program linked to a ductal cell of origin. DOI: 10.1158/2159-8290.cd-20-1202
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Ani Grigoryan, Johannes Pospiech, Stephen Krämer, Daniel Lipka, Thomas Liehr, Hartmut Geiger, Hiroshi Kimura, Medhanie A. Mulaw and Maria Carolina Florian. 2021. Attrition of X chromosome inactivation in aged hematopoietic stem cells. DOI: 10.1016/j.stemcr.2021.03.007
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Jeongbin Park, Wonyl Choi, Sebastian Tiesmeyer, Brian Long, Lars E. Borm, Emma Garren, Thuc Nghi Nguyen, Bosiljka Tasic, Simone Codeluppi, Tobias Graf, Matthias Schlesner, Oliver Stegle, Roland Eils and Naveed Ishaque. 2021. Cell segmentation-free inference of cell types from in situ transcriptomics data. DOI: 10.1038/s41467-021-23807-4
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Calogerina Catalano, Nagarajan Paramasivam, Joanna Blocka, Sara Giangiobbe, Stefanie Huhn, Matthias Schlesner, Niels Weinhold, Rolf Sijmons, Mirjam de Jong, Christian Langer, Klaus-Dieter Preuss, Björn Nilsson, Brian Durie, Hartmut Goldschmidt, Obul Reddy Bandapalli, Kari Hemminki and Asta Försti. 2021. Characterization of rare germline variants in familial multiple myeloma. DOI: 10.1038/s41408-021-00422-6
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Stefan C. Dentro, Ignaty Leshchiner, Kerstin Haase, Maxime Tarabichi, Jeff Wintersinger, Amit G. Deshwar, Kaixian Yu, Yulia Rubanova, Geoff Macintyre, Jonas Demeulemeester, Ignacio Vázquez-García, Kortine Kleinheinz, Dimitri G. Livitz, Salem Malikic, Nilgun Donmez, Subhajit Sengupta, Pavana Anur, Clemency Jolly, Marek Cmero, Daniel Rosebrock, Steven E. Schumacher, Yu Fan, Matthew Fittall, Ruben M. Drews, Xiaotong Yao, Thomas B. K. Watkins, Juhee Lee, Matthias Schlesner, Hongtu Zhu, David J. Adams, Nicholas McGranahan, Charles Swanton, Gad Getz, Paul C. Boutros, Marcin Imielinski, Rameen Beroukhim, S. Cenk Sahinalp, Yuan Ji, Martin Peifer, Inigo Martincorena, Florian Markowetz, Ville Mustonen, Ke Yuan, Moritz Gerstung, Paul T. Spellman, Wenyi Wang, Quaid D. Morris, David C. Wedge and Peter Van Loo. 2021. Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes. DOI: 10.1016/j.cell.2021.03.009
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On behalf of the PCAWG Evolution and Heterogeneity Working Group and the PCAWG Consortium. For full author list please see publisher website.

Emily P. Slater, Lisa M. Wilke, Lutz Benedikt Böhm, Konstantin Strauch, Manuel Lutz, Norman Gercke, Elvira Matthäi, Kari Hemminki, Asta Försti, Matthias Schlesner, Nagarajan Paramasivam and Detlef K. Bartsch. 2021. Combinations of low-frequency genetic variants might predispose to familial pancreatic cancer. DOI: 10.3390/jpm11070631
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Arlou Kristina Angeles, Petros Christopoulos, Zhao Yuan, Simone Bauer, Florian Janke, Simon John Ogrodnik, Martin Reck, Matthias Schlesner, Michael Meister, Marc A. Schneider, Steffen Dietz, Albrecht Stenzinger, Michael Thomas and Holger Sültmann. 2021. Early identification of disease progression in ALK-rearranged lung cancer using circulating tumor DNA analysis. DOI: 10.1038/s41698-021-00239-3
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Marina Scheller, Anne Kathrin Ludwig, Stefanie Göllner, Christian Rohde, Stephen Krämer, Sina Stäble, Maike Janssen, James-Arne Müller, Lixiazi He, Nicole Bäumer, Christian Arnold, Joachim Gerß, Maximilian Schönung, Christian Thiede, Christian Niederwieser, Dietger Niederwieser, Hubert Serve, Wolfgang E. Berdel, Ulrich Thiem, Inga Hemmerling, Florian Leuschner, Christoph Plass, Matthias Schlesner, Judith Zaugg, Michael D. Milsom, Andreas Trumpp, Caroline Pabst, Daniel B. Lipka and Carsten Müller-Tidow. 2021. Hotspot DNMT3A mutations in clonal hematopoiesis and acute myeloid leukemia sensitize cells to azacytidine via viral mimicry response. DOI: 10.1038/s43018-021-00213-9
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Ana Maia, Zuguang Gu, André Koch, Mireia Berdiel‐Acer, Rainer Will, Matthias Schlesner and Stefan Wiemann. 2021. IFNβ1 secreted by breast cancer cells undergoing chemotherapy reprograms stromal fibroblasts to support tumour growth after treatment. DOI: 10.1002/1878-0261.12905
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Elmar Kirches, Felix Sahm, Andrey Korshunov, Christina Bluecher, Natalie Waldt, Siegfried Kropf, Daniel Schrimpf, Philipp Sievers, Damian Stichel, Ulrich Schüller, Jens Schittenhelm, Markus J. Riemenschneider, Matthias A. Karajannis, Arie Perry, Torsten Pietsch, Svenja Boekhoff, David Capper, Katja Beck, Nagarajan Paramasivam, Matthias Schlesner, Priscilla K. Brastianos, Hermann L. Müller, Stefan M. Pfister and Christian Mawrin. 2021. Molecular profiling of pediatric meningiomas shows tumor characteristics distinct from adult meningiomas. DOI: 10.1007/s00401-021-02351-x
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Daniel Hübschmann, Kortine Kleinheinz, Rabea Wagener, Stephan H. Bernhart, Cristina López, Umut H. Toprak, Stephanie Sungalee, Naveed Ishaque, Helene Kretzmer, Markus Kreuz, Sebastian M. Waszak, Nagarajan Paramasivam, Ole Ammerpohl, Sietse M. Aukema, Renée Beekman, Anke K. Bergmann, Matthias Bieg, Hans Binder, Arndt Borkhardt, Christoph Borst, Benedikt Brors, Philipp Bruns, Enrique Carrillo de Santa Pau, Alexander Claviez, Gero Doose, Andrea Haake, Dennis Karsch, Siegfried Haas, Martin-Leo Hansmann, Jessica I. Hoell, Volker Hovestadt, Bingding Huang, Michael Hummel, Christina Jäger-Schmidt, Jules N. A. Kerssemakers, Jan O. Korbel, Dieter Kube, Chris Lawerenz, Dido Lenze, Joost H. A. Martens, German Ott, Bernhard Radlwimmer, Eva Reisinger, Julia Richter, Daniel Rico, Philip Rosenstiel, Andreas Rosenwald, Markus Schillhabel, Stephan Stilgenbauer, Peter F. Stadler, José I. Martín-Subero, Monika Szczepanowski, Gregor Warsow, Marc A. Weniger, Marc Zapatka, Alfonso Valencia, Hendrik G. Stunnenberg, Peter Lichter, Peter Möller, Markus Loeffler, Roland Eils, Wolfram Klapper, Steve Hoffmann, Lorenz Trümper, Ralf Küppers, Matthias Schlesner and Reiner Siebert. 2021. Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas. DOI: 10.1038/s41375-021-01251-z
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C. Blume, Helin Dogan, Lisa Schweizer, Wyatt Wick, Michael G. Weller, Martina Mann, Michel Kalamarides, A. von Deimling, Matthias Schlesner and Franziska Sahm. 2021. OS12.7. A characterization of intra-tumoral heterogeneity and differential immune activation during malignant progression of meningiomas on single cell level. DOI: 10.1093/neuonc/noab180.050
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Michael E. J. Buhl, Jan P. Meier-Kolthoff and Matthias Marschal. 2021. Prevotella illustrans sp. nov., derived from human oropharyngeal abscess puncture fluid. DOI: 10.1099/ijsem.0.005146
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Muhammad Aslam, Nirosiya Kandasamy, Anwar Ullah, Nagarajan Paramasivam, Mehmet Ali Öztürk, Saima Naureen, Abida Arshad, Mazhar Badshah, Kafaitullah Khan, Muhammad Wajid, Rashda Abbasi, Muhammad Ilyas, Roland Eils, Matthias Schlesner, Rebecca C. Wade, Nafees Ahmad and Jakob von Engelhardt. 2021. Putative second hit rare genetic variants in families with seemingly GBA-associated Parkinson's disease. DOI: 10.1038/s41525-020-00163-8
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Peter Schumann, Franziska Kalensee, Jialan Cao, Alexis Criscuolo, Dominique Clermont, Johann Michael Köhler, Jan P. Meier-Kolthoff, Meina Neumann-Schaal, Brian J. Tindall and Rüdiger Pukall. 2021. Reclassification of Haloactinobacterium glacieicola as Occultella glacieicola gen. nov., comb. nov., of Haloactinobacterium album as Ruania alba comb. nov, with an emended description of the genus Ruania, recognition that the genus names Haloactinobacterium and Ruania are heterotypic synonyms and description of Occultella aeris sp. nov., a halotolerant isolate from surface soil sampled at an ancient copper smelter. DOI: 10.1099/ijsem.0.004769
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David Heidler von Heilborn, Jessica Reinmüller, Georg Hölzl, Jan P. Meier-Kolthoff, Christian Woehle, Magdalena Marek, Bruno Hüttel and André Lipski. 2021. Sphingomonas aliaeris sp. nov., a new species isolated from pork steak packed under modified atmosphere. DOI: 10.1099/ijsem.0.004973
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Mahak Singhal, Nicolas Gengenbacher, Ashik Ahmed Abdul Pari, Miki Kamiyama, Ling Hai, Bianca J. Kuhn, David M. Kallenberg, Shubhada R. Kulkarni, Carlotta Camilli, Stephanie F. Preuß, Barbara Leuchs, Carolin Mogler, Elisa Espinet, Eva Besemfelder, Danijela Heide, Mathias Heikenwalder, Martin R. Sprick, Andreas Trumpp, Jeroen Krijgsveld, Matthias Schlesner, Junhao Hu, Stephen E. Moss, John Greenwood and Hellmut G. Augustin. 2021. Temporal multi-omics identifies LRG1 as a vascular niche instructor of metastasis. DOI: 10.1126/scitranslmed.abe6805
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Nicolas Gengenbacher, Mahak Singhal, Carolin Mogler, Ling Hai, Laura Milde, Ashik Ahmed Abdul Pari, Eva Besemfelder, Claudine Fricke, Daniel Baumann, Stephanie Gehrs, Jochen Utikal, Moritz Felcht, Junhao Hu, Matthias Schlesner, Rienk Offringa, Sudhakar R. Chintharlapalli and Hellmut G. Augustin. 2021. Timed Ang2-targeted therapy identifies the Angiopoietin–tie pathway as key regulator of fatal lymphogenous metastasis. DOI: 10.1158/2159-8290.cd-20-0122
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Ruifan Xie, Tobias Kessler, Julia Grosch, Ling Hai, Varun Venkataramani, Lulu Huang, Dirk C. Hoffmann, Gergely Solecki, Miriam Ratliff, Matthias Schlesner, Wolfgang Wick and Frank Winkler. 2021. Tumor cell network integration in glioma represents a stemness feature. DOI: 10.1093/neuonc/noaa275
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Diamanto Skopelitou, Beiping Miao, Aayushi Srivastava, Abhishek Kumar, Magdalena Kuświk, Dagmara Dymerska, Nagarajan Paramasivam, Matthias Schlesner, Jan Lubinski, Kari Hemminki, Asta Försti and Obul Bandapalli. 2021. Whole exome sequencing identifies APCDD1 and HDAC5 genes as potentially cancer predisposing in familial colorectal cancer. DOI: 10.3390/ijms22041837
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Zuguang Gu, Matthias Schlesner and Daniel Hübschmann. 2021. cola: an R/Bioconductor package for consensus partitioning through a general framework. DOI: 10.1093/nar/gkaa1146
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2020

Svetlana N. Dedysh, Petra Henke, Anastasia A. Ivanova, Irina S. Kulichevskaya, Dmitriy A. Philippov, Jan P. Meier-Kolthoff, Markus Göker, Sixing Huang and Jörg Overmann. 2020. 100‐year‐old enigma solved: identification, genomic characterization and biogeography of the yet uncultured Planctomyces bekefii. DOI: 10.1111/1462-2920.14838
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Sina Stäble, Stephen Krämer, Mark Hartmann, Maximilian Schönung, Jens Langstein, Ruzhica Bogeska, Melinda Czeh, Julia Knoch, Natasha Anstee, Simon Haas, Abdelrahman Mahmoud, Charles Imbusch, Julius Gräsel, Dieter Weichenhan Weichenhan, Lars Feuerbach, Benedikt Brors, Karsten Rippe, Jan-Philipp Mallm, Frank Rosenbauer, Stefan Fröhling, Christoph Plass, Matthias Schlesner, Michael Milsom and Daniel Lipka. 2020. 3037 – Combined single-cell DNA methylome and transcriptome analysis identifies molecular sattes of early lineage commitment [Abstract]. DOI: 10.1016/j.exphem.2020.09.057
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Martinique Frentrup, Zhemin Zhou, Matthias Steglich, Jan P. Meier-Kolthoff, Markus Göker, Thomas Riedel, Boyke Bunk, Cathrin Spröer, Jörg Overmann, Marion Blaschitz, Alexander Indra, Lutz von Müller, Thomas A. Kohl, Stefan Niemann, Christian Seyboldt, Frank Klawonn, Nitin Kumar, Trevor D. Lawley, Sergio García-Fernández, Rafael Cantón, Rosa del Campo, Ortrud Zimmermann, Uwe Groß, Mark Achtman and Ulrich Nübel. 2020. A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics. DOI: 10.1099/mgen.0.000410
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Anton Hördt, Marina García López, Jan P. Meier-Kolthoff, Marcel Schleuning, Lisa-Maria Weinhold, Brian J. Tindall, Sabine Gronow, Nikos C. Kyrpides, Tanja Woyke and Markus Göker. 2020. Analysis of 1,000+ type-strain genomes substantially improves taxonomic classification of Alphaproteobacteria. DOI: 10.3389/fmicb.2020.00468
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Daniel Hübschmann, Lea Jopp‐Saile, Carolin Andresen, Stephen Krämer, Zuguang Gu, Christoph E. Heilig, Simon Kreutzfeldt, Veronica Teleanu, Stefan Fröhling, Roland Eils and Matthias Schlesner. 2020. Analysis of mutational signatures with yet another package for signature analysis. DOI: 10.1002/gcc.22918
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Sergei Yakneen, S. M. Waszak, Michael Gertz, Jan O. Korbel and Matthias Schlesner. 2020. Butler enables rapid cloud-based analysis of thousands of human genomes. DOI: 10.1038/s41587-019-0360-3
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Publisher correction available at: https://www.nature.com/articles/s41587-020-0448-9
Authors: Sergei Yakneen, Sebastian M. Waszak, PCAWG Technical Working Group, Michael Gertz, Jan O. Korbel & PCAWG Consortium. For full list of members see publisher website.

