Conference paper

RUDOLFOVÁ Ivana and ZENDULKA Jaroslav. Clustering of Protein Sequences. In: Proceedings of 1st International Workshop WFM'06. Přerov, 2006, pp. 71-78. ISBN 80-86840-20-4.
Publication language:english
Original title:Clustering of Protein Sequences
Title (cs):Shlukování proteinových sekvencí
Proceedings:Proceedings of 1st International Workshop WFM'06
Conference:1st International Workshop on Formal Models (WFM'06)
Place:Přerov, CZ
protein sequence, optimal alignment of two protein sequences, finite automaton, clustering, similarity function
Clustering of protein sequences is one of the techniques that can be helpful for predicting secondary structure of protein. Clustering methods are based on expressing similarity or dissimilarity of such sequences. The similarity of two protein sequences can be assessed by the score of the best alignment of the sequences. The paper deals with using formal model theory in describing this important task of bioinformatics. First, a well-known Needleman and Wunsch algorithm for finding the best alignment is introduced. Then a finite automaton that can compute the score for the best alignment is proposed.
   author = {Ivana Rudolfov{\'{a}} and Jaroslav Zendulka},
   title = {Clustering of Protein Sequences},
   pages = {71--78},
   booktitle = {Proceedings of 1st International Workshop WFM'06},
   year = 2006,
   location = {P{\v{r}}erov, CZ},
   ISBN = {80-86840-20-4},
   language = {english},
   url = {}

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