Univ. Prof. Dr. Thomas Rattei

 

 

 

 

 

Head of the Division of Computational Systems Biology
Vice-head of the Department of Microbiology and Ecosystem Science

☎ +43 1 4277 91280

thomas.rattei@univie.ac.at 

Thomas Rattei’s work covers a wide spectrum of topics from bioinformatics, genome and metagenome analysis and systems biology. He has long-standing expertise in developing and applying computational methods for the interpretation of large-scale sequence information. The international reputation of his research group triggered their involvement in numerous international (meta-) genome sequencing and analysis consortia.

Thomas’ research activities not only cover individual, project-specific questions but also general problems in bioinformatics, computational infrastructure, and large-scale biological databases. Furthermore, his group develops novel, genome-based computational approaches for studying molecular inter-species interactions, such as between hosts and pathogens, between symbionts, or in microbial ecosystems.

Thomas and his team maintain and develop internationally relevant resources in computational biology, such as the web portals phendb.org, vogdb.org and effectivedb.org for microbial trait prediction, virus orthologous groups and protein families, and bacterial secreted proteins and secretion systems.

Links

Teaching

To explore Thomas' teaching activities at the University of Vienna, visit u:find.

Join the Team

If you are interested in joining the lab, explore open positions here or email Thomas directly.

Group Members

  • Michael Neumayer
  • Alexander Pfundner
  • Michael Predl
  • Roko Sango
  • Lovro Trgovec-Greif

 Publications

Lueftinger L, Ferreira I, Frank BJH, Beisken S, Weinberger J, von Haeseler A et al. Predictive Antibiotic Susceptibility Testing by Next-Generation Sequencing for Periprosthetic Joint Infections: Potential and Limitations. Biomedicines. 2021 Jul 29;9(8):910. doi: 10.3390/biomedicines9080910

Wasmund K, Pelikan C, Schintlmeister A, Wagner M, Watzka M, Richter A et al. Genomic insights into diverse bacterial taxa that degrade extracellular DNA in marine sediments. Nature Microbiology. 2021 Jul;6(7):885-898. Epub 2021 Jun 14. doi: 10.1038/s41564-021-00917-9

Gerner SM, Graf AB, Rattei T. Tamock: simulation of habitat-specific benchmark data in metagenomics. BMC Bioinformatics. 2021 May 1;22(1):227. Epub 2021 May 1. doi: 10.1186/s12859-021-04154-z

Walliser B, Lucaciu CR, Molitor C, Marinovic S, Nitarska DA, Aktas D et al. Dahlia variabilis cultivar 'Seattle' as a model plant for anthochlor biosynthesis. Plant Physiology and Biochemistry. 2021 Feb;159:193-201. Epub 2020 Dec 17. doi: 10.1016/j.plaphy.2020.12.016

Feldbauer R, Gosch L, Lüftinger L, Hyden P, Flexer A, Rattei T. DeepNOG: Fast and accurate protein orthologous group assignment. Bioinformatics. 2020 Dec 1;36(22-23):5304-5312. doi: 10.1093/bioinformatics/btaa1051

Pascelli C, Laffy PW, Botté E, Kupresanin M, Rattei T, Lurgi M et al. Viral ecogenomics across the Porifera. Microbiome. 2020 Oct 2;8(1):144. Epub 2020 Oct 2. doi: 10.1186/s40168-020-00919-5

Herrera P, Schuster L, Wentrup C, König L, Kempinger T, Na H et al. Molecular causes of an evolutionary shift along the parasitism-mutualism continuum in a bacterial symbiont. Proceedings of the National Academy of Sciences of the United States of America (PNAS). 2020 Sep 1;117(35):21658-21666. Epub 2020 Aug 19. doi: 10.1073/pnas.2005536117

Esteves FG, Dos Santos-Pinto JRA, Ferro M, Sialana FJ, Smidak R, Rares LC et al. Revealing the Venomous Secrets of the Spider's Web. Journal of Proteome Research. 2020 Aug 7;19(8):3044-3059. doi: 10.1021/acs.jproteome.0c00086