Dr Simone Linz
Simone Linz is a Senior Lecturer in the Department of Computer Science at the University of Auckland and an Associate Investigator of Te Pūnaha Matatini - The Centre for Complex Systems and Networks (CoRE).
Prior to joining the University of Auckland, she was a Marie Curie Fellow in the School of Mathematics and Statistics at the University of Canterbury and in the Center for Bioinformatics at the University of Tübingen, funded by a Marie Curie International Outgoing Fellowship and awarded by the European Commission.
For more details, see my external homepage.
Research | Current
Mathematical and computational biology; in particular algorithmic and combinatorial problems arising in phylogenetics, i.e. the reconstruction and analysis of evolutionary trees and networks.
Teaching | Current
2018 S1 COMPSCI 225, BIOINF 702
All teaching material is available on Canvas.
Current PhD students:
- Jonathan Klawitter
- Nguyet Tran
2015 Marsden Fund Fast-Start Grant (PI) for three years, awarded by the Royal Society of New Zealand.
2015 Selected participant of the year-long Women in Leadership Programme 2016 at the University of Auckland.
2011 Marie Curie International Outgoing Fellowship for three years, awarded by the European Commission.
Computer Science Tuakana coordinator.
Computer Science Stage-2 coordinator.
Selected publications and creative works (Research Outputs)
- Bordewich, M., Linz, S., & Semple, C. (2017). Lost in space? Generalising subtree prune and regraft to spaces of phylogenetic networks. Journal of theoretical biology, 423, 1-12. 10.1016/j.jtbi.2017.03.032
- Bryant, C., Fischer, M., Linz, S., & Semple, C. (2017). On the quirks of maximum parsimony and likelihood on phylogenetic networks. Journal of Theoretical Biology, 417, 100-108. 10.1016/j.jtbi.2017.01.013
- Huber, K. T., Linz, S., Moulton, V., & Wu, T. (2016). Spaces of phylogenetic networks from generalized nearest-neighbor interchange operations. Journal of Mathematical Biology, 72 (3), 699-725. 10.1007/s00285-015-0899-7
- van Iersel, L., Kelk, S., Lekić N, & Linz, S. (2016). Satisfying ternary permutation constraints by multiple linear orders or phylogenetic trees. Theoretical Computer Science, 609 (1), 1-21. 10.1016/j.tcs.2015.06.021
- Huson, D., & Linz, S. (2016). Autumn Algorithm – Computation of Hybridization Networks for Realistic Phylogenetic Trees. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 1-1. 10.1109/TCBB.2016.2537326
- Cordue, P., Linz, S., & Semple, C. (2014). Phylogenetic networks that display a tree twice. Bulletin of Mathematical Biology, 76 (10), 2664-2679. 10.1007/s11538-014-0032-x
- Syvanen, M., Ericksen, B., Linz, S., & Ducore, J. (2014). Quartet partitioning reveals hybrid origins of the Vertebrate. In P. Pontarotti (Ed.) Evolutionary Biology: Genome Evolution, Speciation, Coevolution and Origin of Life (pp. 191-205). Cham, Switzerland: Springer. 10.1007/978-3-319-07623-2_9
- Linz, S., St. John K, & Semple, C. (2013). Optimizing tree and character compatibility across several phylogenetic trees. Theoretical Computer Science, 513, 129-136. 10.1016/j.tcs.2013.10.015