Journal of Bioinformatics and Computational Biology, Volume 1

Volume 1, Number 1, April 2003

• Preface. 3-20
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• Victor Olman, Dong Xu, Ying Xu:
  Cubic: Identification of Regulatory Binding Sites through Data Clustering. 21-40
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• Jing Li, Tao Jiang:
  Efficient Inference of Haplotypes from Genotypes on a Pedigree. 41-70
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• Michal Ozery-Flato, Ron Shamir:
  Two Notes on Genome Rearrangement. 71-94
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• Jinbo Xu, Ming Li, Dongsup Kim, Ying Xu:
  Raptor: Optimal Protein Threading by Linear Programming. 95-118
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• Liping Wei, Russ B. Altman:
  Recognizing Complex, Asymmetric Functional Sites in Protein Structures Using a Bayesian Scoring Function. 119-138
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• Huiqing Liu, Limsoon Wong:
  Data Mining Tools for Biological Sequences. 139-168
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• Seth Michelson:
  Assessing the Impact of Predictive Biosimulation on Drug Discovery and Development. 169-178
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• Vladimir Brusic:
  From Immunoinformatics to Immunomics. 179-182
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• P. Kearney, P. Thibault:
  Bioinformatics Meets Proteomics - Bridging the Gap between Massspectrometry Data Analysis and Cell Biology. 183-200
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Volume 1, Number 2, July 2003

• Foreword. 205-230
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• Seiya Imoto, SunYong Kim, Takao Goto, Sachiyo Aburatani, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano:
  Bayesian Network and Nonparametric Heteroscedastic Regression for Nonlinear Modeling of Genetic Network. 231-252
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• Masazumi Takahashi, Fumihiko Matsuda, Nino Margetic, Mark G. Lathrop:
  Automated Identification of Single Nucleotide Polymorphismsfrom Sequencing Data. 253-266
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• Chuan Yi Tang, Chin Lung Lu, Margaret Dah-Tsyr Chang, Yin-Te Tsai, Yuh-Ju Sun, Kun-Mao Chao, Jia-Ming Chang, Yu-Han Chiou, Chia-Mao Wu, Hao-Teng Chang, Wei-I Chou:
  Constrained Multiple Sequence Alignment Tool Development Andits Application to Rnase Family Alignment. 267-288
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• Ann E. Loraine, Gregg A. Helt, Melissa S. Cline, Michael A. Siani-Rose:
  Exploring Alternative Transcript Structure in the Humangenome Using Blocks and Interpro. 289-306
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• Mathew J. Palakal, Matthew Stephens, Snehasis Mukhopadhyay, Rajeev R. Raje, Simon Rhodes:
  Identification of Biological Relationships from Text Documentsusing Efficient Computational Methods. 307-342
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• Sven Rahmann:
  Fast Large Scale Oligonucleotide Selection Using the Longest Common Factor Approach. 343-362
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• Jun Ogasawara, Shinichi Morishita:
  A Fast and Sensitive Algorithm for Aligning Ests to the Human Genome. 363-386
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• Guohui Lin, Dong Xu, Zhi-Zhong Chen, Tao Jiang, Jianjun Wen, Ying Xu:
  Computational Assignment of Protein Backbone Nmr Peaks Byefficient Bounding and Filtering. 387-410
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• Alessandro Vullo, Paolo Frasconi:
  Prediction of Protein Coarse Contact Maps. 411-431
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Volume 1, Number 3, October 2003

• Yuan Liu, Yuhong Wang, Kimberly Folander, Guochun Xie, Richard Blevins:
  An Interactive Tool for Extracting Exons and Snp from Genomic Sequence: Isolation of Hcn1 and Hcn3 Ion Channel Genes. 433-446
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• Xiwei Wu, T. Gregory Dewey:
  Cluster Analysis of Dynamic Parameters of Gene Expression. 447-458
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• Seiya Imoto, Christopher J. Savoie, Sachiyo Aburatani, SunYong Kim, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano:
  Use of Gene Networks for Identifying and Validating Drug Targets. 459-474
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• Gary W. Stuart, Michael W. Berry:
  A Comprehensive Whole Genome Bacterial Phylogeny Using Correlated Peptide Motifs Defined in a High Dimensional Vector Space. 475-494
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• Harpreet Kaur, G. P. S. Raghava:
  Bteval: a Server for Evaluation of beta-turn Prediction Methods. 495-504
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• Mounir Errami, Christophe Geourjon, Gilbert Deléage:
  Conservation of Amino Acids into Multiple Alignments Involved in Pairwise Interactions in Three-dimensional Protein Structures. 505-520
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• C. K. Tham, C. K. Heng, W. C. Chin:
  Predicting Risk of Coronary Artery Disease from Dna Microarray-based Genotyping Using Neural Networks and Other Statistical Analysis Tool. 521-540
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• Tero Aittokallio, Markus Kurki, Olli Nevalainen, Tuomas Nikula, Anne West, Riitta Lahesmaa:
  Computational Strategies for Analyzing Data in Gene Expression Microarray Experiments. 541-586
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Volume 1, Number 4, January 2004

• Brona Brejová, Daniel G. Brown, Tomás Vinar:
  Optimal Spaced Seeds for Homologous Coding Regions. 595-610
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• Lorraine K. Tanabe, W. John Wilbur:
  Generation of a Large Gene/protein Lexicon by Morphological Pattern Analysis. 611-626
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• Heng Dai, Bin Tian, Wei D. Zhao, Albert Leung, Simon R. Smith, Jackson S. Wan, Xiang Yao:
  Dynamic Integration of Gene Annotation and its Application to Microarray Analysis. 627-646
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• Stergios Papadimitriou, Spiridon D. Likothanassis:
  Kernel-based Self-organized Maps Trained with Supervised Bias for Gene Expression Data Analysis. 647-680
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• Mat Soukup, Jae K. Lee:
  Developing Optimal Prediction Models for Cancer Classification Using Gene Expression Data. 681-694
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• Miwaka Ohtani, Ayaka Saka, Fumi Sano, Yoshikazu Ohya, Shinichi Morishita:
  Development of Image Processing Program for Yeast Cell Morphology. 695-710
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• See-Kiong Ng, Soon-Heng Tan:
  Discovering Protein-protein Interactions. 711-742
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• Graziela Miê Peres Lopes, Sandro José De Souza:
  Dissecting the Human Spliceosome through Bioinformatics and Proteomics Approaches. 743-750
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