Dr Simone Linz

MSc, PhD

Senior Lecturer

In: Computer Science » Faculty of Science

Biography

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.

Postgraduate supervision

Current PhD students:

Jonathan Klawitter
Nguyet Tran

Distinctions/Honours

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.

Responsibilities

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
URL: http://hdl.handle.net/2292/29642
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
URL: http://hdl.handle.net/2292/28141
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
URL: http://hdl.handle.net/2292/24396
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
URL: http://hdl.handle.net/2292/24394
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
URL: http://hdl.handle.net/2292/24393