Fabian Freund

PostDoc

Crop Biodiversity and Breeding Informatics Group (350b)
Institute of Plant Breeding, Seed Science and Population Genetics
University of Hohenheim
Fruwirthstrasse 21, Room 0.27
D-70599 Stuttgart

Phone: +49-711-459 24436
Email: Fabian.Freund@uni-hohenheim.de

Research interests

• Population genetics

• Stochastic models

• Coalescent theory

• Statistics in population genetics

Publications

• Menardo, F., Gagneux, S. and Freund, F. "Multiple merger genealogies in outbreaks of Mycobacterium tuberculosis" bioRxiv preprint, submitted.
• Freund, F. and Siri-Jégousse, A. "The minimal observable clade size of exchangeable coalescents" (2019). arXiv preprint, submitted.
• Freund, F. and Siri-Jégousse, A. "Distinguishing coalescent models - which statistics matter most?" (2019). bioRxiv preprint, submitted
• Freund, F. "Cannings models, populations size changes and multiple-merger coalescents" (2019), submitted. A preprint is available here arXiv:1902.02155

• Eldon, B. and Freund, F. "Genealogical properties of subsamples in highly fecund populations" (2018) J Stat Phys, read-only version for non-subscribers available here

• Freund, F. and Möhle, M. "On the size of the block of 1 for Ξ-coalescents with dust" (2017). Modern Stochastics: Theory and Applications 4(4), 407-425

• Russell, J., Mascher, M., Dawson, I.K., Kyriakidis, S., Calixto, C., Freund, F., Bayer, M., Milne, I., Marshall-Griffiths, T., Heinen, S., Hofstad, A., Sharma, R., Himmelbach, A., Knauft, M., van Zonneveld, M., Brown, J.W.S., Schmid, K., Kilian, B., Muehlbauer, G.J., Stein, N. and Waugh, R. (2016) Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation. Nature Genetics 48,1024-1030

• Eldon, B., Birkner, M., Blath, J. and Freund, F. (2015) Can the site-frequency spectrum distinguish exponential population growth from multiple-merger coalescents? Genetics 199(3), 841-856

• Müller, T., Freund, F., Wildhagen, H. and Schmid, K.J. (2014) Targeted re-sequencing of five Douglas-fir provenances reveals population structure and putative target genes of positive selection. Tree Genetics & Genomes

• Freund, F. and Siri-Jégousse, A. (2014) Minimal clade size in the Bolthausen-Sznitman coalescent. J. Appl. Probab. 51(3), 657-668. Preprint available via arXiv:1301.2908

• Dhersin, J.S., Freund, F., Siri-Jégousse, A. and Yuan, L. (2013) On the length of an external branch in the Beta-coalescent. Stoch. Proc. Appl. 123, 1691–1715. A preprint is available via arXiv:1201.3983

• Freund, F. (2012) Almost sure asymptotics for the number of types for simple Ξ-coalescents. ECP 17, article 3

• Freund, F. and Möhle, M. (2009) On the number of allelic types for samples taken from exchangeable coalescents with mutation. Adv. Appl. Probab. 41, 1082-1101

• Freund, F. and Möhle, M. (2009) On the time back to the most recent common ancestor and the external branch length of the Bolthausen-Sznitman coalescent. Markov Process. Related Fields 15, 387-416

My PhD thesis (in German)

Teaching

From winter term 2011/12 to winter term 2015/16 (4 SWS) and occasionally in 2019/20, I participated in teaching the following courses

• Methods of Scientific Working for Crop Sciences (Winter Term)

• Population and Quantitative Genetics (Winter Term)

• Quantitative Methods in Plant and Livestock Genomics (Winter Term)

• Plant Genetic Resources (Summer Term)

Additional teaching:

• Summer 2017: Summer school Analysis and utilization of genomic diversity for plant breeding of the Euroleague of Life Sciences with K. Schmid and B. Dößelmann

• Summer term 2016: Summer school Population Genetics and Genomics of Adaptation with K. Schmid, Zurich-Basel Plant Science Center (ETH Zurich, University of Basel )

• Summer term 2014: Agrarbiologisches Projekt (in German)

• Summer term 2014: 4 lecture units at the summer school "Plant Molecular Breeding to Meet the Challenges of Climate Change" of the Euroleague of Life Sciences held at BOKU (Tulln, Austria)

Earlier teaching:

Various exercise groups, mostly in probability theory and statistics, at the Eberhard Karls Universität Tübingen and the Heinrich-Heine-Universität Düsseldorf

Links

• My R Code repository for computing genetic diversity statistics and for (multiple merger) coalescent simulation

• Workshop (2018) Bayesian statistics - how to make a sound analysis (in population genetics) (within SPP 1590)

• DFG Priority Programme SPP 1590 Probabilistic Structures in Evolution

• DFG Priority Programme SPP 1819 Rapid evolutionary adaptation: Potential and constraints