Research Interests:
In general, my interests focus on three key areas:
- Sequence Analysis:
Method development to analyze Next Generation Sequencing (NGS) data
Detection of Structural Variations
Assessment of the variability of genomes
- High performance computing:
Programming on GPU Graphics Cards (CUDA, OpenCL)
Programming on CPUs (SSE, AVX)
Programming on Grid Engine (SGE, Slurm)
Short Vita:
Please check out my CV for more details.
Professional Experience:
- December 2014 - present : Computational Sci. Analyst I at the Schatz Lab, Cold Spring Harbor Laboratories (CSHL)
- December 2012 - December 2014 : Post Doc at the Center for Integrative Bioinformatics Vienna (CIBIV)
- September 2008 - December 2012: PhD at the Center for Integrative Bioinformatics Vienna (CIBIV)
- September 2007 - June 2008: EMBL Heidelberg, Frangakis Group
Education:
- 2012: Dr. rer. nat. Bioinformatics
- 2008: Diplom (FH) Bioinformatics
- 2003: Abitur
Degree:
- 'Ph.D' in Molecular Biology (Dr. rer. nat.), Vienna, Austria, 2012
Thesis: Benchtop sequencing on benchtop computers.
- DI (FH) (2008), Hagenberg
Thesis: Correlative Cryo-Fluorescence and cryo-Electron Microscopy.
Fellowships, Fundings, and Awards:
- Vienna Biocenter PhD Award (2013)
- Leonardo da Vinci II Traineeship (2007)
Publications
2015
- R. Ming, R. VanBuren, C.M. Wai, H. Tang, M.C. Schatz, J.E. Bowers, E. Lyons, M. Wang, J. Chen, E. Biggers, J. Zhang, L. Huang, L. Zhang, W. Miao, J. Zhang, Z. Ye, C. Miao, Z. Lin, H. Wang, H. Zhou, W.C. Yim, H.D. Priest,
C. Zheng, M. Woodhouse, P.P. Edger, R. Guyot, H. Guo, H. Guo, G. Zheng, R. Singh, A. Sharma, X. Min, Y. Zheng, H. Lee, J. Gurtowski, F.J. Sedlazeck, A. Harkess, M.R. McKain, Z. Liao, J. Fang,
J. Liu, X. Zhang, Q. Zhang, W. Hu, Y. Qin, K. Wang, L. Chen, N. Shirley, Y. Lin, L. Liu, A.G. Hernandez, C.L. Wright, V. Bulone, G.A. Tuskan, K. Heath, F. Zee, P.H. Moore, R. Sunkar, J. H. Leebens-Mack,
T. Mockler, J.L. Bennetzen, M. Freeling, D. Sankoff, A.H. Paterson, X. Zhu, X. Yang, J.A.C. Smith, J.C. Cushman, R.E. Paull, Q. Yu (2015)
The pineapple genome and the evolution of CAM photosynthesis. Nature Genetics. (DOI: 10.1038/ng.3435)
- M. Smolka, P. Rescheneder, M. Schatz, A. von Haeseler, and F.J. Sedlazeck (2015)
Teaser: Individualized benchmarking and optimization of read mapping results for NGS data.
Genome Biol., 16, 235.
(DOI: 10.1186/s13059-015-0803-1,
PMID: 26494581,
PMCID: PMC4618857,
Teaser webpage)
- M. Tscherner, F. Zwolanek, S. Jenull, F.J. Sedlazeck, A. Petryshyn, I.E. Frohner, J. Mavrianos, N. Chauhan, A. von Haeseler, and K. Kuchler (2015)
The Candida albicans Histone Acetyltransferase Hat1 Regulates Stress Resistance and Virulence via Distinct Chromatin Assembly Pathways.
PLoS Pathog., 11, e1005218.
(DOI: 10.1371/journal.ppat.1005218,
PMID: 26473952)
- J. Cheng, F. Sedlazek, J. Altmüller, and A. Nolte (2015)
Ectodysplasin signalling genes and typic evolution in sculpins (Cottus).
Proc. R. Soc. B, 282, 20150746.
(DOI: 10.1098/rspb.2015.0746,
PMID: 26354934)
- M. Krunice, R. Ertle, B. Hagen, F.J. Sedlazeck, R. Hofmann-Lehmann, A. von Haeseler and D. Klein (2015)
Decreased expression of endogenous feline leukemia virus in cat lymphomas: a case control study.
BMC Vet. Res., 11, 90.
(DOI: 10.1186/s12917-015-0378-9,
PMID: 25879730)
2014
- C. Vesely, S. Tauber, F. Sedlazeck, M. Tajaddod, A. von Haeseler, and M. Jantsch (2014)
ADAR2 induces reproducible changes in sequence and abundance of mature microRNAs in the mouse brain.
Nucleic Acids Res., in press.
(DOI: 10.1093/nar/gku844,
PMID: 25260591)
2013
-
F.J. Sedlazecke, P. Reschenedere, and A. von Haeseler (2013)
NextGenMap: Fast and accurate read mapping in highly polymorphic genomes.
Bioinformatics, 29, 2790-2791.
(DOI: 10.1093/bioinformatics/btt468,
PMID: 23975764).
-
S. Jünemann, F.J. Sedlazeck, K. Prior, A. Albersmeier, U. John, J. Kalinowski, A. Mellmann, A. Goesmann, A. von Haeseler, J. Stoye and D. Harmsen (2013)
Updating benchtop sequencing performance comparison.
Nat. Biotechnol., 31, 294-296.
(DOI: 10.1038/nbt.2522,
PMID: 23563421)
- F.J. Sedlazeck, P. Talloji, A. von Haeseler, and A. Bachmair (2013)
Benefit-of-doubt (BOD) scoring: a sequencing-based method for SNP candidate assessment from high to medium read number data sets.
Genomics, 101, 204-209.
(DOI: 10.1016/j.ygeno.2012.12.001,
PMID: 23246509)
2012
-
H.Q. Dinh, M. Dubine, F.J. Sedlazecke, N. Lettner, O. Mittelsten Scheid, and A. von Haeseler (2012)
Advanced Methylome Analysis after Bisulfite Deep Sequencing: an Example in Arabidopsis.
PLoS ONE, 7, e41528.
(DOI: 10.1371/journal.pone.0041528,
PMCID: PMC3401099)
P. Rescheneder, A. von Haeseler, and F.J. Sedlazeck (2012)
MASon: Million Alignments In Seconds - A Platform Independent Pairwise Sequence Alignment Library for Next Generation Sequencing Data.
Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms (BIOINFORMATICS 2012), 195-201, SciTePress, Setubal, Portugal.
(DOI: 10.5220/0003775701950201)
- C. Veselye, S. Taubere, F.J. Sedlazeck, A. von Haeseler, and M.F. Jantsch (2012)
Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs.
Genome Res., 22, 1468-1476.
(DOI: 10.1101/gr.133025.111,
PMID: 22310477)
e contributed equally
Fritz Sedlazeck, Ph.D.
Cold Spring Harbor Laboratory
One Bungtown Road
Koch Building 1121
Cold Spring Harbor, NY 11724
E-mail: fsedlaze <at> cshl.edu
Phone: (516) 367-8393
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