Guoqiao Zheng, Calogerina Catalano, Obul Reddy Bandapalli, Nagarajan Paramasivam, Subhayan Chattopadhyay, Matthias Schlesner, Rolf Sijmons, Akseli Hemminki, Dagmara Dymerska, Jan Lubinski, Kari Hemminki and Asta Försti. 2020. Cancer predisposition genes in cancer-free families. DOI: 10.3390/cancers12102770
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Başak Öztürk, Johannes Werner, Jan P. Meier-Kolthoff, Boyke Bunk, Cathrin Spröer and Dirk Springael. 2020. Comparative genomics suggests mechanisms of genetic adaptation toward the catabolism of the phenylurea herbicide linuron in Variovorax. DOI: 10.1093/gbe/evaa085
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Rabea Wagener, Susanne Bens, Umut H. Toprak, Julian Seufert, Cristina López, Ingrid Scholz, Heidi Herbrueggen, Ilske Oschlies, Stephan Stilgenbauer, Matthias Schlesner, Wolfram Klapper, Birgit Burkhardt and Reiner Siebert. 2020. Cryptic insertion of MYC exons 2 and 3 into the immunoglobulin heavy chain locus detected by whole genome sequencing in a case of "MYC-negative" Burkitt lymphoma. DOI: 10.3324/haematol.2018.208140
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Tobias Roider, Julian Seufert, Alexey Uvarovskii, Felix Frauhammer, Marie Bordas, Nima Abedpour, Marta Stolarczyk, Jan-Philipp Mallm, Sophie A. Herbst, Peter-Martin Bruch, Hyatt Balke-Want, Michael Hundemer, Karsten Rippe, Benjamin Goeppert, Martina Seiffert, Benedikt Brors, Gunhild Mechtersheimer, Thorsten Zenz, Martin Peifer, Björn Chapuy, Matthias Schlesner, Carsten Müller-Tidow, Stefan Fröhling, Wolfgang Huber, Simon Anders and Sascha Dietrich. 2020. Dissecting intratumour heterogeneity of nodal B-cell lymphomas at the transcriptional, genetic and drug-response levels. DOI: 10.1038/s41556-020-0532-x
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Scott Thiebes, Matthias Schlesner, Benedikt Brors and Ali Sunyaev. 2020. Distributed Ledger Technology in genomics: a call for Europe. DOI: 10.1038/s41431-019-0512-4
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Justin P. Whalley, Ivo Buchhalter, Esther Rheinbay, Keiran M. Raine, Miranda D. Stobbe, Kortine Kleinheinz, Johannes Werner, Sergi Beltran, Marta Gut, Daniel Hübschmann, Barbara Hutter, Dimitri Livitz, Marc D. Perry, Mara Rosenberg, Gordon Saksena, Jean-Rémi Trotta, Roland Eils, Daniela S. Gerhard, Peter J. Campbell, Matthias Schlesner and Ivo G. Gut. 2020. Framework for quality assessment of whole genome cancer sequences. DOI: 10.1038/s41467-020-18688-y
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Dina Cramer, Johanna Mazur, Octavio Espinosa, Matthias Schlesner, Daniel Hübschmann, Roland Eils and Eike Staub. 2020. Genetic interactions and tissue specificity modulate the association of mutations with drug response. DOI: 10.1158/1535-7163.mct-19-0045
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Nikolaos Strepis, Henry D. Naranjo, Jan P. Meier-Kolthoff, Markus Göker, Nicole Shapiro, Nikos Kyrpides, Hans-Peter Klenk, Peter J. Schaap, Alfons J. M. Stams and Diana Z. Sousa. 2020. Genome-guided analysis allows the identification of novel physiological traits in Trichococcus species. DOI: 10.1186/s12864-019-6410-x
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Soo-Zin Kim-Wanner, Yassen Assenov, Mridul B. Nair, Dieter Weichenhan, Axel Benner, Natalia Becker, Katharina Landwehr, Ruprecht Kuner, Holger Sültmann, Manel Esteller, Ina Koch, Michael Lindner, Michael Meister, Michael Thomas, Matthias Bieg, Ursula Klingmüller, Matthias Schlesner, Arne Warth, Benedikt Brors, Erhard Seifried, Halvard Bönig, Christoph Plass, Angela Risch and Thomas Muley. 2020. Genome-wide DNA methylation profiling in early stage I lung adenocarcinoma reveals predictive aberrant methylation in the promoter region of the long noncoding RNA PLUT: an exploratory study. DOI: 10.1016/j.jtho.2020.03.023
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Lina Sieverling, Chen Hong, Sandra D. Koser, Philip Ginsbach, Kortine Kleinheinz, Barbara Hutter, Delia M. Braun, Isidro Cortés-Ciriano, Ruibin Xi, Rolf Kabbe, Peter J. Park, Roland Eils, Matthias Schlesner, Benedikt Brors, Karsten Rippe, David T. W. Jones and Lars Feuerbach. 2020. Genomic footprints of activated telomere maintenance mechanisms in cancer. DOI: 10.1038/s41467-019-13824-9
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& PCAWG Consortium

Pavlo Lutsik, Annika Baude, Daniela Mancarella, Simin Öz, Alexander Kühn, Reka Toth, Joschka Hey, Umut H. Toprak, Jinyeong Lim, Viet Ha Nguyen, Chao Jiang, Anand Mayakonda, Mark Hartmann, Felix Rosemann, Kersten Breuer, Dominik Vonficht, Florian Grünschläger, Suman Lee, Maren Kirstin Schuhmacher, Denis Kusevic, Anna Jauch, Dieter Weichenhan, Jozef Zustin, Matthias Schlesner, Simon Haas, Joo Hyun Park, Yoon Jung Park, Udo Oppermann, Albert Jeltsch, Florian Haller, Jörg Fellenberg, Anders M. Lindroth and Christoph Plass. 2020. Globally altered epigenetic landscape and delayed osteogenic differentiation in H3.3-G34W-mutant giant cell tumor of bone. DOI: 10.1038/s41467-020-18955-y
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Albrecht Stenzinger, Volker Endris, Jan Budczies, Sabine Merkelbach-Bruse, Daniel Kazdal, Wolfgang Dietmaier, Nicole Pfarr, Udo Siebolts, Michael Hummel, Sylvia Herold, Johanna Andreas, Martin Zoche, Lars Tögel, Eugen Rempel, Jörg Maas, Diana Merino, Mark Stewart, Karim Zaoui, Matthias Schlesner, Hanno Glimm, Stefan Fröhling, Jeff Allen, David Horst, Gustavo Baretton, Claudia Wickenhauser, Markus Tiemann, Matthias Evert, Holger Moch, Thomas Kirchner, Reinhard Büttner, Peter Schirmacher, Andreas Jung, Florian Haller, Wilko Weichert and Manfred Dietel. 2020. Harmonization and standardization of panel-based tumor mutational burden measurement: real-world results and recommendations of the quality in pathology study. DOI: 10.1016/j.jtho.2020.01.023
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Daniela Choukair, Birgit Eberle, Philipp Vick, Pia Hermanns, Birgit Weiss, Nagarajan Paramasivam, Matthias Schlesner, Katharina Lornsen, Ralph Roeth, Carina Klutmann, Jennifer Kreis, Georg F. Hoffmann, Joachim Pohlenz, Gudrun A. Rappold and Markus Bettendorf. 2020. Identification of transient receptor potential channel 4-associated protein as a novel candidate gene causing congenital primary hypothyroidism. DOI: 10.1159/000507114
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Marek Cmero, Ke Yuan, Cheng Soon Ong, Jan Schröder, Niall M. Corcoran, Tony Papenfuss, Christopher M. Hovens, Florian Markowetz, Geoff Macintyre and Matthias Schlesner. 2020. Inferring structural variant cancer cell fraction. DOI: 10.1038/s41467-020-14351-8
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Matthias Schlesner is a member of the PCAWG Consortium. For full author list please see publisher website.

Aidan C. Parte, Joaquim Sardà Carbasse, Jan P. Meier-Kolthoff, Lorenz C. Reimer and Markus Göker. 2020. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. DOI: 10.1099/ijsem.0.004332
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Steffen Dietz, Petros Christopoulos, Zhao Yuan, Arlou Kristina Angeles, Lisa Gu, Anna-Lena Volckmar, Simon J. Ogrodnik, Florian Janke, Chiara Dalle Fratte, Tomasz Zemojtel, Marc A. Schneider, Daniel Kazdal, Volker Endris, Michael Meister, Thomas Muley, Erika Cecchin, Martin Reck, Matthias Schlesner, Michael Thomas, Albrecht Stenzinger and Holger Sültmann. 2020. Longitudinal therapy monitoring of ALK-positive lung cancer by combined copy number and targeted mutation profiling of cell-free DNA. DOI: 10.1016/j.ebiom.2020.103103
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Tobias Kessler, Anne Berberich, Belen Casalini, Katharina Drüschler, Hannah Ostermann, Andrea Dormann, Sandy Walter, Ling Hai, Matthias Schlesner, Christel Herold-Mende, Christine Jungk, Andreas Unterberg, Martin Bendszus, Katharina Sahm, Andreas von Deimling, Frank Winkler, Michael Platten, Wolfgang Wick, Felix Sahm and Antje Wick. 2020. Molecular profiling-based decision for targeted therapies in IDH wild-type glioblastoma. DOI: 10.1093/noajnl/vdz060
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Sarah Luiken, Angelika Fraas, Matthias Bieg, Raisatun Sugiyanto, Benjamin Goeppert, Stephan Singer, Carolin Ploeger, Gregor Warsow, Jens U. Marquardt, Carsten Sticht, Carolina De La Torre, Stefan Pusch, Arianeb Mehrabi, Norbert Gretz, Matthias Schlesner, Roland Eils, Peter Schirmacher, Thomas Longerich and Stephanie Roessler. 2020. NOTCH target gene HES5 mediates oncogenic and tumor suppressive functions in hepatocarcinogenesis. DOI: 10.1038/s41388-020-1198-3
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Steffen Dietz, Petros Christopoulos, Lisa Gu, Volker Endris, Zhao Yuan, Simon J. Ogrodnik, Tomasz Zemojtel, Marc A. Schneider, Anna-Lena Volkmar, Michael Meister, Thomas Muley, Martin Reck, Matthias Schlesner, Michael Thomas, Albrecht Stenzinger and Holger Sültmann. 2020. Non-invasive molecular profiling for therapy monitoring of ALK+ lung cancer [Abstract].
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Ashwin Narayanan, Enrique Blanco-Carmona, Engin Demirdizen, Xueyuan Sun, Christel Herold-Mende, Matthias Schlesner and Sevin Turcan. 2020. Nuclei isolation from fresh frozen brain tumors for single-nucleus RNA-seq and ATAC-seq. DOI: 10.3791/61542
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Peter J. Campbell, Gad Getz, Jan O. Korbel, Joshua M. Stuart, Jennifer L. Jennings, Lincoln D. Stein and Matthias Schlesner. 2020. Pan-cancer analysis of whole genomes. DOI: 10.1038/s41586-020-1969-6
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Authored by the The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. For full author list please see publisher website or PDF.

Yulia Rubanova, Ruian Shi, Caitlin F. Harrigan, Roujia Li, Jeff Wintersinger, Nil Sahin, Amit Deshwar, Quaid Morris and Matthias Schlesner. 2020. Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. DOI: 10.1038/s41467-020-14352-7
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Matthias Schlesner is a member of the PCAWG Consortium. For full author list please see publisher website.

Paurnima Patil, Agata Cieslak, Stephan H. Bernhart, Umut H. Toprak, Rabea Wagener, Cristina López, Laura Wiehle, Susanne Bens, Janine Altmüller, Marek Franitza, Ingrid Scholz, Sandrine Jayne, Matthew J. Ahearne, Annika Scheffold, Billy M. C. Jebaraj, Christof Schneider, Dolors Costa, Till Braun, Alexandra Schrader, Elias Campo, Martin J. S. Dyer, Peter Nürnberg, Jan Dürig, Patricia Johansson, Sebastian Böttcher, Matthias Schlesner, Marco Herling, Stephan Stilgenbauer, Elizabeth Macintyre and Reiner Siebert. 2020. Reconstruction of rearranged T‐cell receptor loci by whole genome and transcriptome sequencing gives insights into the initial steps of T‐cell prolymphocytic leukemia. DOI: 10.1002/gcc.22821
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Matthew H. Bailey, William U. Meyerson, Lewis Jonathan Dursi, Liang-Bo Wang, Guanlan Dong, Wen-Wei Liang, Amila Weerasinghe, Shantao Li, Yize Li, Sean Kelso, Gordon Saksena, Kyle Ellrott, Michael C. Wendl, David A. Wheeler, Gad Getz, Jared T. Simpson, Mark B. Gerstein, Li Ding and Matthias Schlesner. 2020. Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. DOI: 10.1038/s41467-020-18151-y
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Matthias Schlesner is a member of the PCAWG novel somatic mutation calling methods working group. For full author list please see publisher website.

Constance H. Li, Stephenie D. Prokopec, Ren X. Sun, Fouad Yousif, Nathaniel Schmitz, Paul C. Boutros and Matthias Schlesner. 2020. Sex differences in oncogenic mutational processes. DOI: 10.1038/s41467-020-17359-2
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Matthias Schlesner is a member of the PCAWG Consortium. For full author list please see publisher website.

Andres Quintero, Daniel Hübschmann, Nils Kurzawa, Sebastian Steinhauser, Philipp Rentzsch, Stephen Krämer, Carolin Andresen, Jeongbin Park, Roland Eils, Matthias Schlesner and Carl Herrmann. 2020. ShinyButchR: interactive NMF-based decomposition workflow of genome-scale datasets. DOI: 10.1093/biomethods/bpaa022
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Firat Uyulur, Findlay Bewicke-Copley, Chinedu Anthony Anene, Matthias Schlesner, Reiner Siebert, Jessica Okosun, Jude Fitzgibbon and Jun Wang. 2020. Systematic evaluation of somatic cis-regulatory mutations in follicular lymphoma [Abstract]. DOI: 10.1182/blood-2020-142623
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Full author list includes the Icgc MMML-Seq Project. See publisher page for details.

Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C. Dentro, Santiago Gonzalez, Daniel Rosebrock, Thomas J. Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu, Maxime Tarabichi, Amit Deshwar, Jeff Wintersinger, Kortine Kleinheinz, Ignacio Vázquez-García, Kerstin Haase, Lara Jerman, Subhajit Sengupta, Geoff Macintyre, Salem Malikic, Nilgun Donmez, Dimitri G. Livitz, Marek Cmero, Jonas Demeulemeester, Steven Schumacher, Yu Fan, Xiaotong Yao, Juhee Lee, Matthias Schlesner, Paul C. Boutros, David D. Bowtell, Hongtu Zhu, Gad Getz, Marcin Imielinski, Rameen Beroukhim, S. Cenk Sahinalp, Yuan Ji, Martin Peifer, Florian Markowetz, Ville Mustonen, Ke Yuan, Wenyi Wang, Quaid D. Morris, Paul T. Spellman, David C. Wedge and Peter Van Loo. 2020. The evolutionary history of 2,658 cancers. DOI: 10.1038/s41586-019-1907-7
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Marc Zapatka, Ivan Borozan, Daniel S. Brewer, Murat Iskar, Adam Grundhoff, Malik Alawi, Nikita Desai, Holger Sültmann, Holger Moch, Colin S. Cooper, Roland Eils, Vincent Ferretti, Peter Lichter and Matthias Schlesner. 2020. The landscape of viral associations in human cancers. DOI: 10.1038/s41588-019-0558-9
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Matthias Schlesner is a member of the PCAWG Consortium. For full author list please see publisher website.

