Publications

  • Erik Alm, Eeva K Broberg, Thomas Connor, Emma B Hodcroft, Andrey B Komissarov, Sebastian Maurer-Stroh, Angeliki Melidou, Richard A Neher, Áine O’Toole, Dmitriy Pereyaslov, and others. Geographical and temporal distribution of sars-cov-2 clades in the who european region, january to june 2020. Eurosurveillance, 25(32):2001410, 2020.

  • Chaoran Chen, Sarah Ann Nadeau, Ivan Topolsky, Marc Manceau, Jana S Huisman, Kim Philipp Jablonski, Lara Fuhrmann, David Dreifuss, Katharina Jahn, Christiane Beckmann, and others. Quantification of the spread of sars-cov-2 variant b. 1.1. 7 in switzerland. medRxiv, 2021.

  • Lara Fuhrmann, Kim Philipp Jablonski, and Niko Beerenwinkel. Quantitative measures of within-host viral genetic diversity. Current Opinion in Virology, 49:157–163, 2021.

  • Kim Philipp Jablonski and Niko Beerenwinkel. Computational methods for viral quasispecies assembly. In Virus Bioinformatics, pages 51–64. Chapman and Hall/CRC, 2021.

  • Kim Philipp Jablonski, Leopold Carron, Julien Mozziconacci, Thierry Forné, Marc-Thorsten Hütt, and Annick Lesne. Contribution of 3d genome topological domains to genetic risk of cancers: a genome-wide computational study. Human genomics, 16(1):1–15, 2022.

  • Kim Philipp Jablonski, Christoph Fretter, Leopold Carron, Thierry Forné, M-T Hütt, and Annick Lesne. Genome supranucleosomal organization and genetic susceptibility to diseases. In AIP Conference Proceedings, volume 1882, 020027. AIP Publishing LLC, 2017.

  • Kim Philipp Jablonski, Martin Franz-Xaver Pirkl, Domagoj Cevid, Peter Buehlmann, and Niko Beerenwinkel. Identifying cancer pathway dysregulations using differential causal effects. bioRxiv, 2021.

  • missing journal in jahn2021detection

  • Kosmas Kosmidis, Kim Philipp Jablonski, Georgi Muskhelishvili, and Marc-Thorsten Hütt. Chromosomal origin of replication coordinates logically distinct types of bacterial genetic regulation. NPJ systems biology and applications, 6(1):1–9, 2020.

  • Jack Kuipers, Aashil A Batavia, Kim Philipp Jablonski, Fritz Bayer, Nico Borgsmüller, Arthur Dondi, Monica-Andreea Drăgan, Pedro Ferreira, Katharina Jahn, Lisa Lamberti, and others. Within-patient genetic diversity of sars-cov-2. BioRxiv, 2020.

  • Felix Mölder, Kim Philipp Jablonski, Brice Letcher, Michael B Hall, Christopher H Tomkins-Tinch, Vanessa Sochat, Jan Forster, Soohyun Lee, Sven O Twardziok, Alexander Kanitz, and others. Sustainable data analysis with snakemake. F1000Research, 2021.

  • Sarah Nadeau, Christiane Beckmann, Ivan Topolsky, Timothy Vaughan, Emma Hodcroft, Tobias Schaer, Ina Nissen, Natascha Santacroce, Elodie Burcklen, Pedro Ferreira, and others. Quantifying sars-cov-2 spread in switzerland based on genomic sequencing data. medRxiv, 2020.

  • Sarah A Nadeau, Timothy G Vaughan, Christiane Beckmann, Ivan Topolsky, Chaoran Chen, Emma Hodcroft, Tobias Schär, Ina Nissen, Natascha Santacroce, Elodie Burcklen, and others. Swiss public health measures associated with reduced sars-cov-2 transmission using genome data. medRxiv, 2021.

  • Susana Posada-Céspedes, David Seifert, Ivan Topolsky, Kim Philipp Jablonski, Karin J Metzner, and Niko Beerenwinkel. V-pipe: a computational pipeline for assessing viral genetic diversity from high-throughput data. Bioinformatics, 2021.

  • Manfred A Schäck, Kim Philipp Jablonski, Stefan Gräf, Roland Klassen, Raffael Schaffrath, Stefanie Kellner, and Christian Hammann. Eukaryotic life without tqcug: the role of elongator-dependent trna modifications in dictyostelium discoideum. Nucleic acids research, 48(14):7899–7913, 2020.