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I am an academic staff member academic staff member for bioinformatics at the Institute of Computer Science at Mainz University.

Previously I have been a postdoctoral Research Fellow at the University of Warwick in the group of Mark Achtman.

In 2016, I obtained my PhD in Bioinformatics working in the Genome Informatics group at the Faculty of Technology at Bielefeld University. I was a student in the German-Canadian DFG International Research Training Group DiDy ("Computational Methods for the Analysis of the Diversity and Dynamics of Genomes"). My thesis project was jointly supervised by Jens Stoye (Bielefeld University, Germany), Roland Wittler (Bielefeld University, Germany) and Cedric Chauve (Simon Fraser University, Canada).

My main research interest lies in comparative genomics. During my PhD, I worked on methods integrating ancient DNA sequencing data into comparative assembly approaches.

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Publications

PUB | Google Scholar

2018

• GrapeTree: Visualization of core genomic relationships among 100,000 bacterial pathogens
  Zhou Z, Alikhan N, Sergeant M, Luhmann N, Vaz C, Francisco A, Carrico J, Achtman M (2018)
  Genome research, 28(9), 1395-1404.
• Scaffolding of Ancient Contigs and Ancestral Reconstruction in a Phylogenetic Framework (Journal version)
  Luhmann N, Chauve C, Stoye J, Wittler R
  IEEE/ACM Transactions on Computational Biology and Bioinformatics.
• Accurate Reconstruction of Microbial Strains from Metagenomic Sequencing Using Representative Reference Genomes
  Zhou Z, Luhmann N, Alikhan NF, Quince C, Achtman M (2018)
  In: Raphael B. (eds) Research in Computational Molecular Biology. RECOMB 2018. Lecture Notes in Computer Science, vol 10812. Springer. (Preprint)
• Comparative Methods for Reconstructing Ancient Genome Organization
  Anselmetti Y, Luhmann N, Bérard S, Tannier E, Chauve C (2018)
  In: Comparative Genomics: Methods and Protocols. Setubal JC, Stoye J , Stadler P (Eds); Springer New York: 343-362.

2017

• Comparative scaffolding and gap filling of ancient bacterial genomes applied to two ancient Yersinia pestis genomes
  Luhmann N, Dörr D, Chauve C (2017)
  Microbial Genomics, 3.
• Phylogenetic assembly of paleogenomes integrating ancient DNA data
  Luhmann N (2017)
  Bielefeld University.
• The SCJ Small Parsimony Problem for Weighted Gene Adjacencies (Journal version)
  Luhmann N, Lafond M, Thévenin A, Ouangraoua A, Wittler R, Chauve C (2017)
  IEEE/ACM Transactions on Computational Biology and Bioinformatics 14.

2016

• The SCJ small parsimony problem for weighted gene adjacencies
  Luhmann N, Thévenin A, Ouangraoua A, Wittler R, Chauve C (2016)
  In: Proceedings 12th International Symposium, ISBRA 2016. Lecture Notes in Computer Science, 9683. Springer International Publishing: 200-210.

2014

• Scaffolding of Ancient Contigs and Ancestral Reconstruction in a Phylogenetic Framework
  Luhmann N, Chauve C, Stoye J, Wittler R (2014)
  In: Proc. of BSB 2014. Sérgio C (Ed); LNBI, 8826. Springer Verlag: 135-143.

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Software

See Github repository.

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Teaching

Bielefeld University:

• "Sequenzanalyse - Meilensteine und aktuelle Themeninhalte" (student seminar in sequence analysis) [2015/2016]
• "Algorithmische Implementierung" (programming of bioinformatics algorithms) [2015/2016]
• "Vorlesung Sequenzanalyse" (sequence analysis lecture) [2014/2015]
• "Sequenzanalyse-Praktikum" (sequence analysis practical course) [2014]
• Teaching assistance in Algorithms and Datastructures, Sequence analysis I+II, Basics in computer science, "Vorkurs Informatik" [2010-2013]