Philipp Sievers, Jason Chiang, Daniel Schrimpf, Damian Stichel, Nagarajan Paramasivam, Martin Sill, Tenzin Gayden, Belen Casalini, David E. Reuss, James Dalton, Kristian W. Pajtler, Daniel Hänggi, Christel Herold-Mende, Elisabeth Rushing, Andrey Korshunov, Christian Mawrin, Michael Weller, Matthias Schlesner, Wolfgang Wick, Nada Jabado, David T. W. Jones, Stefan M. Pfister, Andreas von Deimling, David W. Ellison and Felix Sahm. 2020. YAP1-fusions in pediatric NF2-wildtype meningioma. DOI: 10.1007/s00401-019-02095-9
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2019

Marina García-López, Jan P. Meier-Kolthoff, Brian J. Tindall, Sabine Gronow, Tanja Woyke, Nikos C. Kyrpides, Richard L. Hahnke and Markus Göker. 2019. Analysis of 1,000 type-strain genomes improves taxonomic classification of bacteroidetes. DOI: 10.3389/fmicb.2019.02083
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Dorett I. Odoni, Marta Vazquez-Vilar, Merlijn P. van Gaal, Tom Schonewille, Vitor A. P. Martins dos Santos, Juan Antonio Tamayo-Ramos, Maria Suarez-Diez and Peter J. Schaap. 2019. Aspergillus niger citrate exporter revealed by comparison of two alternative citrate producing conditions. DOI: 10.1093/femsle/fnz071
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Vera Bischoff, Boyke Bunk, Jan P. Meier-Kolthoff, Cathrin Spröer, Anja Poehlein, Marco Dogs, Mary Nguyen, Jörn Petersen, Rolf Daniel, Jörg Overmann, Markus Göker, Meinhard Simon, Thorsten Brinkhoff and Cristina Moraru. 2019. Cobaviruses – a new globally distributed phage group infecting Rhodobacteraceae in marine ecosystems. DOI: 10.1038/s41396-019-0362-7
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S. Stäble, Stephen Krämer, J. Langstein, R. Bogeska, M. Hartmann, M. Schönung, N. Anstee, S. Haas, D. Weichenhan, M. Czeh, J. Gräsel, D. Hübschmann, F. Rosenbauer, C. Plass, Matthias Schlesner, M. Milsom and D. Lipka. 2019. DNA methylation dynamics identify lineage-specific regulation patterns of hematopoietic differentiation [Abstract]. DOI: 10.1097/01.hs9.0000558768.40633.0a
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Stefan Gröschel, Daniel Hübschmann, Francesco Raimondi, Peter Horak, Gregor Warsow, Martina Fröhlich, Barbara Klink, Laura Gieldon, Barbara Hutter, Kortine Kleinheinz, David Bonekamp, Oliver Marschal, Priya Chudasama, Jagoda Mika, Marie Groth, Sebastian Uhrig, Stephen Krämer, Christoph Heining, Christoph E. Heilig, Daniela Richter, Eva Reisinger, Katrin Pfütze, Roland Eils, Stephan Wolf, Christof von Kalle, Christian Brandts, Claudia Scholl, Wilko Weichert, Stephan Richter, Sebastian Bauer, Roland Penzel, Evelin Schröck, Albrecht Stenzinger, Richard F. Schlenk, Benedikt Brors, Robert B. Russell, Hanno Glimm, Matthias Schlesner and Stefan Fröhling. 2019. Defective homologous recombination DNA repair as therapeutic target in advanced chordoma. DOI: 10.1038/s41467-019-09633-9
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Verena Körber, Jing Yang, Pankaj Barah, Yonghe Wu, Damian Stichel, Zuguang Gu, Michael Nai Chung Fletcher, David Jones, Bettina Hentschel, Katrin Lamszus, Jörg Christian Tonn, Gabriele Schackert, Michael Sabel, Jörg Felsberg, Angela Zacher, Kerstin Kaulich, Daniel Hübschmann, Christel Herold-Mende, Andreas von Deimling, Michael Weller, Bernhard Radlwimmer, Matthias Schlesner, Guido Reifenberger, Thomas Höfer and Peter Lichter. 2019. Evolutionary trajectories of IDHWT glioblastomas reveal a common path of early tumorigenesis instigated years ahead of initial diagnosis. DOI: 10.1016/j.ccell.2019.02.007
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Elmar Kirches, Felix Sahm, Christina Blücher, Svenja Boeckhoff, Ulrich Schüller, Jens Schittenhelm, Matija Snuderl, Matthias Karajannis, Arie Perry, Torsten Pietsch, Hermann Müller, David Capper, Katja Beck, Matthias Schlesner, Siegfried Kropf, Priscilla Brastianos, Andrey Korshunov, Stefan Pfister and Christian Mawrin. 2019. Gene-13: pediatric meningiomas are characterized by distinct methylation profiles different from adult meningiomas [Abstract]. DOI: 10.1093/neuonc/noz036.084
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Cristina López, Kortine Kleinheinz, Sietse M. Aukema, Marius Rohde, Stephan H. Bernhart, Daniel Hübschmann, Rabea Wagener, Umut H. Toprak, Francesco Raimondi, Markus Kreuz, Sebastian M. Waszak, Zhiqin Huang, Lina Sieverling, Nagarajan Paramasivam, Julian Seufert, Stephanie Sungalee, Robert B. Russell, Julia Bausinger, Helene Kretzmer, Ole Ammerpohl, Anke K. Bergmann, Hans Binder, Arndt Borkhardt, Benedikt Brors, Alexander Claviez, Gero Doose, Lars Feuerbach, Andrea Haake, Martin-Leo Hansmann, Jessica Hoell, Michael Hummel, Jan O. Korbel, Chris Lawerenz, Dido Lenze, Bernhard Radlwimmer, Julia Richter, Philip Rosenstiel, Andreas Rosenwald, Markus B. Schilhabel, Harald Stein, Stephan Stilgenbauer, Peter F. Stadler, Monika Szczepanowski, Marc A. Weniger, Marc Zapatka, Roland Eils, Peter Lichter, Markus Loeffler, Peter Möller, Lorenz Trümper, Wolfram Klapper, Steve Hoffmann, Ralf Küppers, Birgit Burkhardt, Matthias Schlesner and Reiner Siebert. 2019. Genomic and transcriptomic changes complement each other in the pathogenesis of sporadic Burkitt lymphoma. DOI: 10.1038/s41467-019-08578-3
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Jan P. Meier-Kolthoff. 2019. Moderne genombasierte Klassifikation von Bakterien und Archaeen. DOI: 10.1007/s12268-019-0211-2
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Nagarajan Paramasivam, Daniel Hübschmann, Umut H Toprak, Naveed Ishaque, Marian Neidert, Daniel Schrimpf, Damian Stichel, David Reuss, Philipp Sievers, Annekathrin Reinhardt, Annika K. Wefers, David T. W. Jones, Zuguang Gu, Johannes Werner, Sebastian Uhrig, Hans-Georg Wirsching, Matthias Schick, Melanie Bewerunge-Hudler, Katja Beck, Stephanie Brehmer, Steffi Urbschat, Marcel Seiz-Rosenhagen, Daniel Hänggi, Christel Herold-Mende, Ralf Ketter, Roland Eils, Zvi Ram, Stefan M. Pfister, Wolfgang Wick, Michael Weller, Rachel Grossmann, Andreas von Deimling, Matthias Schlesner and Felix Sahm. 2019. Mutational patterns and regulatory networks in epigenetic subgroups of meningioma. DOI: 10.1007/s00401-019-02008-w
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Stephan M. Tirier, Jeongbin Park, Friedrich Preußer, Lisa Amrhein, Zuguang Gu, Simon Steiger, Jan-Philipp Mallm, Teresa Krieger, Marcel Waschow, Björn Eismann, Marta Gut, Ivo G. Gut, Karsten Rippe, Matthias Schlesner, Fabian Theis, Christiane Fuchs, Claudia R. Ball, Hanno Glimm, Roland Eils and Christian Conrad. 2019. Pheno-seq: linking visual features and gene expression in 3D cell culture systems. DOI: 10.1038/s41598-019-48771-4
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Felicitas Bossler, Bianca J. Kuhn, Thomas Günther, Stephen Krämer, Prajakta Khalkar, Svenja Adrian, Claudia Lohrey, Angela Holzer, Mitsugu Shimobayashi, Matthias Dürst, Arnulf Mayer, Frank Rösl, Adam Grundhoff, Jeroen Krijgsveld, Karin Hoppe-Seyler and Felix Hoppe-Seyler. 2019. Repression of human papillomavirus oncogene expression under hypoxia is mediated by PI3K/mTORC2/AKT signaling. DOI: 10.1128/mbio.02323-18
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Peter Horak, Joachim Weischenfeldt, Gunhild von Amsberg, Burkhard Beyer, Andreas Schütte, Sebastian Uhrig, Laura Gieldon, Barbara Klink, Lars Feuerbach, Daniel Hübschmann, Simon Kreutzfeldt, Christoph Heining, Sebastian Maier, Barbara Hutter, Roland Penzel, Matthias Schlesner, Roland Eils, Guido Sauter, Albrecht Stenzinger, Benedikt Brors, Evelin Schröck, Hanno Glimm, Stefan Fröhling and Thorsten Schlomm. 2019. Response to olaparib in a PALB2 germline mutated prostate cancer and genetic events associated with resistance. DOI: 10.1101/mcs.a003657
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Muhammad Aslam, Anwar Ullah, Nagarajan Paramasivam, Nirosiya Kandasamy, Saima Naureen, Mazhar Badshah, Kafaitullah Khan, Muhammad Wajid, Rashda Abbasi, Roland Eils, Marc A. Brockmann, Matthias Schlesner, Nafees Ahmad and Jakob von Engelhardt. 2019. Segregation and potential functional impact of a rare stop-gain PABPC4L variant in familial atypical Parkinsonism. DOI: 10.1038/s41598-019-50102-6
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Steffen Dietz, Petros Christopoulos, Lisa Gu, Anna-Lena Volckmar, Volker Endris, Zhao Yuan, Simon J. Ogrodnik, Tomasz Zemojtel, Claus-Peter Heussel, Marc A. Schneider, Michael Meister, Thomas Muley, Martin Reck, Matthias Schlesner, Michael Thomas, Albrecht Stenzinger and Holger Sültmann. 2019. Serial liquid biopsies for detection of treatment failure and profiling of resistance mechanisms in KLC1–ALK-rearranged lung cancer. DOI: 10.1101/mcs.a004630
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Imke H. E. Korf, Jan P. Meier-Kolthoff, Evelien M. Adriaenssens, Andrew M. Kropinski, Manfred Nimtz, Manfred Rohde, Mark J. van Raaij and Johannes Wittmann. 2019. Still something to discover: novel insights into Escherichia coli phage diversity and taxonomy. DOI: 10.3390/v11050454
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Karthik Shivaji Paithankar, Mathias Enderle, David C. Wirthensohn, Arthur Miller, Matthias Schlesner, Friedhelm Pfeiffer, Alexander Rittner, Martin Grininger and Dieter Oesterhelt. 2019. Structure of the archaeal chemotaxis protein CheY in a domain-swapped dimeric conformation. DOI: 10.1107/s2053230x19010896
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Jan P. Meier-Kolthoff and Markus Göker. 2019. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. DOI: 10.1038/s41467-019-10210-3
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Rabea Wagener, Julian Seufert, Francesco Raimondi, Susanne Bens, Kortine Kleinheinz, Inga Nagel, Janine Altmüller, Holger Thiele, Daniel Hübschmann, Christian W. Kohler, Peter Nürnberg, Rex Au-Yeung, Birgit Burkhardt, Heike Horn, Lorenzo Leoncini, Elaine S. Jaffe, German Ott, Grzegorz Rymkiewicz, Matthias Schlesner, Robert B. Russell, Wolfram Klapper and Reiner Siebert. 2019. The mutational landscape of Burkitt-like lymphoma with 11q aberration is distinct from that of Burkitt lymphoma. DOI: 10.1182/blood-2018-07-864025
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T. Roider, F. Frauhammer, J. Seufert, M. Bordas, M. Stolarczyk, S. Rabe, J. Malm, P. Bruch, M. Hundemer, K. Rippe, B. Goeppert, M. Seiffert, B. Brors, G. Mechtersheimer, C. Müller-Tidow, S. Fröhling, Matthias Schlesner, W. Huber, S. Anders and S. Dietrich. 2019. Transcriptional and genomic intra-tumor heterogeneity drives subclone specific drug responses in diffuse large B cell lymphoma [Abstract]. DOI: 10.1002/hon.45_2629
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Kaisa Thorell, Jan P. Meier-Kolthoff, Åsa Sjöling and Alberto J. Martín-Rodríguez. 2019. Whole-genome sequencing redefines Shewanella taxonomy. DOI: 10.3389/fmicb.2019.01861
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2018

Tobias Marschall, Manja Marz, Thomas Abeel, Louis Dijkstra, Bas E. Dutilh, Ali Ghaffaari, Paul Kersey, Wigard P. Kloosterman, Veli Mäkinen, Adam M. Novak, Benedict Paten, David Porubsky, Eric Rivals, Can Alkan, Jasmijn A. Baaijens, Paul I. W. De Bakker, Valentina Boeva, Raoul J. P. Bonnal, Francesca Chiaromonte, Rayan Chikhi, Francesca D. Ciccarelli, Robin Cijvat, Erwin Datema, Cornelia M. Van Duijn, Evan E. Eichler, Corinna Ernst, Eleazar Eskin, Erik Garrison, Mohammed El-Kebir, Gunnar W. Klau, Jan O. Korbel, Eric-Wubbo Lameijer, Benjamin Langmead, Marcel Martin, Paul Medvedev, John C. Mu, Pieter Neerincx, Klaasjan Ouwens, Pierre Peterlongo, Nadia Pisanti, Sven Rahmann, Ben Raphael, Knut Reinert, Dick de Ridder, Jeroen de Ridder, Matthias Schlesner, Ole Schulz-Trieglaff, Ashley D. Sanders, Siavash Sheikhizadeh, Carl Shneider, Sandra Smit, Daniel Valenzuela, Jiayin Wang, Lodewyk Wessels, Ying Zhang, Victor Guryev, Fabio Vandin, Kai Ye and Alexander Schönhuth. 2018. Computational pan-genomics: status, promises and challenges. DOI: 10.1093/bib/bbw089
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The Computational Pan-Genomics Consortium

