| 2005 | A better gap penalty for pairwise SVM. Hon Nian Chua, Wing-Kin Sung |
| 2005 | A database to aid probe design for virus identification. Feng-Mao Lin, Hsien-Da Huang, Yu-Chung Chang, Pak-Leong Chan, Jorng-Tzong Horng, Ming-Tat Ko |
| 2005 | A graph database with visual queries for genomics. Greg Butler, Guang Wang, Yue Wang, Liqian Zou |
| 2005 | A highly scalable algorithm for the extraction of CIS-regulatory regions. Alexandra M. Carvalho, Ana T. Freitas, Arlindo L. Oliveira, Marie-France Sagot |
| 2005 | A new regulatory interaction suggested by simulations for circadian genetic control mechanism in mammals. Hiroshi Matsuno, Shin-Ichi T. Inouye, Yasuki Okitsu, Yasushi Fujii, Satoru Miyano |
| 2005 | A novel method for protein subcellular localization: Combining residue-couple model and SVM. Jian Guo, Yuanlie Lin, Zhirong Sun |
| 2005 | A support vector machine approach for prediction of T Cell epitopes. Lei Huang, Yang Dai |
| 2005 | Allowing mismatches in anchors for wholw genome alignment: Generation and effectiveness. Siu-Ming Yiu, P. Y. Chan, Tak Wah Lam, Wing-Kin Sung, Hing-Fung Ting, Prudence W. H. Wong |
| 2005 | An O(N Lusheng Wang, Daming Zhu, Xiaowen Liu, Shaohan Ma |
| 2005 | BLOMAP: An encoding of amino acids which improves signal peptide cleavage site prediction. Stefan Maetschke, Michael Towsey, Mikael Bodén |
| 2005 | Bacterial population assay via k-mer analysis. Dimitris Papamichail, Steven Skiena, C. Van Der Lelie, S. R. McCorkle |
| 2005 | Cells In Silico (CIS): A biomedical simulation framework based on Markov random field. Kung-Hao Liang |
| 2005 | Classification of protein 3D folds by hidden Markov learning on sequences of structural alphabets. Shiou-Ling Wang, Chung-Ming Chen, Ming-Jing Hwang |
| 2005 | Clique-based algorithms for protein threading with profiles and constraints. Dukka Bahadur, Etsuji Tomita, Jun'ichi Suzuki, Katsuhisa Horimoto, Tatsuya Akutsu |
| 2005 | Comparison of core promoters in Fugu rubripes and human. Sin Lam Tan, Vidhu Choudhary, Alan Christoffels, Byrappa Venkatesh, Vladimir B. Bajic |
| 2005 | Computing the Assignment of Orthologous Genes via Genome Rearrangement. Xin Chen, Jie Zheng, Zheng Fu, Peng Nan, Yang Zhong, Stefano Lonardi, Tao Jiang |
| 2005 | Consensus fold recognition by predicted model quality. Jinbo Xu, Libo Yu, Ming Li |
| 2005 | Detecting residues in targeting peptides. Mikael Bodén, John Hawkins |
| 2005 | Exact algorithms for motif search. Sanguthevar Rajasekaran, Sudha Balla, Chun-Hsi Huang, Vishal Thapar, Michael R. Gryk, Mark W. Maciejewski, Martin R. Schiller |
| 2005 | Exact algorithms for planted motif challenge problems. Sanguthevar Rajasekaran, Sudha Balla, Chun-Hsi Huang |
| 2005 | Faster solution to the maximum quartet consistency problem with constraint programming. Gang Wu, Guohui Lin, Jia-Huai You, Xiaomeng Wu |
| 2005 | Feature dimension reduction for microarray data analysis using locally linear embedding. Chao Shi, Lihui Chen |
| 2005 | Genetic algorithms and silhouette measures applied to microarray data classification. Tsun-Chen Lin, Ru-Sheng Liu, Shu-Yuan Chen, Chen-Chung Liu, Chien-Yu Chen |
| 2005 | High dimensional indexing for protein structure matching using bowties. Zi Huang, Xiaofang Zhou |
| 2005 | Hybrid registration for two-dimensional gel protein images. Xiuying Wang, David Dagan Feng |
| 2005 | Improved algorithms for multiplex PCR primer set selection with amplification length constraints. Kishori M. Konwar, Ion I. Mandoiu, Alexander Russell, Alexander A. Shvartsman |
| 2005 | Inferring phylogenetic relationships avoiding forbidden rooted triplets. Ying-Jun He, Trinh N. D. Huynh, Jesper Jansson, Wing-Kin Sung |
| 2005 | Modeling 5' regions of histone genes using Bayesian networks. Rajesh Chowdhary, R. Ayesha Ali, Vladimir B. Bajic |
| 2005 | PLS and SVD based penalized logistic regression for cancer classification using microarray data. Li Shen, Eng Chong Tan |
| 2005 | PRIME: Peptide robust identification from MS/MS spectra. Jian Liu, Bin Ma, Ming Li |
| 2005 | Preface. Yi-Ping Phoebe Chen, Limsoon Wong |
| 2005 | Proceedings of 3rd Asia-Pacific Bioinformatics Conference, 17-21 January 2005, Singapore Yi-Ping Phoebe Chen, Limsoon Wong |
| 2005 | Profiles and fuzzy K-nearest neighbor algorithm for protein secondary structure prediction. Rajkumar Bondugula, Ognen Duzlevski, Dong Xu |
| 2005 | Protein folding trajectory analysis using patterned clusters. J. Feng, Laxmi Parida, Ruhong Zhou |
| 2005 | Protein informatics towards integration of data grid and computing grid. Haruki Nakamura |
| 2005 | SVM-RFE peak selection for cancer classification with mass spectrometry data. Kaibo Duan, Jagath C. Rajapakse |
| 2005 | The use of functional domains to improve transmembrane protein topology prediction. Emily W. Xu, Daniel G. Brown, Paul Kearney |
| 2005 | Toward discovering disease-specific gene networks from online literature. Zhuo Zhang, Suisheng Tang, See-Kiong Ng |
| 2005 | Trends in bioinformatics research and Singapore's role. Santosh K. Mishra |
| 2005 | Unique peptide prediction of RNase family sequences based on reinforced merging algorithms. Hao-Teng Chang, Tan-Chi Fan, Margaret Dah-Tsyr Chang, Tun-Wen Pai, Bo-Han Su, Pei-Chih Wu |
| 2005 | Voting algorithms for discovering long motifs. Francis Y. L. Chin, Henry C. M. Leung |