Fritz Sedlazeck, Ph.D.

Assistant Professor

Fritz Sedlazeck, Ph.D.

Contact information


2008–2012    Dr. rer. nat, Bioinformatics, University of Vienna.
2004–2008    Dipl. Ing. (FH), Bioinformatics, Upper Austria University of Applied Sciences, Hagenberg

Research Interests

My research focuses on the development of scalable algorithms to assess the variability in genomes in terms of single nucleotide polymorphisms (SNP) as well as structural variations (SVs) within and among populations. I have a strong background in computer science, especially in leveraging high throughput architectures ranging from highly parallel graphics cards, over clusters, or cloud architectures. My training in genomics started in 2008, when I started my PhD in computational biology where I designed algorithms to investigate genomic variability of model and non-model organisms through the alignment of short reads. During my PhD and following my entire career I was always intrigued to investigate genomic variability being it in across tissues as well as within populations or across populations. This drove my training and the fascination how variable genomes are and investigating the impact of such variability. To assess these, I collaborated and initiated efforts to determine which technologies or methodologies were most appropriate to discover variations of different forms as well as the biases that they contain. This work just recently leads to novel insights in structural variations and their genotypic and phenotypic impact. In 2014 I joined the lab of Michael Schatz at Cold Spring Harbor Laboratory and later at Johns Hopkins University to broaden my knowledge about de novo assemblies and their possibilities to assess variability. Over these two years I obtained insights into novel technologies (long reads and linked reads), which often allow a more precise detection of genomic variability and its assessment with respect to the individual haplotypes.

Over my young career as a scientist I followed a clear path to investigate genomic variability starting with SNPs and focusing over the last 5 years on structural variations. I have successfully co supervised 5 students, initiated successful international collaborations as well as lead three projects resulting in last author publications.


Kaiser TS, Poehn B, Szkiba D, et al. The genomic basis of circadian and circalunar timing adaptations in a midge. Nature. 2016;540(7631):69-73. doi:10.1038/nature20151.

Vij S, Kuhl H, Kuznetsova IS, et al. Correction: Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding. PLoS Genet. 2016;12(12):e1006500. doi:10.1371/journal.pgen.1006500.

Ming R, VanBuren R, Wai CMan, et al. The pineapple genome and the evolution of CAM photosynthesis. Nat Genet. 2015;47(12):1435-42. doi:10.1038/ng.3435.

Cheng J, Sedlazeck FJ, Altmüller J, Nolte AW. Ectodysplasin signalling genes and phenotypic evolution in sculpins (Cottus). Proc Biol Sci. 2015;282(1815). doi:10.1098/rspb.2015.0746.

Krunic M, Ertl R, Hagen B, et al. Decreased expression of endogenous feline leukemia virus in cat lymphomas: a case control study. BMC Vet Res. 2015;11:90. doi:10.1186/s12917-015-0378-9.

Tscherner M, Zwolanek F, Jenull S, et al. The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways. PLoS Pathog. 2015;11(10):e1005218. doi:10.1371/journal.ppat.1005218.

Smolka M, Rescheneder P, Schatz MC, von Haeseler A, Sedlazeck FJ. Teaser: Individualized benchmarking and optimization of read mapping results for NGS data. Genome Biol. 2015;16:235. doi:10.1186/s13059-015-0803-1.

Vesely C, Tauber S, Sedlazeck FJ, Tajaddod M, von Haeseler A, Jantsch MF. ADAR2 induces reproducible changes in sequence and abundance of mature microRNAs in the mouse brain. Nucleic Acids Res. 2014;42(19):12155-68. doi:10.1093/nar/gku844.

Jünemann S, Sedlazeck FJ, Prior K, et al. Updating benchtop sequencing performance comparison. Nat Biotechnol. 2013;31(4):294-6. doi:10.1038/nbt.2522.

Sedlazeck FJ, Rescheneder P, von Haeseler A. NextGenMap: fast and accurate read mapping in highly polymorphic genomes. Bioinformatics. 2013;29(21):2790-1. doi:10.1093/bioinformatics/btt468.