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Publications

This list just includes articles and other publications that were published as result of our work. For publications of individual group members before joining, we kindly refer to their own member page.

Peer-reviewed articles & reviews

2022

  • "A genome-wide CRISPR activation screen reveals Hexokinase 1 as a critical factor in promoting resistance to multi-kinase inhibitors in hepatocellular carcinoma cells."
    S. Sofer, K. Lamkiewicz, S. Armoza Eilat, S. Partouche, M. Marz, N. Moskovits, S.M. Stemmer, A. Shlomai, and E.H. Sklan
    The FASEB Journal, 36:e22191

  • "Comparative study of ten thogotovirus isolates and their distinct in vivo characteristics"
    J. Fuchs, K. Lamkiewicz, L. Kolesnikova, M. Hölzer, M. Marz, and G. Kochs
    Journal of Virology, JVI. 01556-21

2021

  • "Rfam 14: expanded coverage of metagenomic, viral, and microRNA families"
    I. Kalvari, E. P. Nawrocki, N. Ontiveros-Palacios, J. Argasinska, K. Lamkiewicz, M. Marz, S. Griffiths-Jones, C. Toffano-Nioche, D. Gautheret, Z. Weinberg, E. Rivas, S. R. Eddy, R. D. Finn, A. Bateman, and A. I. Petrov
    Nucleic Acids Research, Volume 49, Issue D1, D192-D200

  • "Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research"
    F. Hufsky, K. Lamkiewicz, A. Almeida, A. Aouacheria, C. Arighi, A. Bateman, J. Baumbach, N. Beerenwinkel, C. Brandt, M. Cacciabue, S. Chuguransky, O. Drechsel, R. D. Finn, A. Fritz, S. Fuchs, G. Hattab, A. Hauschild, D. Heider, M. Hoffmann, M. Hölzer, S. Hoops, L. Kaderali, I. Kalvari, M. von Kleist, R. Kmiecinski, D. Kühnert, G. Lasso, P. Libin, M. List, H. F. Löchel, M. J. Martin, R. Martin, J. Matschinske, A. C. McHardy, P. Mendes, J. Mistry, V. Navratil, E. P.Nawrocki, Á. O’Toole, N. Ontiveros-Palacios, A. I.Petrov, G. Rangel-Pineros, N. Redaschi, S. Reimering, K. Reinert, A. Reyes, L. Richardson, D. L. Robertson, S. Sadegh, J. B.Singer, K. Theys, C. Upton, M. Welzel, L. Williams, and M. Marz
    Briefings in Bioinformatics, Volume 22, Issue 2, Pages 642–663

2020

  • "Comparative genome analysis of 33 Chlamydia strains reveals characteristic features of Chlamydia psittaci and closely related species"
    M. Hölzer, L.-M. Barf, K. Lamkiewicz, F. Vorimore, M. Lataretu, A. Favaroni, C. Schnee, K. Laroucau, M. Marz, and K. Sachse
    Pathogens, 9(11):899

  • "HIV-1 lethality and loss of Env protein expression induced by single synonymous substitutions in the virus genome intronic splicing silencer"
    A. Jordan-Paiz, M. Nevot, K. Lamkiewicz, M. Lataretu, S. Franco, M. Marz, and M. A. Martinez:
    Journal of Virology, 94 (21) e01108-20

  • "A comprehensive annotation and differential expression analysis of short and long non-coding RNAs in 16 bat genomes"
    N. Mostajo, M. Lataretu, S. Krautwurst, F. Mock, D. Desiro, K. Lamkiewicz, M. Collatz, A. Schoen, F. Weber, M. Marz and M. Hölzer
    NAR Genomics and Bioinformatics, vol. 2, iss. 1, p. lqz006

2019

  • "Direct RNA nanopore sequencing of full-length coronavirus genomes provides novel insights into structural variants and enables modification analysis"
    A. Viehweger, S. Krautwurst, K. Lamkiewicz, R. Madhugiri, J. Ziebuhr, M. Hölzer and M. Marz
    Genome Research, p. 483693

  • "A CRISPR activation screen identifies genes protecting from Zika virus infection."
    A. Dukhovny, K. Lamkiewicz, Q. Chen, M. Fricke, N. Jabrane-Ferrat, M. Marz, J. U. Jung, and E. H. Sklan
    Journal of Virology, 93 (16) e00211-19

  • "Structure and hierarchy of influenza virus models revealed by reaction network analysis."
    S. Peter, M. Hölzer, K. Lamkiewicz, P. S. di Fenizio, H. A. Hwaeer, M. Marz, S. Schuster, P. Dittrich, and B. Ibrahim
    Viruses, vol. 11, iss. 5, p. 449

2018

  • "Structural and functional conservation of cis-acting RNA elements in coronavirus 5'-terminal genome regions."
    R. Madhugiri, N. Karl, D. Petersen, K. Lamkiewicz, M. Fricke, U. Wend, R. Scheuer, M. Marz, and J. Ziebuhr
    Virology, vol. 517, p. 44–55

Book chapters

2020

Preprints

2018

  • "Identification of potential microRNAs associated with Herpesvirus family based on bioinformatic analysis.”
    K. Lamkiewicz, E. Barth, M. Marz, and B. Ibrahim
    bioRxiv, p. 417782

Misc

2022

  • "The International Virus Bioinformatics Meeting 2022."
    F. Hufsky, D. Beslic, D. Boeckaerts, S. Duchene, E. González-Tortuero, A.J. Gruber, J. Guo, D. Jansen, J. Juma, K. Kongkitimanon, A. Luque, M. Ritsch, G. Lencioni Lovate, L. Nishimura, C. Pas, E. Domingo, E. Hodcroft, P. Lemey, M.B. Sullivan, F. Weber, F. González-Candelas, S. Krautwurst, A. Pérez-Cataluña, W. Randazzo, G. Sánchez, and M. Marz.
    Viruses, 14(5):973

2020

  • "The International Virus Bioinformatics Meeting 2020."
    F. Hufsky, N. Beerenwinkel, I. M. Meyer, S. Roux, G. M. Cook, C. M. Kinsella, K. Lamkiewicz, M. Marquet, D. F. Nieuwenhuijse, I. Olendraite, S. Paraskevopoulou, F. Young, R. Dijkman, B. Ibrahim, J. Kelly, P. Le Mercier, M. Marz, A. Ramette, and V. Thiel
    Viruses, 12, 1398

2019

  • "The third annual meeting of the European Virus Bioinformatics Center."
    F. Hufsky, B. Ibrahim, S. Modha, M. R. J. Clokie, S. Deinhardt-Emmer, B. E. Dutilh, S. Lycett, P. Simmonds, V. Thiel, A. Abroi, E. M. Adriaenssens, M. Escalera-Zamudio, J. N. Kelly, K. Lamkiewicz, L. Lu, J. Susat, T. Sicheritz, D. L. Robertson, and M. Marz
    Viruses, vol. 11, iss. 5, p. 420