Bianca Dimitrov, Nastassja Himmelreich, Agnes L. Hipgrave Ederveen, Christian Lüchtenborg, Jürgen G. Okun, Maximilian Breuer, Anna-Marlen Hutter, Matthias Carl, Luca Guglielmi, Andrea Hellwig, Kai Christian Thiemann, Markus Jost, Verena Peters, Christian Staufner, Georg F. Hoffmann, Annette Hackenberg, Nagarajan Paramasivam, Stefan Wiemann, Roland Eils, Matthias Schlesner, Sabine Strahl, Britta Brügger, Manfred Wuhrer, G. Christoph Korenke and Christian Thiel. 2018. Cutis laxa, exocrine pancreatic insufficiency and altered cellular metabolomics as additional symptoms in a new patient with ATP6AP1-CDG. DOI: 10.1016/j.ymgme.2018.01.008
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Zuguang Gu, Roland Eils, Matthias Schlesner and Naveed Ishaque. 2018. EnrichedHeatmap: an R/Bioconductor package for comprehensive visualization of genomic signal associations. DOI: 10.1186/s12864-018-4625-x
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Abhishek Kumar, Obul Reddy Bandapalli, Nagarajan Paramasivam, Sara Giangiobbe, Chiara Diquigiovanni, Elena Bonora, Roland Eils, Matthias Schlesner, Kari Hemminki and Asta Försti. 2018. Familial cancer variant prioritization pipeline version 2 (FCVPPv2) applied to a papillary thyroid cancer family. DOI: 10.1038/s41598-018-29952-z
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Lorena Carro, Imen Nouioui, Vartul Sangal, Jan P. Meier-Kolthoff, Martha E. Trujillo, Maria del Carmen Montero-Calasanz, Nevzat Sahin, Darren Lee Smith, Kristi E. Kim, Paul Peluso, Shweta Deshpande, Tanja Woyke, Nicole Shapiro, Nikos C. Kyrpides, Hans-Peter Klenk, Markus Göker and Michael Goodfellow. 2018. Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential. DOI: 10.1038/s41598-017-17392-0
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Imen Nouioui, Lorena Carro, Marina García-López, Jan P. Meier-Kolthoff, Tanja Woyke, Nikos C. Kyrpides, Rüdiger Pukall, Hans-Peter Klenk, Michael Goodfellow and Markus Göker. 2018. Genome-based taxonomic classification of the phylum Actinobacteria. DOI: 10.3389/fmicb.2018.02007
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Gregor Warsow, Daniel Hübschmann, Kortine Kleinheinz, Cathleen Nientiedt, Martina Heller, Laura Van Coile, Yanis Tolstov, Lukas Trennheuser, Kathrin Wieczorek, Carine Pecqueux, Claudia Gasch, Timur Kuru, Joanne Nyarangi-Dix, Gencay Hatiboglu, Dogu Teber, Sven Perner, Albrecht Stenzinger, Wilfried Roth, Boris Hadaschik, Sascha Pahernik, Dirk Jäger, Carsten Grüllich, Anette Duensing, Roland Eils, Matthias Schlesner, Holger Sültmann, Markus Hohenfellner and Stefan Duensing. 2018. Genomic features of renal cell carcinoma with venous tumor thrombus. DOI: 10.1038/s41598-018-25544-z
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Rabea Wagener, Cristina López, Kortine Kleinheinz, Julia Bausinger, Sietse M. Aukema, Inga Nagel, Umut H. Toprak, Julian Seufert, Janine Altmüller, Holger Thiele, Christof Schneider, Julia Kolarova, Jeongbin Park, Daniel Hübschmann, Eva M. Murga Penas, Hans G. Drexler, Andishe Attarbaschi, Randi Hovland, Eigil Kjeldsen, Michael Kneba, Udo Kontny, Laurence de Leval, Peter Nürnberg, Ilske Oschlies, David Oscier, Brigitte Schlegelberger, Stephan Stilgenbauer, Wilhelm Wössmann, Matthias Schlesner, Birgit Burkhardt, Wolfram Klapper, Elaine S. Jaffe, Ralf Küppers and Reiner Siebert. 2018. IG-MYC+ neoplasms with precursor B-cell phenotype are molecularly distinct from Burkitt lymphomas. DOI: 10.1182/blood-2018-03-842088
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Nagarajan Paramasivam, Martin Granzow, Christina Evers, Katrin Hinderhofer, Stefan Wiemann, Claus R. Bartram, Roland Eils and Matthias Schlesner. 2018. Identification and prioritization of causal variants of human genetic disorders from exome or whole genome sequencing data. DOI: 10.21926/obm.genet.1802017
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Franziska Simm, Anne Griesbeck, Daniela Choukair, Birgit Weiß, Nagarajan Paramasivam, Jürgen Klammt, Matthias Schlesner, Stefan Wiemann, Cristina Martinez, Georg F Hoffmann, Roland W Pfäffle, Markus Bettendorf and Gudrun A Rappold. 2018. Identification of SLC20A1 and SLC15A4 among other genes as potential risk factors for combined pituitary hormone deficiency. DOI: 10.1038/gim.2017.165
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Priya Chudasama, Sadaf S. Mughal, Mathijs A. Sanders, Daniel Hübschmann, Inn Chung, Katharina I. Deeg, Siao-Han Wong, Sophie Rabe, Mario Hlevnjak, Marc Zapatka, Aurélie Ernst, Kortine Kleinheinz, Matthias Schlesner, Lina Sieverling, Barbara Klink, Evelin Schröck, Remco M. Hoogenboezem, Bernd Kasper, Christoph E. Heilig, Gerlinde Egerer, Stephan Wolf, Christof von Kalle, Roland Eils, Albrecht Stenzinger, Wilko Weichert, Hanno Glimm, Stefan Gröschel, Hans-Georg Kopp, Georg Omlor, Burkhard Lehner, Sebastian Bauer, Simon Schimmack, Alexis Ulrich, Gunhild Mechtersheimer, Karsten Rippe, Benedikt Brors, Barbara Hutter, Marcus Renner, Peter Hohenberger, Claudia Scholl and Stefan Fröhling. 2018. Integrative genomic and transcriptomic analysis of leiomyosarcoma. DOI: 10.1038/s41467-017-02602-0
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Jan P. Meier-Kolthoff, Jumpei Uchiyama, Hiroko Yahara, David Paez-Espino and Koji Yahara. 2018. Investigation of recombination-intense viral groups and their genes in the Earth's virome. DOI: 10.1038/s41598-018-29272-2
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Clarissa Gerhauser, Francesco Favero, Thomas Risch, Ronald Simon, Lars Feuerbach, Yassen Assenov, Doreen Heckmann, Nikos Sidiropoulos, Sebastian M. Waszak, Daniel Hübschmann, Alfonso Urbanucci, Etsehiwot G. Girma, Vladimir Kuryshev, Leszek J. Klimczak, Natalie Saini, Adrian M. Stütz, Dieter Weichenhan, Lisa-Marie Böttcher, Reka Toth, Josephine D. Hendriksen, Christina Koop, Pavlo Lutsik, Sören Matzk, Hans-Jörg Warnatz, Vyacheslav Amstislavskiy, Clarissa Feuerstein, Benjamin Raeder, Olga Bogatyrova, Eva-Maria Schmitz, Claudia Hube-Magg, Martina Kluth, Hartwig Huland, Markus Graefen, Chris Lawerenz, Gervaise H. Henry, Takafumi N. Yamaguchi, Alicia Malewska, Jan Meiners, Daniela Schilling, Eva Reisinger, Roland Eils, Matthias Schlesner, Douglas W. Strand, Robert G. Bristow, Paul C. Boutros, Christof von Kalle, Dmitry Gordenin, Holger Sültmann, Benedikt Brors, Guido Sauter, Christoph Plass, Marie-Laure Yaspo, Jan O. Korbel, Thorsten Schlomm and Joachim Weischenfeldt. 2018. Molecular evolution of early-onset prostate cancer identifies molecular risk markers and clinical trajectories. DOI: 10.1016/j.ccell.2018.10.016
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Elmar Kirches, Felix Sahm, Christina Blücher, Svenja Boekhoff, Ulrich Schüller, Jens Schittenhelm, Matija Snuderl, Matthias Karajannis, Arie Perry, Torsten Pietsch, Hermann Müller, Joshua Rubin, David Capper, Katja Beck, Matthias Schlesner, Siegfried Kropf, Priscilla Brastianos, Andrey Korshunov, Stefan Pfister and Christian Mawrin. 2018. NFM-11: pediatric meningiomas are molecularly distinct from adult counterparts [Abstract]. DOI: 10.1093/neuonc/noy059.519
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Christoph Heining, Peter Horak, Sebastian Uhrig, Paula L. Codo, Barbara Klink, Barbara Hutter, Martina Fröhlich, David Bonekamp, Daniela Richter, Katja Steiger, Roland Penzel, Volker Endris, Karl Roland Ehrenberg, Stephanie Frank, Kortine Kleinheinz, Umut H. Toprak, Matthias Schlesner, Ranadip Mandal, Lothar Schulz, Helmut Lambertz, Sebastian Fetscher, Michael Bitzer, Nisar P. Malek, Marius Horger, Nathalia A. Giese, Oliver Strobel, Thilo Hackert, Christoph Springfeld, Lars Feuerbach, Frank Bergmann, Evelin Schröck, Christof von Kalle, Wilko Weichert, Claudia Scholl, Claudia R. Ball, Albrecht Stenzinger, Benedikt Brors, Stefan Fröhling and Hanno Glimm. 2018. NRG1 fusions in KRAS wild-type pancreatic cancer. DOI: 10.1158/2159-8290.cd-18-0036
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Maxime Tarabichi, Iñigo Martincorena, Moritz Gerstung, Armand M. Leroi, Florian Markowetz, Paul T. Spellman, Quaid D. Morris, Ole Christian Lingjærde, David C. Wedge, Peter Van Loo and Matthias Schlesner. 2018. Neutral tumor evolution? [Letter]. DOI: 10.1038/s41588-018-0258-x
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Matthias Schlesner is a member of the PCAWG Evolution and Heterogeneity Working Group. For full author list please see publisher website.

Fabini D. Orata, Jan P. Meier-Kolthoff, Dominic Sauvageau and Lisa Y. Stein. 2018. Phylogenomic analysis of the Gammaproteobacterial Methanotrophs (order methylococcales) calls for the reclassification of members at the genus and species levels. DOI: 10.3389/fmicb.2018.03162
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Sang-Tae Kim, Jeongbin Park, Daesik Kim, Kyoungmi Kim, Sangsu Bae, Matthias Schlesner and Jin-Soo Kim. 2018. Response to "Unexpected mutations after CRISPR–Cas9 editing in vivo". DOI: 10.1038/nmeth.4554
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Susanne N. Gröbner, Barbara C. Worst, Joachim Weischenfeldt, Ivo Buchhalter, Kortine Kleinheinz, Vasilisa A. Rudneva, Pascal-David Johann, Gnana Prakash Balasubramanian, Maia Segura-Wang, Sebastian Brabetz, Sebastian Bender, Barbara Hutter, Dominik Sturm, Elke Pfaff, Daniel Hübschmann, Gideon Zipprich, Michael Heinold, Jürgen Eils, Christian Lawerenz, Serap Erkek, Sander Lambo, Sebastian Waszak, Claudia Blattmann, Arndt Borkhardt, Michaela Kuhlen, Angelika Eggert, Simone Fulda, Manfred Gessler, Jenny Wegert, Roland Kappler, Daniel Baumhoer, Stefan Burdach, Renate Kirschner-Schwabe, Udo Kontny, Andreas E. Kulozik, Dietmar Lohmann, Simone Hettmer, Cornelia Eckert, Stefan Bielack, Michaela Nathrath, Charlotte Niemeyer, Günther H. Richter, Johannes Schulte, Reiner Siebert, Frank Westermann, Jan J. Molenaar, Gilles Vassal, Hendrik Witt, Birgit Burkhardt, Christian P. Kratz, Olaf Witt, Cornelis M. van Tilburg, Christof M. Kramm, Gudrun Fleischhack, Uta Dirksen, Stefan Rutkowski, Michael C. Frühwald, Katja von Hoff, Stephan Wolf, Thomas Klingebiel, Ewa Koscielniak, Pablo Landgraf, Jan Koster, Adam C. Resnick, Jinghui Zhang, Yanling Liu, Xin Zhou, Angela J. Waanders, Danny A. Zwijnenburg, Pichai Raman, Benedikt Brors, Ursula D. Weber, Paul A. Northcott, Kristian W. Pajtler, Marcel Kool, Rosario M. Piro, Jan O. Korbel, Matthias Schlesner, Roland Eils, David T. W. Jones, Peter Lichter, Lukas Chavez, Marc Zapatka and Stefan M. Pfister. 2018. The landscape of genomic alterations across childhood cancers. DOI: 10.1038/nature25480
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Correction (2018): Nature 559, E10, DOI: 10.1038/s41586-018-0167-2

Katharina Schlereth, Dieter Weichenhan, Tobias Bauer, Tina Heumann, Evangelia Giannakouri, Daniel Lipka, Samira Jaeger, Matthias Schlesner, Patrick Aloy, Roland Eils, Christoph Plass and Hellmut G Augustin. 2018. The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium. DOI: 10.7554/elife.34423
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Naveed Ishaque, Mohammed L. Abba, Christine Hauser, Nitin Patil, Nagarajan Paramasivam, Daniel Huebschmann, Jörg Hendrik Leupold, Gnana Prakash Balasubramanian, Kortine Kleinheinz, Umut H. Toprak, Barbara Hutter, Axel Benner, Anna Shavinskaya, Chan Zhou, Zuguang Gu, Jules Kerssemakers, Alexander Marx, Marcin Moniuszko, Miroslaw Kozlowski, Joanna Reszec, Jacek Niklinski, Jürgen Eils, Matthias Schlesner, Roland Eils, Benedikt Brors and Heike Allgayer. 2018. Whole genome sequencing puts forward hypotheses on metastasis evolution and therapy in colorectal cancer. DOI: 10.1038/s41467-018-07041-z
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Obul Reddy Bandapalli, Nagarajan Paramasivam, Sara Giangiobbe, Abhishek Kumar, Wolfgang Benisch, Andreas Engert, Mathias Witzens‐Harig, Matthias Schlesner, Kari Hemminki and Asta Försti. 2018. Whole genome sequencing reveals DICER1 as a candidate predisposing gene in familial Hodgkin lymphoma [Letter]. DOI: 10.1002/ijc.31576
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2017

Supratim Mukherjee, Rekha Seshadri, Neha J. Varghese, Emiley A. Eloe-Fadrosh, Jan P. Meier-Kolthoff, Markus Göker, R. Cameron Coates, Michalis Hadjithomas, Georgios A. Pavlopoulos, David Paez-Espino, Yasuo Yoshikuni, Axel Visel, William B. Whitman, George M. Garrity, Jonathan A. Eisen, Philip Hugenholtz, Amrita Pati, Natalia N. Ivanova, Tanja Woyke, Hans-Peter Klenk and Nikos C. Kyrpides. 2017. 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. DOI: 10.1038/nbt.3886
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Erratum published at: https://doi.org/10.1038/nbt0418-368c

