Seminar: Aktuelle Themen der Bioinformatik

Dirk Metzler, Sommersemester 2004
Donnerstag von 14 bis 16 Uhr, Raum 307
Zuordnung: ThBi, PTBi;

Datum	Thema
29.04.2004	Patrick Pfeffer:
	Prediction of Protein Function and Motion Planning to Analyze Folding Kinetics
	Amato, N. M., Dill, K. A., and Song, G. (2003). Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures. Journal of Computional Biology, 10(3/4):239–255. PDF
	Deng, M., Zhang, K., Mehta, S., Chen, T., and Sun, F. (2003). Prediction of protein function using protein-protein interaction data. Journal of Computional Biology, 10(6):947–960. PDF
06.05.2004	Kai Scheiffele:
	An Eulerian Path Approach to Global Multiple Alignment for DNA Sequencs
	Zhang, Y. and Waterman, M. S. (2003). An eulerian path approach to global multiple alignment for dna sequencs. Journal of Computional Biology, 10(6):803–819. PDF
13.05.2004	Yusuf Tanrickulu / Ewgenij Proschak:
	Introduction to microarray gene expression data
	Huber, W., von Heydenbreck, A., and Vingron, M. (2003b). Analysis of microarray gene expression data. Number 1/3 in 2, Chichester, UK. PDF
	Huber, W., von Heydenbreck, A., S¨ultmann, H., Poustka, A., and Vingron, M. (2002). Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics, 18(1):96–104. PDF
	Huber, W., von Heydenbreck, A., S¨ultmann, H., Poustka, A., and Vingron, M. (2003a). Parameter estimation for the calibration and variance stabilization of microarray data. Statistical Applications in Genetics and Molecular Biology, 2(1). Art. 3. PDF
20.05.2004	Feiertag
27.05.2004	Yusuf Tanrickulu / Ewgenij Proschak:
	Variance stabilization and parameter estimation for the calibration and variance stabilization of microarray data
	Huber, W., von Heydenbreck, A., S¨ultmann, H., Poustka, A., and Vingron, M. (2002). Variance stabbilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics, 18(1):96–104. PDF
	Huber, W., von Heydenbreck, A., S¨ultmann, H., Poustka, A., and Vingron, M. (2003a). Parameter estimation for the calibration and variance stabilization of microarray data. Statistical Applications in Genetics and Molecular Biology, 2(1). Art. 3. PDF
03.06.2004	Frank Abromeit:
	Linear Time Algorihms for Finding and Representing all Tandem Repeats in a String
	Gusfield, D. and Stoye, J. (1998). Linear time algorithms for finding and representing all the tandem repeats in a string. Technical Report CSE-98-4, Department of Computer Science, UC Davis. PDF
10.06.2004	Feiertag
17.06.2004	Florian Schwarte:
	Classification and Accelerating Screening of Protein Structures with SVM and a Graph Theoretical Approach
	Zhang, S.-W., Pan, Q., Zhang, H., Zhang, Y.-L., and Wang, H.-Y. (2003). Classification of protein quaternary structure with support vector machine. Bioinformatics, 19(18):2390–2396. PDF
	Fr¨ommel, C., Gille, C., Goede, A., Gr¨opl, C., Hougardy, S., Nierhoff, T., and Robert Preissner, M. T. (2003). Accelerating screening of 3d protein data with a graph theoretical approach. Bioinformatics, 19(16):2112–2121. PS
24.06.2004	Matthias Rühl:
	Algorithmic Complexity of Protein Identification: Combinatorics of Weighted Strings
	Cieliebak, M., Erlebach, T., Liptak, Z., Stoye, J., and EmoWelzl (2004). Algorithmic complexity of protein identification: Combinatorics of weighted strings. Discrete Applied Mathematics, 137(1):27–46. PDF
01.07.2004	Timo Drick:
	Pseudoknots in RNA Secondary Structur
	Lyngs, R. and Pedersen, C. (2000). Pseudoknots in rna secondary structures. PDF
08.07.2004	Martin Löwer:
	On the Complexity of Fundamental Computational Problems in Pedigree Analysis
	Piccolboni, A. and Gusfield, D. (2003). On the complexity of fundamental computational problems in pedigree analysis. Journal of Computional Biology, 10(5):763–773. PDF
15.07.2004	Andre Brück:
	MCMC genome rearrangement
	Miklos, I. (2003). Mcmc genome rearrangement. Bioinformatics, 19(2):130–137. PDF