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|a Strings Processing and Application to Biological Sequences. String Data Structures for Computational Molecular Biology / Christos Makris, Evangelos Theodoridis -- Efficient Restricted-Case Algorithms for Problems in Computational Biology / Patricia A Evans, H Todd Wareham -- Finite Automata in Pattern Matching / Jan Holub -- New Developments in Processing of Degenerate Sequences / Pavlos Antoniou, Costas S Iliopoulos -- Exact Search Algorithms for Biological Sequences / Eric Rivals, Leena Salmela, Jorma Tarhio -- Algorithmic Aspects of ARC-Annotated Sequences / Guillaume Blin, Maxime Crochemore, Sťphane Vialette -- Algorithmic Issues in DNA Barcoding Problems / Bhaskar DasGupta, Ming-Yang Kao, Ion Mandoiu -- Recent Advances in Weighted DNA Sequences / Manolis Christodoulakis, Costas S Iliopoulos -- DNA Computing for Subgraph Isomorphism Problem and Related Problems / Sun-Yuan Hsieh, Chao-Wen Huang, Hsin-Hung Chou -- Analysis of Biological Sequences. Graphs in Bioinformatics / Elsa Chacko, Shoba Ranganathan -- A Flexible Data Store for Managing Bioinformatics Data / Bassam A Alqaralleh, Chen Wang, Bing Bing Zhou, Albert Y Zomaya -- Algorithms for the Alignment of Biological Sequences / Ahmed Mokaddem, Mourad Elloumi -- Algorithms for Local Structural Alignment and Structural Motif Identification / Sanguthevar Rajasekaran, Vamsi Kundeti, Martin Schiller -- Evolution of the Clustal Family of Multiple Sequence Alignment Programs / Mohamed Radhouene Aniba, Julie Thompson -- Filters and Seeds Approaches for Fast Homology Searches in Large Datasets / Nadia Pisanti, Mathieu Giraud, Pierre Peterlongo -- Novel Combinatorial and Information-Theoretic Alignment-Free Distances for Biological Data Mining / Chiara Epifanio, Alessandra Gabriele, Raffaele Giancarlo, Marinella Sciortino -- Methods for the Analysis of Metabolites and Drug Molecules / Varun Khanna, Shoba Ranganathan -- Motif Finding and Structure Prediction. Motif Finding Algorithms in Biological Sequences / Tarek El Falah, Mourad Elloumi, Thierry Lecroq -- Computational Characterization of Regulatory Regions / Enrique Blanco -- Algorithmic Issues in the Analysis of Chip-Seq Data / Federico Zambelli, Giulio Pavesi -- Approaches and Methods for Operon Prediction based on Machine Learning Techniques / Yan Wang, You Zhou, Chunguang Zhou, Shuqin Wang, Wei Du, Chen Zhang, Yanchun Liang -- Protein Function Prediction with Data-Mining Techniques / Xing-Ming Zhao, Luonan Chen -- Protein Domain Boundary Prediction / Paul D Yoo, Bing Bing Zhou, Albert Y Zomaya -- An Introduction to RNA Structure and Pseudoknot Prediction / Jana Sperschneider, Amitava Datta -- Phylogeny Reconstruction. Phylogenetic Search Algorithms for Maximum Likelihood / Alexandros Stamatakis -- Heuristic Methods for Phylogenetic Reconstruction with Maximum Parsimony / Adrien Go︠ffon, Jean-Michel Richer, Jin-Kao Hao -- Maximum Entropy Method for Composition Vector Method / Raymond H-F Chan, Roger W Wang, Jeff C-F Wong -- Microarray Data Analysis. Microarray Gene Expression Data Analysis / Alan Wee-Chung Liew, Xiangchao Gan -- Biclustering of Microarray Data / Wassim Ayadi, Mourad Elloumi -- Computational Models for Condition-Specific Gene and Pathway Inference / Yu-Qing Qiu, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen -- Heterogeneity of Differential Expression in Cancer Studies: Algorithms and Methods / Radha Krishna, Murthy Karuturi -- Analysis of Genomes. Comparative Genomics: Algorithms and Applications / Xiao Yang, Srinivas Aluru -- Advances in Genome Rearrangement Algorithms / Masud Hasan, Sohel Rahman -- Computing Genomic Distances: An Algorithmic Viewpoint / Guillaume Fertin, Irena Rusu -- Wavelet Algorithms for DNA Analysis / Carlo Cattani -- Haplotype Inference Models and Algorithms / Ling-Yun Wu -- Analysis of Biological Networks. Untangling Biological Networks Using Bioinformatics / Gaurav Kumar, Adrian P Cootes, Shoba Ranganathan -- Probabilistic Approaches for Investigating Biological Networks / Jeremie Bourdon, Damien Eveillard -- Modeling and Analysis of Biological Networks with Model Checking / Dragan Bo₍nacki, Ronny S Mans -- Reverse Engineering of Molecular Networks from a Common Combinatorial Approach / Bhaskar Dasgupta, Paola Vera-licona, Eduardo Sontag -- Unsupervised Learning for Gene Regulation Network Inference from Expression Data: A Review / Mohamed Elati, Celine Rouveirol -- Approaches to Construction and Analysis of Microrna-Mediated Networks / Ilana Lichtenstein, Albert Zomaya, Jennifer Gamble, Mathew Vadas.
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