Rafiullah Rafiullah, Alyssa B. Long, Anna A. Ivanova, Hazrat Ali, Simone Berkel, Ghulam Mustafa, Nagarajan Paramasivam, Matthias Schlesner, Stefan Wiemann, Rebecca C. Wade, Eugen Bolthauser, Martin Blum, Richard A. Kahn, Tamara Caspary and Gudrun A. Rappold. 2017. A novel homozygous ARL13B variant in patients with Joubert syndrome impairs its guanine nucleotide-exchange factor activity. DOI: 10.1038/s41431-017-0031-0
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Muhammad Aslam, Anwarullah Anwarullah, Nagarajan Paramasivam, Rashda Abbasi, Kafaitullah Khan, Aneesa Sultan, Matthias Schlesner, Jakob von Engelhardt and Nafees Ahmad. 2017. A report of whole-genome sequencing in neurologic Wilson's disease [Letter]. DOI: 10.4103/neuroindia.ni_1274_16
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Dorett I. Odoni, Merlijn P. van Gaal, Tom Schonewille, Juan A. Tamayo-Ramos, Vitor A. P. Martins dos Santos, Maria Suarez-Diez and Peter J. Schaap. 2017. Aspergillus niger secretes citrate to increase iron bioavailability. DOI: 10.3389/fmicb.2017.01424
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Dorett I. Odoni, Juan A. Tamayo-Ramos, Jasper Sloothaak, Ruben G. A. van Heck, Vitor A. P. Martins dos Santos, Leo H. de Graaff, Maria Suarez-Diez and Peter J. Schaap. 2017. Comparative proteomics of Rhizopus delemar ATCC 20344 unravels the role of amino acid catabolism in fumarate accumulation. DOI: 10.7717/peerj.3133
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Nicola Lehners, Umut H. Toprak, Jing Xu, Nagarajan Paramasivam, Daniel Hübschmann, Martina Fröhlich, Nur H. Md. Hanafiah, Sadaf Mughal, Elias K. Mai, Anna Jauch, Jens Hillengass, Roland Eils, Carsten Müller-Tidow, Benedikt Brors, Hartmut Goldschmidt, Matthias Schlesner and Marc S. Raab. 2017. Comprehensive genomic characterization of refractory multiple myeloma reveals a complex mutational and structural landscape associated with drug resistance [Abstract]. DOI: 10.1182/blood.V130.Suppl_1.266.266
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Nicola Dikow, Martin Granzow, Luitgard M. Graul-Neumann, Stephanie Karch, Katrin Hinderhofer, Nagarajan Paramasivam, Laura-Jane Behl, Lilian Kaufmann, Christine Fischer, Christina Evers, Matthias Schlesner, Roland Eils, Guntram Borck, Christiane Zweier, Claus R. Bartram, John C. Carey and Ute Moog. 2017. DDX3X mutations in two girls with a phenotype overlapping Toriello-Carey syndrome. DOI: 10.1002/ajmg.a.38164
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A Zamò, J Pischimarov, Matthias Schlesner, P Rosenstiel, R Bomben, H Horn, T Grieb, T Nedeva, C López, A Haake, J Richter, L Trümper, C Lawerenz, W Klapper, P Möller, M Hummel, D Lenze, M Szczepanowski, L Flossbach, M Schreder, V Gattei, G Ott, R Siebert, A Rosenwald and E Leich. 2017. Differences between BCL2-break positive and negative follicular lymphoma unraveled by whole-exome sequencing. DOI: 10.1038/leu.2017.270
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Klara M. Giessler, Kortine Kleinheinz, Daniel Huebschmann, Gnana Prakash Balasubramanian, Taronish D. Dubash, Sebastian M. Dieter, Christine Siegl, Friederike Herbst, Sarah Weber, Christopher M. Hoffmann, Raffaele Fronza, Ivo Buchhalter, Nagarajan Paramasivam, Roland Eils, Manfred Schmidt, Christof von Kalle, Martin Schneider, Alexis Ulrich, Claudia Scholl, Stefan Fröhling, Wilko Weichert, Benedikt Brors, Matthias Schlesner, Claudia R. Ball and Hanno Glimm. 2017. Genetic subclone architecture of tumor clone-initiating cells in colorectal cancer. DOI: 10.1084/jem.20162017
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Maria del Carmen Montero-Calasanz, Jan P. Meier-Kolthoff, Dao-Feng Zhang, Adnan Yaramis, Manfred Rohde, Tanja Woyke, Nikos C. Kyrpides, Peter Schumann, Wen-Jun Li and Markus Göker. 2017. Genome-scale data call for a taxonomic rearrangement of Geodermatophilaceae. DOI: 10.3389/fmicb.2017.02501
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Anne-Catherine Ahn, Jan P. Meier-Kolthoff, Lex Overmars, Michael Richter, Tanja Woyke, Dimitry Y. Sorokin and Gerard Muyzer. 2017. Genomic diversity within the haloalkaliphilic genus Thioalkalivibrio. DOI: 10.1371/journal.pone.0173517
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Christina Evers, Christian Staufner, Martin Granzow, Nagarajan Paramasivam, Katrin Hinderhofer, Lilian Kaufmann, Christine Fischer, Christian Thiel, Thomas Opladen, Urania Kotzaeridou, Stefan Wiemann, Matthias Schlesner, Roland Eils, Stefan Kölker, Claus R. Bartram, Georg F. Hoffmann and Ute Moog. 2017. Impact of clinical exomes in neurodevelopmental and neurometabolic disorders. DOI: 10.1016/j.ymgme.2017.06.014
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Felix Sahm, Umut H. Toprak, Daniel Hübschmann, Kortine Kleinheinz, Ivo Buchhalter, Martin Sill, Damian Stichel, Matthias Schick, Melanie Bewerunge-Hudler, Daniel Schrimpf, Gelareh Zadeh, Ken Aldape, Christel Herold-Mende, Katja Beck, Ori Staszewski, Marco Prinz, Carmit Ben Harosh, Roland Eils, Dominik Sturm, David T. W. Jones, Stefan M. Pfister, Werner Paulus, Zvi Ram, Matthias Schlesner, Rachel Grossman and Andreas von Deimling. 2017. Meningiomas induced by low-dose radiation carry structural variants of NF2 and a distinct mutational signature. DOI: 10.1007/s00401-017-1715-9
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S.M. Dieter, C. Heining, A. Agaimy, D. Huebschmann, D. Bonekamp, B. Hutter, K.R. Ehrenberg, M. Fröhlich, Matthias Schlesner, C. Scholl, H.-P. Schlemmer, S. Wolf, A. Mavratzas, C.S. Jung, S. Gröschel, Christof von Kalle, R. Eils, B. Brors, R. Penzel, M. Kriegsmann, D.E. Reuss, P. Schirmacher, A. Stenzinger, P.A. Federspil, W. Weichert, H. Glimm and S. Fröhling. 2017. Mutant KIT as imatinib-sensitive target in metastatic sinonasal carcinoma. DOI: 10.1093/annonc/mdw446
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D. Huebschmann, K. Kleinheinz, R. Wagener, H. Kretzmer, U. H. Toprak, S. H. Bernhart, C. Lopez Gonzales, M. Kreuz, R. Eils, M. Hansmann, S. Hoffmann, M. Hummel, W. Klapper, C. Lawerenz, M. Loeffler, P. Möller, J. Richter, P. Rosenstiel, A. Rosenwald, S. Stilgenbauer, M. Weniger, L. Trümper, R. Küppers, Matthias Schlesner and R. Siebert. 2017. Mutational signatures in germinal center derived B-cell lymphomas from adult patients analyzed in the ICGC MMML-SEQ consortium [Abstract]. DOI: 10.1002/hon.2437_95
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Steffen Dietz, Holger Sültmann, YueJun Du, Eva Reisinger, Anja Lisa Riediger, Anna-Lena Volckmar, Albrecht Stenzinger, Matthias Schlesner, Dirk Jäger, Markus Hohenfellner, Stefan Duensing, Carsten Grüllich and Sascha Pahernik. 2017. Patient-specific molecular alterations are associated with metastatic clear cell renal cell cancer progressing under tyrosine kinase inhibitor therapy. DOI: 10.18632/oncotarget.18200
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Meinhard Simon, Carmen Scheuner, Jan P. Meier-Kolthoff, Thorsten Brinkhoff, Irene Wagner-Döbler, Marcus Ulbrich, Hans-Peter Klenk, Dietmar Schomburg, Jörn Petersen and Markus Göker. 2017. Phylogenomics of Rhodobacteraceae reveals evolutionary adaptation to marine and non-marine habitats. DOI: 10.1038/ismej.2016.198
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Peter Horak, Barbara Klink, Christoph Heining, Stefan Gröschel, Barbara Hutter, Martina Fröhlich, Sebastian Uhrig, Daniel Hübschmann, Matthias Schlesner, Roland Eils, Daniela Richter, Katrin Pfütze, Christina Geörg, Bettina Meißburger, Stephan Wolf, Angela Schulz, Roland Penzel, Esther Herpel, Martina Kirchner, Amelie Lier, Volker Endris, Stephan Singer, Peter Schirmacher, Wilko Weichert, Albrecht Stenzinger, Richard F. Schlenk, Evelin Schröck, Benedikt Brors, Christof von Kalle, Hanno Glimm and Stefan Fröhling. 2017. Precision oncology based on omics data: the NCT Heidelberg experience. DOI: 10.1002/ijc.30828
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Daniel B. Lipka, Tania Witte, Reka Toth, Jing Yang, Manuel Wiesenfarth, Peter Nöllke, Alexandra Fischer, David Brocks, Zuguang Gu, Jeongbin Park, Brigitte Strahm, Marcin Wlodarski, Ayami Yoshimi, Rainer Claus, Michael Lübbert, Hauke Busch, Melanie Boerries, Mark Hartmann, Maximilian Schönung, Umut Kilik, Jens Langstein, Justyna A. Wierzbinska, Caroline Pabst, Swati Garg, Albert Catalá, Barbara De Moerloose, Michael Dworzak, Henrik Hasle, Franco Locatelli, Riccardo Masetti, Markus Schmugge, Owen Smith, Jan Stary, Marek Ussowicz, Marry M. van den Heuvel-Eibrink, Yassen Assenov, Matthias Schlesner, Charlotte Niemeyer, Christian Flotho and Christoph Plass. 2017. RAS-pathway mutation patterns define epigenetic subclasses in juvenile myelomonocytic leukemia. DOI: 10.1038/s41467-017-02177-w
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Abbas Agaimy, Matthias Bieg, Michael Michal, Helene Geddert, Bruno Märkl, Jan Seitz, Evgeny A. Moskalev, Matthias Schlesner, Markus Metzler, Arndt Hartmann, Stefan Wiemann, Michal Michal, Thomas Mentzel and Florian Haller. 2017. Recurrent somatic PDGFRB mutations in sporadic infantile/solitary adult myofibromas but not in angioleiomyomas and myopericytomas. DOI: 10.1097/pas.0000000000000752
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Julia Jabs, Franziska M. Zickgraf, Jeongbin Park, Steve Wagner, Xiaoqi Jiang, Katharina Jechow, Kortine Kleinheinz, Umut H. Toprak, Marc A. Schneider, Michael Meister, Saskia Spaich, Marc Sütterlin, Matthias Schlesner, Andreas Trumpp, Martin Sprick, Roland Eils and Christian Conrad. 2017. Screening drug effects in patient‐derived cancer cells links organoid responses to genome alterations. DOI: 10.15252/msb.20177697
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Annika Röttig, Ewelina Atasayar, Jan P. Meier-Kolthoff, Cathrin Spröer, Peter Schumann, Jennifer Schauer and Alexander Steinbüchel. 2017. Streptomyces jeddahensis sp. nov., an oleaginous bacterium isolated from desert soil. DOI: 10.1099/ijsem.0.001839
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Jannik Donner, Michael Reck, Boyke Bunk, Michael Jarek, Constantin Benjamin App, Jan P. Meier-Kolthoff, Jörg Overmann, Rolf Müller, Andreas Kirschning and Irene Wagner-Döbler. 2017. The biofilm inhibitor carolacton enters gram-negative cells: studies using a TolC-deficient strain of Escherichia coli. DOI: 10.1128/mspheredirect.00375-17
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Paul A. Northcott, Ivo Buchhalter, A. Sorana Morrissy, Volker Hovestadt, Joachim Weischenfeldt, Tobias Ehrenberger, Susanne Gröbner, Maia Segura-Wang, Thomas Zichner, Vasilisa A. Rudneva, Hans-Jörg Warnatz, Nikos Sidiropoulos, Aaron H. Phillips, Steven Schumacher, Kortine Kleinheinz, Sebastian M. Waszak, Serap Erkek, David T. W. Jones, Barbara C. Worst, Marcel Kool, Marc Zapatka, Natalie Jäger, Lukas Chavez, Barbara Hutter, Matthias Bieg, Nagarajan Paramasivam, Michael Heinold, Zuguang Gu, Naveed Ishaque, Christina Jäger-Schmidt, Charles D. Imbusch, Alke Jugold, Daniel Hübschmann, Thomas Risch, Vyacheslav Amstislavskiy, Francisco German Rodriguez Gonzalez, Ursula D. Weber, Stephan Wolf, Giles W. Robinson, Xin Zhou, Gang Wu, David Finkelstein, Yanling Liu, Florence M. G. Cavalli, Betty Luu, Vijay Ramaswamy, Xiaochong Wu, Jan Koster, Marina Ryzhova, Yoon-Jae Cho, Scott L. Pomeroy, Christel Herold-Mende, Martin Schuhmann, Martin Ebinger, Linda M. Liau, Jaume Mora, Roger E. McLendon, Nada Jabado, Toshihiro Kumabe, Eric Chuah, Yussanne Ma, Richard A. Moore, Andrew J. Mungall, Karen L. Mungall, Nina Thiessen, Kane Tse, Tina Wong, Steven J. M. Jones, Olaf Witt, Till Milde, Andreas von Deimling, David Capper, Andrey Korshunov, Marie-Laure Yaspo, Richard Kriwacki, Amar Gajjar, Jinghui Zhang, Rameen Beroukhim, Ernest Fraenkel, Jan O. Korbel, Benedikt Brors, Matthias Schlesner, Roland Eils, Marco A. Marra, Stefan M. Pfister, Michael D. Taylor and Peter Lichter. 2017. The whole-genome landscape of medulloblastoma subtypes. DOI: 10.1038/nature22973
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Heike M. Freese, Johannes Sikorski, Boyke Bunk, Carmen Scheuner, Jan P. Meier-Kolthoff, Cathrin Spröer, Lone Gram and Jörg Overmann. 2017. Trajectories and drivers of genome evolution in surface-associated marine Phaeobacter. DOI: 10.1093/gbe/evx249
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Jan P. Meier-Kolthoff and Markus Göker. 2017. VICTOR: genome-based phylogeny and classification of prokaryotic viruses. DOI: 10.1093/bioinformatics/btx440
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2016

