International Journal of Bioinformatics Research and Applications (IJBRA), Volume 1

Volume 1, Number 1, 2005

• Wojciech Szpankowski, Wenhui Ren, Lukasz Szpankowski:
  An optimal DNA segmentation based on the MDL principle. 3-17
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• Tianhua Niu, Zhenjun Hu:
  Dynamic visual data mining: biological sequence analysis and annotation using SeqVISTA. 18-30
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• Suman Sundaresh, She-pin Hung, G. Wesley Hatfield, Pierre Baldi:
  How noisy and replicable are DNA microarray data? 31-50
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• Hyunsoo Kim, Jeff X. Zhou, Herbert C. Morse III, Haesun Park:
  A three-stage framework for gene expression data analysis by L1-norm support vector regression. 51-62
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• Liangjiang Wang, Aidong Zhang, Murali Ramanathan:
  BioStar models of clinical and genomic data for biomedical data warehouse design. 63-80
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• Xiaohua Hu:
  Mining and analysing scale-free proteinprotein interaction network. 81-101
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• Kayvan Najarian, Krishna Gopalakrishnan, R. H. Zadeh:
  Signal processing for functional analysis of protein mutants. 102-120
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• Abdur Rahman, Albert Y. Zomaya:
  An overview of protein-folding techniques: issues and perspectives. 121-143
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Volume 1, Number 2, 2005

• Bhaskar DasGupta, Kishori M. Konwar, Ion I. Mandoiu, Alexander A. Shvartsman:
  Highly scalable algorithms for robust string barcoding. 145-161
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• Ding-Zhu Du, Frank K. Hwang:
  Identifying d positive clones in the presence of inhibitors. 162-168
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• ZhenQiu Liu, Dechang Chen, Ying Xu, Jian Liu:
  Logistic support vector machines and their application to gene expression data. 169-182
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• Alan Wee-Chung Liew, Yonghui Wu, Hong Yan, Mengsu Yang:
  Effective statistical features for coding and non-coding DNA sequence classification for yeast, C. elegans and human. 181-201
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• Derek A. Ruths, Luay Nakhleh:
  Recombination and phylogeny: effects and detection. 202-212
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• Liang Chen, Sharmin Nilufar:
  A districted neural network for start codon prediction. 213-220
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• Dumitru Brinza, Jingwu He, Weidong Mao, Alexander Zelikovsky:
  Family trio phasing and missing data recovery. 221-229
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• Beeta Masoumi, Marcel Turcotte:
  Simultaneous alignment and structure prediction of three RNA sequences. 230-245
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Volume 1, Number 3, 2005

• Jingwu He, Kelly Westbrooks, Alexander Zelikovsky:
  Linear reduction method for predictive and informative tag SNP selection. 249-260
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• Bin Zhang, Steve Horvath:
  Ridge regression based hybrid genetic algorithms for multi-locus quantitative trait mapping. 261-272
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• Zheng Liu, James Borneman, Tao Jiang:
  A software system for gene sequence database construction based on fast approximate string matching. 273-291
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• Yair Horesh, Ron Unger:
  A bottom-up clustering algorithm to detect ncRNA molecules with a common secondary structure. 292-304
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• Juan Miguel García-Gómez, José-Miguel Benedí, Javier Vicente, Montserrat Robles:
  Corpus based learning of stochastic, context-free grammars combined with Hidden Markov Models for tRNA modelling. 305-318
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• Robert E. Langlois, Alice Diec, Ognjen Perisic, Yang Dai, Hui Lu:
  Improved protein fold assignment using support vector machines. 319-334
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• Trupti Joshi, Yu Chen, Nickolai Alexandrov, Dong Xu:
  Cellular function prediction and biological pathway discovery in Arabidopsis thaliana using microarray data. 335-350
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• Xiaolin Wu, Sorina Dumitrescu, Pravesh Biyani, Qiang Wu:
  Fast chromosome karyotyping by auction algorithm. 351-362
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Volume 1, Number 4, 2005

• Ferdinando Cicalese, Peter Damaschke, Ugo Vaccaro:
  Optimal group testing algorithms with interval queries and their application to splice site detection. 363-388
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• Israel M. Martinez-Perez, Gong Zhang, Zoya Ignatova, Karl-Heinz Zimmermann:
  Biomolecular autonomous solution of the Hamiltonian path problem via hairpin formation. 389-398
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• Yulan Liang, Arpad Kelemen:
  Temporal gene expression classification with regularised neural network. 399-413
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• Yingshu Li, My T. Thai, Zhen Liu, Weili Wu:
  Protein-protein interaction and group testing in bipartite graphs. 414-419
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• Wei-Mou Zheng:
  Protein secondary structure prediction by combining hidden Markov models and sliding window scores. 420-428
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• Osamu Maruyama, Akiko Matsuda, Satoru Kuhara:
  Reconstructing phylogenetic trees of prokaryote genomes by randomly sampling oligopeptides. 429-446
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• Xiaohua Hu, Illhoi Yoo, Xiaodan Zhang, Payal Nanavati, Debjit Das:
  Wavelet transformation and cluster ensemble for gene expression analysis. 447-460
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• Paola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Lorenzo Mariani:
  Experimental analysis of a new algorithm for partial haplotype completion. 461-473
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