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Dr. rer. nat. Kevin Lamkiewicz

Twitter URL

room 08S06

phone +49-3641-9-46484

mail kevin.lamkiewicz[at]uni-jena[dot]de

github GitHub

google scholar Google Scholar

rg Research Gate

orcid ORCID


Main research focus

During my PhD time, my research was focused on RNA secondary structure prediction (and functional annotation) in RNA viruses. Together with many great collaboration partners I was able to participate in studies that, for example, indicate that the disruption of a small structural element in the 5' UTR of coronaviruses lead to a complete shutdown of viral replication.
To facilitate studies in the field of RNA structures in viruses, I develop tools and pipelines to automatically identify such structural elements in novel viruses.

Further, I am interested in regulatory elements in viruses in general, regardless of the molecule being RNA or not. In the end, I want to provide a global overview of the interaction network of viral elements with the host, but also the host response in case of an infection. From this, new hypothesis and maybe even approaches for therapies can be derived.


Publications

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

  • "Virus Bioinformatics"
    N. Pappas, S. Roux, M. Hölzer, K. Lamkiewicz, F. Mock, M. Marz, B. E. Dutilh
    Reference Module in Life Sciences, Elsevier

  • "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

  • "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

  • "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

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

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