Zuguang Gu, Roland Eils and Matthias Schlesner. 2016. "gtrellis": an R/Bioconductor package for making genome-level Trellis graphics. DOI: 10.1186/s12859-016-1051-4
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Kebria Hezaveh, Andreas Kloetgen, Stephan H. Bernhart, Kunal Das Mahapatra, Dido Lenze, Julia Richter, Andrea Haake, Anke K. Bergmann, Benedikt Brors, Birgit Burkhardt, Alexander Claviez, Hans G. Drexler, Roland Eils, Siegfried Haas, Steve Hoffmann, Dennis Karsch, Wolfram Klapper, Kortine Kleinheinz, Jan Korbel, Helene Kretzmer, Markus Kreuz, Ralf Küppers, Chris Lawerenz, Ellen Leich, Markus Loeffler, Luisa Mantovani-Loeffler, Cristina López, Alice C. McHardy, Peter Möller, Marius Rohde, Philip Rosenstiel, Andreas Rosenwald, Markus Schilhabel, Matthias Schlesner, Ingrid Scholz, Peter F. Stadler, Stephan Stilgenbauer, Stéphanie Sungalee, Monika Szczepanowski, Lorenz Trümper, Marc A. Weniger, Reiner Siebert, Arndt Borkhardt, Michael Hummel and Jessica I. Hoell. 2016. Alterations of microRNA and microRNA-regulated messenger RNA expression in germinal center B-cell lymphomas determined by integrative sequencing analysis. DOI: 10.3324/haematol.2016.143891
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Gero Knittel, Paul Liedgens, Darya Korovkina, Jens M. Seeger, Yussor Al-Baldawi, Mona Al-Maarri, Christian Fritz, Katerina Vlantis, Svetlana Bezhanova, Andreas H. Scheel, Olaf-Oliver Wolz, Maurice Reimann, Peter Möller, Cristina López, Matthias Schlesner, Philipp Lohneis, Alexander N. R. Weber, Lorenz Trümper, Louis M. Staudt, Monika Ortmann, Manolis Pasparakis, Reiner Siebert, Clemens A. Schmitt, Andreas R. Klatt, F. Thomas Wunderlich, Stephan C. Schäfer, Thorsten Persigehl, Manuel Montesinos-Rongen, Margarete Odenthal, Reinhard Büttner, Lukas P. Frenzel, Hamid Kashkar and H. Christian Reinhardt. 2016. B-cell–specific conditional expression of Myd88p.L252P leads to the development of diffuse large B-cell lymphoma in mice. DOI: 10.1182/blood-2015-11-684183
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Elisa M. Noll, Christian Eisen, Albrecht Stenzinger, Elisa Espinet, Alexander Muckenhuber, Corinna Klein, Vanessa Vogel, Bernd Klaus, Wiebke Nadler, Christoph Rösli, Christian Lutz, Michael Kulke, Jan Engelhardt, Franziska M. Zickgraf, Octavio Espinosa, Matthias Schlesner, Xiaoqi Jiang, Annette Kopp-Schneider, Peter Neuhaus, Marcus Bahra, Bruno V. Sinn, Roland Eils, Nathalia A. Giese, Thilo Hackert, Oliver Strobel, Jens Werner, Markus W. Büchler, Wilko Weichert, Andreas Trumpp and Martin R. Sprick. 2016. CYP3A5 mediates basal and acquired therapy resistance in different subtypes of pancreatic ductal adenocarcinoma. DOI: 10.1038/nm.4038
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Robert Riley, Sajeet Haridas, Kenneth H. Wolfe, Mariana R. Lopes, Chris Todd Hittinger, Markus Göker, Asaf A. Salamov, Jennifer H. Wisecaver, Tanya M. Long, Christopher H. Calvey, Andrea L. Aerts, Kerrie W. Barry, Cindy Choi, Alicia Clum, Aisling Y. Coughlan, Shweta Deshpande, Alexander P. Douglass, Sara J. Hanson, Hans-Peter Klenk, Kurt M. LaButti, Alla Lapidus, Erika A. Lindquist, Anna M. Lipzen, Jan P. Meier-Kolthoff, Robin A. Ohm, Robert P. Otillar, Jasmyn L. Pangilinan, Yi Peng, Antonis Rokas, Carlos A. Rosa, Carmen Scheuner, Andriy A. Sibirny, Jason C. Slot, J. Benjamin Stielow, Hui Sun, Cletus P. Kurtzman, Meredith Blackwell, Igor V. Grigoriev and Thomas W. Jeffries. 2016. Comparative genomics of biotechnologically important yeasts. DOI: 10.1073/pnas.1603941113
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Irina Panschin, Sixing Huang, Jan P. Meier-Kolthoff, Brian J. Tindall, Manfred Rohde, Susanne Verbarg, Alla Lapidus, James Han, Stephan Trong, Matthew Haynes, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Konstantinos Mavromatis, Victor Markowitz, Tanja Woyke, Markus Göker, Hans-Peter Klenk, Nikos C. Kyrpides and Richard L. Hahnke. 2016. Comparing polysaccharide decomposition between the type strains Gramella echinicola KMM 6050T (DSM 19838T) and Gramella portivictoriae UST040801-001T (DSM 23547T), and emended description of Gramella echinicola Nedashkovskaya et al. 2005 emend. Shahina et al. 2014 and Gramella portivictoriae Lau et al. 2005. DOI: 10.1186/s40793-016-0163-9
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Zuguang Gu, Roland Eils and Matthias Schlesner. 2016. Complex heatmaps reveal patterns and correlations in multidimensional genomic data. DOI: 10.1093/bioinformatics/btw313
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Tobias Bauer, Saskia Trump, Naveed Ishaque, Loreen Thürmann, Lei Gu, Mario Bauer, Matthias Bieg, Zuguang Gu, Dieter Weichenhan, Jan‐Philipp Mallm, Stefan Röder, Gunda Herberth, Eiko Takada, Oliver Mücke, Marcus Winter, Kristin M. Junge, Konrad Grützmann, Ulrike Rolle‐Kampczyk, Qi Wang, Christian Lawerenz, Michael Borte, Tobias Polte, Matthias Schlesner, Michaela Schanne, Stefan Wiemann, Christina Geörg, Hendrik G. Stunnenberg, Christoph Plass, Karsten Rippe, Junichiro Mizuguchi, Carl Herrmann, Roland Eils and Irina Lehmann. 2016. Environment‐induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children. DOI: 10.15252/msb.20156520
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Christina Evers, Lilian Kaufmann, Angelika Seitz, Nagarajan Paramasivam, Martin Granzow, Stephanie Karch, Christine Fischer, Katrin Hinderhofer, Georg Gdynia, Michael Elsässer, Stefan Pinkert, Matthias Schlesner, Claus R. Bartram and Ute Moog. 2016. Exome sequencing reveals a novel CWF19L1 mutation associated with intellectual disability and cerebellar atrophy. DOI: 10.1002/ajmg.a.37632
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Richard L. Hahnke, Jan P. Meier-Kolthoff, Marina García-López, Supratim Mukherjee, Marcel Huntemann, Natalia N. Ivanova, Tanja Woyke, Nikos C. Kyrpides, Hans-Peter Klenk and Markus Göker. 2016. Genome-based taxonomic classification of Bacteroidetes. DOI: 10.3389/fmicb.2016.02003
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Correction published at: 10.3389/fmicb.2018.00304

Daniel Garrido-Sanz, Jan P. Meier-Kolthoff, Markus Göker, Marta Martín, Rafael Rivilla and Miguel Redondo-Nieto. 2016. Genomic and genetic diversity within the Pseudomonas fluorescens complex. DOI: 10.1371/journal.pone.0150183
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Correction published at: 10.1371/journal.pone.0153733

Nisreen Tashkandy, Sari Sabban, Mohammad Fakieh, Jan P. Meier-Kolthoff, Sixing Huang, Brian J. Tindall, Manfred Rohde, Mohammed N. Baeshen, Nabih A. Baeshen, Alla Lapidus, Alex Copeland, Manoj Pillay, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia Ivanova, Victor Markowitz, Tanja Woyke, Markus Göker, Hans-Peter Klenk, Nikos C. Kyrpides and Richard L. Hahnke. 2016. High-quality draft genome sequence of Flavobacterium suncheonense GH29-5T (DSM 17707T) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5T. DOI: 10.1186/s40793-016-0159-5
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Zuguang Gu, Roland Eils and Matthias Schlesner. 2016. HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data. DOI: 10.1093/bioinformatics/btw161
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Rafiullah Rafiullah, Muhammad Aslamkhan, Nagarajan Paramasivam, Christian Thiel, Ghulam Mustafa, Stefan Wiemann, Matthias Schlesner, Rebecca C Wade, Gudrun A Rappold and Simone Berkel. 2016. Homozygous missense mutation in the LMAN2L gene segregates with intellectual disability in a large consanguineous Pakistani family. DOI: 10.1136/jmedgenet-2015-103179
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Jasper Sloothaak, Juan Antonio Tamayo-Ramos, Dorett I. Odoni, Thanaporn Laothanachareon, Christian Derntl, Astrid R. Mach-Aigner, Vitor A. P. Martins dos Santos and Peter J. Schaap. 2016. Identification and functional characterization of novel xylose transporters from the cell factories Aspergillus niger and Trichoderma reesei. DOI: 10.1186/s13068-016-0564-4
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Jasper Sloothaak, Dorett I. Odoni, Vitor A. P. Martins dos Santos, Peter J. Schaap and Juan Antonio Tamayo-Ramos. 2016. Identification of a novel L-rhamnose uptake transporter in the filamentous Fungus Aspergillus niger. DOI: 10.1371/journal.pgen.1006468
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Zeynep Koşaloğlu, Inka Zörnig, Niels Halama, Iris Kaiser, Ivo Buchhalter, Niels Grabe, Roland Eils, Matthias Schlesner, Andrea Califano and Dirk Jäger. 2016. Identification of immunotherapeutic targets by genomic profiling of rectal NET metastases. DOI: 10.1080/2162402x.2016.1213931
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M. Szczepanowski, N. Masque-Soler, Matthias Schlesner, A. Haake, J. Richter, R. Wagener, B. Burkhardt, M. Kreuz, R. Siebert and W. Klapper. 2016. Immunohistochemical detection of inhibitor of DNA binding 3 mutational variants in mature aggressive B-cell lymphoma. DOI: 10.3324/haematol.2015.138701
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Aitor Blanco-Míguez, Jan P. Meier-Kolthoff, Alberto Gutiérrez-Jácome, Markus Göker, Florentino Fdez-Riverola, Borja Sánchez and Anália Lourenço. 2016. Improving phylogeny reconstruction at the strain level using peptidome datasets. DOI: 10.1371/journal.pcbi.1005271
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Anton Shostak, Bianca Ruppert, Nati Ha, Philipp Bruns, Umut H. Toprak, Roland Eils, Matthias Schlesner, Axel Diernfellner and Michael Brunner. 2016. MYC/MIZ1-dependent gene repression inversely coordinates the circadian clock with cell cycle and proliferation. DOI: 10.1038/ncomms11807
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Dominik Sturm, Brent A. Orr, Umut H. Toprak, Volker Hovestadt, David T.W. Jones, David Capper, Martin Sill, Ivo Buchhalter, Paul A. Northcott, Irina Leis, Marina Ryzhova, Christian Koelsche, Elke Pfaff, Sariah J. Allen, Gnanaprakash Balasubramanian, Barbara C. Worst, Kristian W. Pajtler, Sebastian Brabetz, Pascal-David Johann, Felix Sahm, Jüri Reimand, Alan Mackay, Diana M. Carvalho, Marc Remke, Joanna J. Phillips, Arie Perry, Cynthia Cowdrey, Rachid Drissi, Maryam Fouladi, Felice Giangaspero, Maria Łastowska, Wiesława Grajkowska, Wolfram Scheurlen, Torsten Pietsch, Christian Hagel, Johannes Gojo, Daniela Lötsch, Walter Berger, Irene Slavc, Christine Haberler, Anne Jouvet, Stefan Holm, Silvia Hofer, Marco Prinz, Catherine Keohane, Iris Fried, Christian Mawrin, David Scheie, Bret C. Mobley, Matthew J. Schniederjan, Mariarita Santi, Anna M. Buccoliero, Sonika Dahiya, Christof M. Kramm, André O. von Bueren, Katja von Hoff, Stefan Rutkowski, Christel Herold-Mende, Michael C. Frühwald, Till Milde, Martin Hasselblatt, Pieter Wesseling, Jochen Rößler, Ulrich Schüller, Martin Ebinger, Jens Schittenhelm, Stephan Frank, Rainer Grobholz, Istvan Vajtai, Volkmar Hans, Reinhard Schneppenheim, Karel Zitterbart, V. Peter Collins, Eleonora Aronica, Pascale Varlet, Stephanie Puget, Christelle Dufour, Jacques Grill, Dominique Figarella-Branger, Marietta Wolter, Martin U. Schuhmann, Tarek Shalaby, Michael Grotzer, Timothy van Meter, Camelia-Maria Monoranu, Jörg Felsberg, Guido Reifenberger, Matija Snuderl, Lynn Ann Forrester, Jan Koster, Rogier Versteeg, Richard Volckmann, Peter van Sluis, Stephan Wolf, Tom Mikkelsen, Amar Gajjar, Kenneth Aldape, Andrew S. Moore, Michael D. Taylor, Chris Jones, Nada Jabado, Matthias A. Karajannis, Roland Eils, Matthias Schlesner, Peter Lichter, Andreas von Deimling, Stefan M. Pfister, David W. Ellison, Andrey Korshunov and Marcel Kool. 2016. New brain tumor entities emerge from molecular classification of CNS-PNETs. DOI: 10.1016/j.cell.2016.01.015
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Barbara C. Worst, Cornelis M. van Tilburg, Gnana Prakash Balasubramanian, Petra Fiesel, Ruth Witt, Angelika Freitag, Miream Boudalil, Christopher Previti, Stephan Wolf, Sabine Schmidt, Sasithorn Chotewutmontri, Melanie Bewerunge-Hudler, Matthias Schick, Matthias Schlesner, Barbara Hutter, Lenka Taylor, Tobias Borst, Christian Sutter, Claus R. Bartram, Till Milde, Elke Pfaff, Andreas E. Kulozik, Arend von Stackelberg, Roland Meisel, Arndt Borkhardt, Dirk Reinhardt, Jan-Henning Klusmann, Gudrun Fleischhack, Stephan Tippelt, Uta Dirksen, Heribert Jürgens, Christof M. Kramm, Andre O. von Bueren, Frank Westermann, Matthias Fischer, Birgit Burkhardt, Wilhelm Wößmann, Michaela Nathrath, Stefan S. Bielack, Michael C. Frühwald, Simone Fulda, Thomas Klingebiel, Ewa Koscielniak, Matthias Schwab, Roman Tremmel, Pablo Hernáiz Driever, Johannes H. Schulte, Benedikt Brors, Andreas von Deimling, Peter Lichter, Angelika Eggert, David Capper, Stefan M. Pfister, David T. W. Jones and Olaf Witt. 2016. Next-generation personalised medicine for high-risk paediatric cancer patients – the INFORM pilot study. DOI: 10.1016/j.ejca.2016.06.009
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Florian Haller, Jasmin Knopf, Anne Ackermann, Matthias Bieg, Kortine Kleinheinz, Matthias Schlesner, Evgeny A Moskalev, Rainer Will, Ali Abdel Satir, Ibtihalat E Abdelmagid, Johannes Giedl, Roman Carbon, Oliver Rompel, Arndt Hartmann, Stefan Wiemann, Markus Metzler and Abbas Agaimy. 2016. Paediatric and adult soft tissue sarcomas with NTRK1 gene fusions: a subset of spindle cell sarcomas unified by a prominent myopericytic/haemangiopericytic pattern. DOI: 10.1002/path.4701
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Asta Försti, Abhishek Kumar, Nagarajan Paramasivam, Matthias Schlesner, Calogerina Catalano, Dagmara Dymerska, Jan Lubinski, Roland Eils and Kari Hemminki. 2016. Pedigree based DNA sequencing pipeline for germline genomes of cancer families. DOI: 10.1186/s13053-016-0058-1
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Charlotte Peeters, Jan P. Meier-Kolthoff, Bart Verheyde, Evie De Brandt, Vaughn S. Cooper and Peter Vandamme. 2016. Phylogenomic study of Burkholderia glathei-like organisms, proposal of 13 novel Burkholderia species and emended descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae. DOI: 10.3389/fmicb.2016.00877
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Saskia Trump, Matthias Bieg, Zuguang Gu, Loreen Thürmann, Tobias Bauer, Mario Bauer, Naveed Ishaque, Stefan Röder, Lei Gu, Gunda Herberth, Christian Lawerenz, Michael Borte, Matthias Schlesner, Christoph Plass, Nicolle Diessl, Markus Eszlinger, Oliver Mücke, Horst-Dietrich Elvers, Dirk K. Wissenbach, Martin von Bergen, Carl Herrmann, Dieter Weichenhan, Rosalind J. Wright, Irina Lehmann and Roland Eils. 2016. Prenatal maternal stress and wheeze in children: novel insights into epigenetic regulation. DOI: 10.1038/srep28616
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Imen Nouioui, Faten Ghodhbane-Gtari, Maria del Carmen Montero-Calasanz, Markus Göker, Jan P. Meier-Kolthoff, Peter Schumann, Manfred Rohde, Michael Goodfellow, Maria P. Fernandez, Philippe Normand, Louis S. Tisa, Hans-Peter Klenk and Maher Gtari. 2016. Proposal of a type strain for Frankia alni (Woronin 1866) Von Tubeuf 1895, emended description of Frankia alni, and recognition of Frankia casuarinae sp. nov. and Frankia elaeagni sp. nov.. DOI: 10.1099/ijsem.0.001496
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Alex J. La Reau, Jan P. Meier-Kolthoff and Garret Suen. 2016. Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association. DOI: 10.1099/mgen.0.000099
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Rouven Hoefflin, Bernd Lahrmann, Gregor Warsow, Daniel Hübschmann, Cathleen Spath, Britta Walter, Xin Chen, Luisa Hofer, Stephan Macher-Goeppinger, Yanis Tolstov, Nina Korzeniewski, Anette Duensing, Carsten Grüllich, Dirk Jäger, Sven Perner, Gita Schönberg, Joanne Nyarangi-Dix, Sanjay Isaac, Gencay Hatiboglu, Dogu Teber, Boris Hadaschik, Sascha Pahernik, Wilfried Roth, Roland Eils, Matthias Schlesner, Holger Sültmann, Markus Hohenfellner, Niels Grabe and Stefan Duensing. 2016. Spatial niche formation but not malignant progression is a driving force for intratumoural heterogeneity. DOI: 10.1038/ncomms11845
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Elena Senís, Stefan Mockenhaupt, Daniel Rupp, Tobias Bauer, Nagarajan Paramasivam, Bettina Knapp, Jan Gronych, Stefanie Grosse, Marc P. Windisch, Florian Schmidt, Fabian J. Theis, Roland Eils, Peter Lichter, Matthias Schlesner, Ralf Bartenschlager and Dirk Grimm. 2016. TALEN/CRISPR-mediated engineering of a promoterless anti-viral RNAi hairpin into an endogenous miRNA locus. DOI: 10.1093/nar/gkw805
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Susanne N. Groebner, Barbara Worst, David T. W. Jones, Ivo Buchhalter, Kortine Kleinheinz, Joachim Weischenfeldt, Pascal D. Johann, Maia Segura-Wang, Paul A. Northcott, Marcel Kool, Barbara Hutter, Sebastian Bender, Jan O. Korbel, Matthias Schlesner, Lukas Chavez, Marc Zapatka, Peter Lichter and Stefan M. Pfister. 2016. TB-17A: comprehensive pan-cancer analysis of childhood malignancies [Abstract]. DOI: 10.1093/neuonc/now084.12
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Essaid Ait Barka, Parul Vatsa, Lisa Sanchez, Nathalie Gaveau-Vaillant, Cedric Jacquard, Jan P. Meier-Kolthoff, Hans-Peter Klenk, Christophe Clément, Yder Ouhdouch and Gilles P. van Wezel. 2016. Taxonomy, physiology, and natural products of Actinobacteria. DOI: 10.1128/mmbr.00019-15
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Correction published at: 10.1128/MMBR.00044-16

