Bioinf

Hybrid Metaheuristics and Matheuristics for Problems in Bioinformatics and Transportation
May 2012, PhD thesis, Vienna University of Technology, Institute of Computer Graphics and Algorithms.
Note: supervised by G.~R.~Raidl and K.~F.~Dörner
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Exact Methods and Metaheuristic Approaches for Deriving High Quality Fully Resolved Consensus Trees
BIRD'08, 2nd International Conference on Bioinformatics Research and Development, Poster Presentations (J. Küng and K. Schneider and R. Wagner), volume 26 of Schriftenreihe Informatik, pages 115-124, 2008, Trauner Verlag.
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Finding Consensus Trees by Evolutionary, Variable Neighborhood Search, and Hybrid Algorithms
GECCO ‘08: Proceedings of the 10th Annual Conference on Genetic and Evolutionary Computation (Maarten Keijzer and others), pages 323-330, 2008, ACM.
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Algorithmic Approaches to the String Barcoding Problem
October 2007, Master’s thesis, Vienna University of Technology, Institute of Computer Graphics and Algorithms.
Note: supervised by G.~Raidl
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Improved Protein Identification After Fast Elimination of Non-Interpretable Peptide MS/MS Spectra and Noise Reduction
May 2007, PhD thesis, Vienna University of Technology, Institute of Computer Graphics and Algorithms.
Note: supervised by G.~Raidl and F.~Eisenhaber
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CyMATE: A New Tool for Methylation Analysis of Plant Genomic DNA after Bisulfite Sequencing
The Plant Journal, volume 51, number 3, pages 526-536, 2007.
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Cleaning of Raw Peptide MS/MS Spectra: Improved Protein Identification Following Deconvolution of Multiply Charged Peaks, Isotope Clusters, and Removal of Background Noise
Proteomics, volume 6, number 19, pages 5117-5131, 2006, Wiley.
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Multiple Structural RNA Alignment with Affine Gap Costs Based on Lagrangian Relaxation
August 2005, Master’s thesis, Vienna University of Technology, Institute of Computer Graphics and Algorithms.
Note: supervised by G.~Raidl and G.~Klau
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An Alignment Graph based Evolutionary Algorithm for the Multiple Sequence Alignment Problem
February 2004, Master’s thesis, Vienna University of Technology, Institute of Computer Graphics and Algorithms.
Note: supervised by G.~Raidl and G.~Koller
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An Evolutionary Algorithm for the Maximum Weight Trace Formulation of the Multiple Sequence Alignment Problem
Parallel Problem Solving from Nature – PPSN~VIII (Xin Yao and others), volume 3242 of LNCS, pages 302-311, 2004, Springer-Verlag.
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