Transactions on Computational Systems Biology II
The LNCS journal Transactions on Computational Systems Biology is devoted to inter- and multidisciplinary research in the fields of computer science and life sciences and supports a paradigmatic shift in the techniques from computer and information science to cope with the new challenges arising from the systems oriented point of view of biological phenomena. This second volume of the Transactions on Computational Systems Biology is devoted to considerably extended versions of selected papers presented at the International Workshop on Bioinformatics Research and Applications (IWBRA 2005), part of the International Conference on Computational Science (ICCS 2005), which took place at Emory University, Atlanta, Georgia, USA, in May 2005. The ten papers selected for the special issue cover a wide range of bioinformatics research such as problems in RNA structure prediction, coding schemes and structural alphabets for protein structure prediction, novel techniques for efficient gene transfer in phylogenetic networks, practical algorithms minimizing recombinations in pedigree phasing, parallel implementation in Open MP for finding the corresponding shortest edit distance between two signed gene permutations, and bioinformatics problems in DNA microarrays.
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What Makes the ArcPreserving Subsequence Problem Hard?
Proﬁling and Searching for RNA Pseudoknot Structures in Genomes
A Class of New Kernels Based on HighScored Pairs of kPeptides for SVMs and Its Application for Prediction of Protein Subcellular Localization
A Protein Structural Alphabet and Its Substitution Matrix CLESUM
An Effective Biomedical Information Extraction Technique Based on Mixture Hidden Markov Models
Properties and Relationship to Trees and Clusters
Minimum ParentOffspring Recombination Haplotype Inference in Pedigrees
Calculating Genomic Distances in Parallel Using OpenMP
Improved Tag Set Design and Multiplexing Algorithms for Universal Arrays
Using Correlations Between Genes to Select Informative Genes on Microarray Datasets
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a1 and a2 active terminal alignment amino acid APS problem arrays base G Bioinformatics biological BLOSUM c-tokens clade classification accuracy classifier cluster CM components complexity Computer construction contains denote experiments extraction feasible haplotype configurations feature selection Figure gene selection genome genotype Hidden Markov Models hybridization inheritance profile Intel C++ compiler k-MRHI k-peptide kernel KN,D KXtractor least one base Lemma matched matrix method MiHMM Min-Deg mixture model network node NP-C NP-complete nucleotides number of genes obtained OpenMP pairs pairwise virtual gene pedigree performance phylogenetic network polynomial prediction accuracy primer Primer-Del+ protein pseudoknot structures resp root S1xj S1xk sample secondary structures selection algorithms set is deleted Sexm single POS HMM Ssxi Ssxk subcellular localization substitution matrix substrings support vector machines T-decomposition tag set terminal edge terminal in S1xi text chunking tree node tree search algorithm virtual gene algorithm