Ilias Lagkouvardos, Rüdiger Pukall, Birte Abt, Bärbel U. Foesel, Jan P. Meier-Kolthoff, Neeraj Kumar, Anne Bresciani, Inés Martínez, Sarah Just, Caroline Ziegler, Sandrine Brugiroux, Debora Garzetti, Mareike Wenning, Thi P. N. Bui, Jun Wang, Floor Hugenholtz, Caroline M. Plugge, Daniel A. Peterson, Mathias W. Hornef, John F. Baines, Hauke Smidt, Jens Walter, Karsten Kristiansen, Henrik B. Nielsen, Dirk Haller, Jörg Overmann, Bärbel Stecher and Thomas Clavel. 2016. The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota. DOI: 10.1038/nmicrobiol.2016.131
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Correction published at: 10.1038/nmicrobiol.2016.219

Matthias Schlesner. 2016. Übersicht: Chancen und Herausforderungen von Big Data in der Onkologie. DOI: 10.1055/s-0042-109379
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2015

Tyler S. Alioto, Ivo Buchhalter, Sophia Derdak, Barbara Hutter, Matthew D. Eldridge, Eivind Hovig, Lawrence E. Heisler, Timothy A. Beck, Jared T. Simpson, Laurie Tonon, Anne-Sophie Sertier, Ann-Marie Patch, Natalie Jäger, Philip Ginsbach, Ruben Drews, Nagarajan Paramasivam, Rolf Kabbe, Sasithorn Chotewutmontri, Nicolle Diessl, Christopher Previti, Sabine Schmidt, Benedikt Brors, Lars Feuerbach, Michael Heinold, Susanne Gröbner, Andrey Korshunov, Patrick S. Tarpey, Adam P. Butler, Jonathan Hinton, David Jones, Andrew Menzies, Keiran Raine, Rebecca Shepherd, Lucy Stebbings, Jon W. Teague, Paolo Ribeca, Francesc Castro Giner, Sergi Beltran, Emanuele Raineri, Marc Dabad, Simon C. Heath, Marta Gut, Robert E. Denroche, Nicholas J. Harding, Takafumi N. Yamaguchi, Akihiro Fujimoto, Hidewaki Nakagawa, Víctor Quesada, Rafael Valdés-Mas, Sigve Nakken, Daniel Vodák, Lawrence Bower, Andrew G. Lynch, Charlotte L. Anderson, Nicola Waddell, John V. Pearson, Sean M. Grimmond, Myron Peto, Paul Spellman, Minghui He, Cyriac Kandoth, Semin Lee, John Zhang, Louis Létourneau, Singer Ma, Sahil Seth, David Torrents, Liu Xi, David A. Wheeler, Carlos López-Otín, Elías Campo, Peter J. Campbell, Paul C. Boutros, Xose S. Puente, Daniela S. Gerhard, Stefan M. Pfister, John D. McPherson, Thomas J. Hudson, Matthias Schlesner, Peter Lichter, Roland Eils, David T. W. Jones and Ivo G. Gut. 2015. A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing. DOI: 10.1038/ncomms10001
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R. Wagener, L. B. Alexandrov, M. Montesinos-Rongen, Matthias Schlesner, A. Haake, H. G. Drexler, J. Richter, G. R. Bignell, U. McDermott and R. Siebert. 2015. Analysis of mutational signatures in exomes from B-cell lymphoma cell lines suggest APOBEC3 family members to be involved in the pathogenesis of primary effusion lymphoma. DOI: 10.1038/leu.2015.22
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J. Sloothaak, Dorett I. Odoni, L. H. de Graaff, V. A. P. Martins dos Santos, P. J. Schaap and J. A. Tamayo-Ramos. 2015. Aspergillus niger membrane-associated proteome analysis for the identification of glucose transporters. DOI: 10.1186/s13068-015-0317-9
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Max C. Waldhauer, Silvan N. Schmitz, Constantin Ahlmann-Eltze, Jan G. Gleixner, Carolin C. Schmelas, Anna G. Huhn, Charlotte Bunne, Magdalena Büscher, Max Horn, Nils Klughammer, Jakob Kreft, Elisabeth Schäfer, Philipp A. Bayer, Stephen Krämer, Julia Neugebauer, Pierre Wehler, Matthias P. Mayer, Roland Eils and Barbara Di Ventura. 2015. Backbone circularization of Bacillus subtilis family 11 xylanase increases its thermostability and its resistance against aggregation. DOI: 10.1039/c5mb00341e
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Helene Kretzmer, Stephan H. Bernhart, Wei Wang, Andrea Haake, Marc A. Weniger, Anke K. Bergmann, Matthew J. Betts, Enrique Carrillo-de-Santa-Pau, Gero Doose, Jana Gutwein, Julia Richter, Volker Hovestadt, Bingding Huang, Daniel Rico, Frank Jühling, Julia Kolarova, Qianhao Lu, Christian Otto, Rabea Wagener, Judith Arnolds, Birgit Burkhardt, Alexander Claviez, Hans G. Drexler, Sonja Eberth, Roland Eils, Paul Flicek, Siegfried Haas, Michael Hummel, Dennis Karsch, Hinrik H. D. Kerstens, Wolfram Klapper, Markus Kreuz, Chris Lawerenz, Dido Lenze, Markus Loeffler, Cristina López, Roderick A. F. MacLeod, Joost H. A. Martens, Marta Kulis, José Ignacio Martín-Subero, Peter Möller, Inga Nagel, Simone Picelli, Inga Vater, Marius Rohde, Philip Rosenstiel, Maciej Rosolowski, Robert B. Russell, Markus Schilhabel, Matthias Schlesner, Peter F. Stadler, Monika Szczepanowski, Lorenz Trümper, Hendrik G. Stunnenberg, Ralf Küppers, Ole Ammerpohl, Peter Lichter, Reiner Siebert, Steve Hoffmann and Bernhard Radlwimmer. 2015. DNA methylome analysis in Burkitt and follicular lymphomas identifies differentially methylated regions linked to somatic mutation and transcriptional control. DOI: 10.1038/ng.3413
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Yang Liu, Qiliang Lai, Markus Göker, Jan P. Meier-Kolthoff, Meng Wang, Yamin Sun, Lei Wang and Zongze Shao. 2015. Genomic insights into the taxonomic status of the Bacillus cereus group. DOI: 10.1038/srep14082
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Richard L. Hahnke, Erko Stackebrandt, Jan P. Meier-Kolthoff, Brian J. Tindall, Sixing Huang, Manfred Rohde, Alla Lapidus, James Han, Stephan Trong, Matthew Haynes, T. B. K. Reddy, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Konstantinos Mavromatis, Victor Markowitz, Tanja Woyke, Markus Göker, Nikos C. Kyrpides and Hans-Peter Klenk. 2015. High quality draft genome sequence of Flavobacterium rivuli type strain WB 3.3-2T (DSM 21788T), a valuable source of polysaccharide decomposing enzymes. DOI: 10.1186/s40793-015-0032-y
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Matthias Schlesner and Roland Eils. 2015. Hypermutation takes the driver's seat. DOI: 10.1186/s13073-015-0159-x
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M. Granzow, N. Paramasivam, K. Hinderhofer, C. Fischer, S. Chotewutmontri, L. Kaufmann, C. Evers, U. Kotzaeridou, K. Rohrschneider, Matthias Schlesner, M. Sturm, S. Pinkert, R. Eils, C. R. Bartram, P. Bauer and U. Moog. 2015. Loss of function of PGAP1 as a cause of severe encephalopathy identified by whole exome sequencing: lessons of the bioinformatics pipeline. DOI: 10.1016/j.mcp.2015.05.012
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Gero Doose, Andrea Haake, Stephan H. Bernhart, Cristina López, Sujitha Duggimpudi, Franziska Wojciech, Anke K. Bergmann, Arndt Borkhardt, Birgit Burkhardt, Alexander Claviez, Lora Dimitrova, Siegfried Haas, Jessica I. Hoell, Michael Hummel, Dennis Karsch, Wolfram Klapper, Karsten Kleo, Helene Kretzmer, Markus Kreuz, Ralf Küppers, Chris Lawerenz, Dido Lenze, Markus Loeffler, Luisa Mantovani-Löffler, Peter Möller, German Ott, Julia Richter, Marius Rohde, Philip Rosenstiel, Andreas Rosenwald, Markus Schilhabel, Markus Schneider, Ingrid Scholz, Stephan Stilgenbauer, Hendrik G. Stunnenberg, Monika Szczepanowski, Lorenz Trümper, Marc A. Weniger, Steve Hoffmann, Reiner Siebert, Ingram Iaccarino and Matthias Schlesner. 2015. MINCR is a MYC-induced lncRNA able to modulate MYC's transcriptional network in Burkitt lymphoma cells. DOI: 10.1073/pnas.1505753112
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For full list of members of the ICGC MMML-Seq see the supplementary information on the publisher's website.

Christina Evers, Nagarajan Paramasivam, Katrin Hinderhofer, Christine Fischer, Martin Granzow, Annette Schmidt-Bacher, Roland Eils, Herbert Steinbeisser, Matthias Schlesner and Ute Moog. 2015. SIPA1L3 identified by linkage analysis and whole-exome sequencing as a novel gene for autosomal recessive congenital cataract. DOI: 10.1038/ejhg.2015.46
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Rabea Wagener, Sietse M. Aukema, Matthias Schlesner, Andrea Haake, Birgit Burkhardt, Alexander Claviez, Hans G. Drexler, Michael Hummel, Markus Kreuz, Markus Loeffler, Maciej Rosolowski, Cristina López, Peter Möller, Julia Richter, Marius Rohde, Matthew J. Betts, Robert B. Russell, Stephan H. Bernhart, Steve Hoffmann, Philip Rosenstiel, Markus Schilhabel, Monika Szczepanowski, Lorenz Trümper, Wolfram Klapper and Reiner Siebert. 2015. The PCBP1 gene encoding poly(rc) binding protein i is recurrently mutated in Burkitt lymphoma. DOI: 10.1002/gcc.22268
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I. Vater, M. Montesinos-Rongen, Matthias Schlesner, A. Haake, F. Purschke, R. Sprute, N. Mettenmeyer, I. Nazzal, I. Nagel, J. Gutwein, J. Richter, I. Buchhalter, R. B. Russell, O. D. Wiestler, R. Eils, M. Deckert and R. Siebert. 2015. The mutational pattern of primary lymphoma of the central nervous system determined by whole-exome sequencing. DOI: 10.1038/leu.2014.264
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Jan P. Meier-Kolthoff. 2015. Welcher Coli ist ein Coli? Sequenzierung des Typstamms von Escherichia coli. DOI: 10.1007/s12268-015-0600-0
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2014

Zuguang Gu, Lei Gu, Roland Eils, Matthias Schlesner and Benedikt Brors. 2014. "Circlize" implements and enhances circular visualization in R. DOI: 10.1093/bioinformatics/btu393
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Itziar Salaverria, Idoia Martin-Guerrero, Rabea Wagener, Markus Kreuz, Christian W. Kohler, Julia Richter, Barbara Pienkowska-Grela, Patrick Adam, Birgit Burkhardt, Alexander Claviez, Christine Damm-Welk, Hans G. Drexler, Michael Hummel, Elaine S. Jaffe, Ralf Küppers, Christine Lefebvre, Jasmin Lisfeld, Markus Löffler, Roderick A. F. Macleod, Inga Nagel, Ilske Oschlies, Maciej Rosolowski, Robert B. Russell, Grzegorz Rymkiewicz, Detlev Schindler, Matthias Schlesner, René Scholtysik, Carsten Schwaenen, Rainer Spang, Monika Szczepanowski, Lorenz Trümper, Inga Vater, Swen Wessendorf, Wolfram Klapper and Reiner Siebert. 2014. A recurrent 11q aberration pattern characterizes a subset of MYC-negative high-grade B-cell lymphomas resembling Burkitt lymphoma. DOI: 10.1182/blood-2013-06-507996
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Jan P. Meier-Kolthoff, Richard L. Hahnke, Jörn Petersen, Carmen Scheuner, Victoria Michael, Anne Fiebig, Christine Rohde, Manfred Rohde, Berthold Fartmann, Lynne A. Goodwin, Olga Chertkov, T. B. K. Reddy, Amrita Pati, Natalia N. Ivanova, Victor Markowitz, Nikos C. Kyrpides, Tanja Woyke, Markus Göker and Hans-Peter Klenk. 2014. Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy. DOI: 10.1186/1944-3277-9-2
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Johannes Wittmann, Brigitte Dreiseikelmann, Manfred Rohde, Jan P. Meier-Kolthoff, Boyke Bunk and Christine Rohde. 2014. First genome sequences of Achromobacter phages reveal new members of the N4 family. DOI: 10.1186/1743-422x-11-14
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Jan P. Meier-Kolthoff, Alexander F. Auch, Hans-Peter Klenk and Markus Göker. 2014. Highly parallelized inference of large genome-based phylogenies. DOI: 10.1002/cpe.3112
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Matthew J. Betts, Qianhao Lu, YingYing Jiang, Armin Drusko, Oliver Wichmann, Mathias Utz, Ilse A. Valtierra-Gutiérrez, Matthias Schlesner, Natalie Jaeger, David T. Jones, Stefan Pfister, Peter Lichter, Roland Eils, Reiner Siebert, Peer Bork, Gordana Apic, Anne-Claude Gavin and Robert B. Russell. 2014. Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions. DOI: 10.1093/nar/gku1094
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Katharina Drüppel, Michael Hensler, Kathleen Trautwein, Sebastian Koßmehl, Lars Wöhlbrand, Kerstin Schmidt‐Hohagen, Marcus Ulbrich, Nils Bergen, Jan P. Meier-Kolthoff, Markus Göker, Hans‐Peter Klenk, Dietmar Schomburg and Ralf Rabus. 2014. Pathways and substrate‐specific regulation of amino acid degradation in Phaeobacter inhibens DSM 17395 (archetype of the marine Roseobacter clade). DOI: 10.1111/1462-2920.12276
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Marius Rohde, Julia Richter, Matthias Schlesner, Matthew J. Betts, Alexander Claviez, Bettina R. Bonn, Martin Zimmermann, Christine Damm-Welk, Robert B. Russell, Arndt Borkhardt, Roland Eils, Jessica I. Hoell, Monika Szczepanowski, Ilske Oschlies, Wolfram Klapper, Birgit Burkhardt and Reiner Siebert. 2014. Recurrent RHOA mutations in pediatric Burkitt lymphoma treated according to the NHL-BFM protocols. DOI: 10.1002/gcc.22202
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Jan P. Meier-Kolthoff, Hans-Peter Klenk and Markus Göker. 2014. Taxonomic use of DNA G+C content and DNA–DNA hybridization in the genomic age. DOI: 10.1099/ijs.0.056994-0
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Emiel B. J. ten Buren, Michiel A. P. Karrenbelt, Marit Lingemann, Shreyans Chordia, Ying Deng, JingJing Hu, Johanna M. Verest, Vincen Wu, Teresita J. Bello Gonzalez, Ruben G. A. van Heck, Dorett I. Odoni, Tom Schonewille, Laura van der Straat, Leo H. de Graaff and Mark W. J. van Passel. 2014. Toolkit for visualization of the cellular structure and organelles in Aspergillus niger. DOI: 10.1021/sb500304m
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2013

Brendan M. Ryback, Dorett I. Odoni, Ruben G. A. van Heck, Youri van Nuland, Matthijn C. Hesselman, Vítor A. P. Martins dos Santos, Mark W. J. van Passel and Floor Hugenholtz. 2013. Design and analysis of a tunable synchronized oscillator. DOI: 10.1186/1754-1611-7-26
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Jan P. Meier-Kolthoff, Megan Lu, Marcel Huntemann, Susan Lucas, Alla Lapidus, Alex Copeland, Sam Pitluck, Lynne A. Goodwin, Cliff Han, Roxanne Tapia, Gabriele Pötter, Miriam Land, Natalia Ivanova, Manfred Rohde, Markus Göker, John C. Detter, Tanja Woyke, Nikos C. Kyrpides and Hans-Peter Klenk. 2013. Genome sequence of the chemoheterotrophic soil bacterium Saccharomonospora cyanea type strain (NA-134T). DOI: 10.4056/sigs.4207886
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Krishna Palaniappan, Jan P. Meier-Kolthoff, Hazuki Teshima, Matt Nolan, Alla Lapidus, Hope Tice, Tijana Glavina Del Rio, Jan-Fang Cheng, Cliff Han, Roxanne Tapia, Lynne A. Goodwin, Sam Pitluck, Konstantinos Liolios, Konstantinos Mavromatis, Ioanna Pagani, Natalia Ivanova, Natalia Mikhailova, Amrita Pati, Amy Chen, Manfred Rohde, Shanmugam Mayilraj, Stefan Spring, John C. Detter, Markus Göker, James Bristow, Jonathan A. Eisen, Victor Markowitz, Philip Hugenholtz, Nikos C. Kyrpides, Hans-Peter Klenk and Tanja Woyke. 2013. Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701T) and emended description of the genus Thermanaerovibrio. DOI: 10.4056/sigs.4237901
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Jan P. Meier-Kolthoff, Alexander F. Auch, Hans-Peter Klenk and Markus Göker. 2013. Genome sequence-based species delimitation with confidence intervals and improved distance functions. DOI: 10.1186/1471-2105-14-60
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Natalie Jäger, Matthias Schlesner, David T. W. Jones, Simon Raffel, Jan-Philipp Mallm, Kristin M. Junge, Dieter Weichenhan, Tobias Bauer, Naveed Ishaque, Marcel Kool, Paul A. Northcott, Andrey Korshunov, Ruben M. Drews, Jan Koster, Rogier Versteeg, Julia Richter, Michael Hummel, Stephen C. Mack, Michael D. Taylor, Hendrik Witt, Benedict Swartman, Dietrich Schulte-Bockholt, Marc Sultan, Marie-Laure Yaspo, Hans Lehrach, Barbara Hutter, Benedikt Brors, Stephan Wolf, Christoph Plass, Reiner Siebert, Andreas Trumpp, Karsten Rippe, Irina Lehmann, Peter Lichter, Stefan M. Pfister and Roland Eils. 2013. Hypermutation of the inactive X chromosome is a frequent event in cancer. DOI: 10.1016/j.cell.2013.09.042
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Ralf Wagner, Gülsah Gabriel, Matthias Schlesner, Nina Alex, Astrid Herwig, Ortrud Werner and Hans-Dieter Klenk. 2013. Protease activation mutants elicit protective immunity against highly pathogenic avian influenza viruses of subtype H7 in chickens and mice. DOI: 10.1038/emi2013.7
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David T. W. Jones, Barbara Hutter, Natalie Jäger, Andrey Korshunov, Marcel Kool, Hans-Jörg Warnatz, Thomas Zichner, Sally R. Lambert, Marina Ryzhova, Dong Anh Khuong Quang, Adam M. Fontebasso, Adrian M. Stütz, Sonja Hutter, Marc Zuckermann, Dominik Sturm, Jan Gronych, Bärbel Lasitschka, Sabine Schmidt, Huriye Şeker-Cin, Hendrik Witt, Marc Sultan, Meryem Ralser, Paul A. Northcott, Volker Hovestadt, Sebastian Bender, Elke Pfaff, Sebastian Stark, Damien Faury, Jeremy Schwartzentruber, Jacek Majewski, Ursula D. Weber, Marc Zapatka, Benjamin Raeder, Matthias Schlesner, Catherine L. Worth, Cynthia C. Bartholomae, Christof von Kalle, Charles D. Imbusch, Sylwester Radomski, Chris Lawerenz, Peter van Sluis, Jan Koster, Richard Volckmann, Rogier Versteeg, Hans Lehrach, Camelia Monoranu, Beate Winkler, Andreas Unterberg, Christel Herold-Mende, Till Milde, Andreas E. Kulozik, Martin Ebinger, Martin U. Schuhmann, Yoon-Jae Cho, Scott L. Pomeroy, Andreas von Deimling, Olaf Witt, Michael D. Taylor, Stephan Wolf, Matthias A. Karajannis, Charles G. Eberhart, Wolfram Scheurlen, Martin Hasselblatt, Keith L. Ligon, Mark W. Kieran, Jan O. Korbel, Marie-Laure Yaspo, Benedikt Brors, Jörg Felsberg, Guido Reifenberger, V. Peter Collins, Nada Jabado, Roland Eils and Peter Lichter. 2013. Recurrent somatic alterations of FGFR1 and NTRK2 in pilocytic astrocytoma. DOI: 10.1038/ng.2682
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the International Cancer Genome Consortium PedBrain Tumor Project

Ludmil B. Alexandrov, Serena Nik-Zainal, David C. Wedge, Samuel A. J. R. Aparicio, Sam Behjati, Andrew V. Biankin, Graham R. Bignell, Niccolò Bolli, Ake Borg, Anne-Lise Børresen-Dale, Sandrine Boyault, Birgit Burkhardt, Adam P. Butler, Carlos Caldas, Helen R. Davies, Christine Desmedt, Roland Eils, Jórunn Erla Eyfjörd, John A. Foekens, Mel Greaves, Fumie Hosoda, Barbara Hutter, Tomislav Ilicic, Sandrine Imbeaud, Marcin Imielinski, Natalie Jäger, David T. W. Jones, David Jones, Stian Knappskog, Marcel Kool, Sunil R. Lakhani, Carlos López-Otín, Sancha Martin, Nikhil C. Munshi, Hiromi Nakamura, Paul A. Northcott, Marina Pajic, Elli Papaemmanuil, Angelo Paradiso, John V. Pearson, Xose S. Puente, Keiran Raine, Manasa Ramakrishna, Andrea L. Richardson, Julia Richter, Philip Rosenstiel, Matthias Schlesner, Ton N. Schumacher, Paul N. Span, Jon W. Teague, Yasushi Totoki, Andrew N. J. Tutt, Rafael Valdés-Mas, Marit M. van Buuren, Laura van ’t Veer, Anne Vincent-Salomon, Nicola Waddell, Lucy R. Yates, Jessica Zucman-Rossi, P. Andrew Futreal, Ultan McDermott, Peter Lichter, Matthew Meyerson, Sean M. Grimmond, Reiner Siebert, Elías Campo, Tatsuhiro Shibata, Stefan M. Pfister, Peter J. Campbell and Michael R. Stratton. 2013. Signatures of mutational processes in human cancer. DOI: 10.1038/nature12477
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Jan P. Meier-Kolthoff, Markus Göker, Cathrin Spröer and Hans-Peter Klenk. 2013. When should a DDH experiment be mandatory in microbial taxonomy?. DOI: 10.1007/s00203-013-0888-4
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2012

Matthijn C. Hesselman, Dorett I. Odoni, Brendan M. Ryback, Suzette de Groot, Ruben G. A. van Heck, Jaap Keijsers, Pim Kolkman, David Nieuwenhuijse, Youri M. van Nuland, Erik Sebus, Rob Spee, Hugo de Vries, Marten T. Wapenaar, Colin J. Ingham, Karin Schroën, Vítor A. P. Martins dos Santos, Sebastiaan K. Spaans, Floor Hugenholtz and Mark W. J. van Passel. 2012. A multi-platform flow device for microbial (co-) cultivation and microscopic analysis. DOI: 10.1371/journal.pone.0036982
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Claudia Otto, Maciej Giefing, Anne Massow, Inga Vater, Stefan Gesk, Matthias Schlesner, Julia Richter, Wolfram Klapper, Martin-Leo Hansmann, Reiner Siebert and Ralf Küppers. 2012. Genetic lesions of the TRAF3 and MAP3K14 genes in classical Hodgkin lymphoma. DOI: 10.1111/j.1365-2141.2012.09113.x
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Julia Richter, Matthias Schlesner, Steve Hoffmann, Ellen Leich, Birgit Burkhardt, Maciej Rosolowski, Ole Ammerpohl, Rabea Wagener, Stephan Bernhart, Dido Lenze, Monika Szczepanowski, Maren Paulsen, Simone Lipinski, Robert Russell, Sabine Adam-Klages, Gordana Apic, Alexander Claviez, Dirk Hasenclever, Volker Hovestadt, Nadine Hornig, Jan Korbel, Dieter Kube, David Langenberger, Chris Lawerenz, Jasmin Lisfeld, Katharina Meyer, Simone Picelli, Jordan Pischimarov, Bernhard Radlwimmer, Tobias Rausch, Marius Rohde, Markus Schilhabel, René Scholtysik, Rainer Spang, Heiko Trautmann, Thorsten Zenz, Arndt Borkhardt, Hans Drexler, Peter Möller, Roderick MacLeod, Christiane Pott, Stefan Schreiber, Lorenz Trümper, Markus Loeffler, Peter Stadler, Peter Lichter, Roland Eils, Ralf Küppers, Michael Hummel, Wolfram Klapper, Philip Rosenstiel, Andreas Rosenwald, Benedikt Brors and Reiner Siebert. 2012. Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing. DOI: 10.1038/ng.2469
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the ICGC MMML-Seq Project

Matthijn C. Hesselman, Jasper J. Koehorst, Thijs Slijkhuis, Dorett I. Odoni, Floor Hugenholtz and Mark W. J. van Passel. 2012. The Constructor: a web application optimizing cloning strategies based on modules from the registry of standard biological parts. DOI: 10.1186/1754-1611-6-14
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Matthias Schlesner, Arthur Miller, Hüseyin Besir, Michalis Aivaliotis, Judith Streif, Beatrix Scheffer, Frank Siedler and Dieter Oesterhelt. 2012. The protein interaction network of a taxis signal transduction system in a halophilic archaeon. DOI: 10.1186/1471-2180-12-272
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2009

Matthias Schlesner, Arthur Miller, Stefan Streif, Wilfried F. Staudinger, Judith Müller, Beatrix Scheffer, Frank Siedler and Dieter Oesterhelt. 2009. Identification of archaea-specific chemotaxis proteins which interact with the flagellar apparatus. DOI: 10.1186/1471-2180-9-56
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2007

Alexandros Stamatakis, Alexander F. Auch, Jan P. Meier-Kolthoff and Markus Göker. 2007. AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa. DOI: 10.1186/1471-2105-8-405
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Jan P. Meier-Kolthoff, Alexander F. Auch, Daniel H. Huson and Markus Göker. 2007. CopyCat: cophylogenetic analysis tool. DOI: 10.1093/bioinformatics/btm027
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2004

Bjorn Titz, Matthias Schlesner and Peter Uetz. 2004. What do we learn from high-throughput protein interaction data?. DOI: 10.1586/14789450.1.1.111
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