Programdownload apbc2006_adv_program.pdf Sunday, 12 Febuary 2006 14.30–20.30 Registration Main entry of the activity center 18.00–20.30 Reception The Plato Hall Monday, 13 Febuary 2006 8.30–16.30 Registration Main entry of the activity center 9.00–9.15 Opening Session Auditorium 9.15–10.00 Keynote 1 Auditorium Prof. Michael Waterman (Univ of Southern California) 10.00–10.30 Tea Break Lobby 10.30–11.30 Algorithm Auditorium 1. Property-dependent analysis of aligned proteins from two or more populations, Steinar Thorvaldsen, Elinor Ytterstad, Tor Fla 2. Alignscope : A Visual Mining Tool for Gene Team Finding with Whole Genome Alignment, Hee-Jeong Jin, Hye-Jung Kim, Jeong-Hyeon Choi, Hwan-Gue Cho 3. A Randomized Algorithm for Learning Mahalanobis Metrics: Application to Classification and Regression of Biological Data, Christopher Langmead 11.30–13.00 Lunch Break (Auditorium) & Poster Session 1 (The Locke Hall) 13.00 – 14.00 Structure classification and prediction Auditorium 1. Predicting Ranked SCOP Domains by Mining Associations of Visual Contents in Distance Matrices, Pin-Hao Chi, Chi-Ren Shyu 2. A new neural network for beta-turn prediction: the effect of site-specific amino acid preference, Zhong-ru Xie, Ming-jing Hwang 3. A Knowledge-Based Approach to Protein Local Structure Prediction, Ching-Tai Chen, Hsin-Nan Lin, Kuen-Pin Wu, Ting-Yi Sung, Wen-Lian Hsu
14.00–15.00 Microarray data analysis Auditorium 1. Microarray Missing Value Imputation by Iterated Local Least Squares, Zhipeng Cai, Maysam Heydari, Guohui Lin 2. A generalized output-coding scheme with SVM for multiclass microarray classification, Li Shen, Eng Chong Tan 3. Gene Expression Data Clustering Based on Local Similarity Combination, De Pan, Fei Wang, Jiankui Guo 15.00–16.00 Tea Break (Lobby) & Poster Session 1 (The Locke Hall) 16.00–17.00 Genome rearrangement Auditorium 1. RECOMP: A Parsimony-based Method for Detecting Recombination, Derek Ruths, Luay Nakhleh 2. Accuracy of four heuristics for the full sibship reconstruction problem in the presence of genotype error, Dmitry Konovalov 3. A Recursive Method for Solving Haplotype Frequencies in Multiple Loci Linkage Analysis, Michael Ng 18.00–20.30 Conference Banquet Tuesday, 14 Febuary 2006 8.30–16.30 Registration Lobby (information desk) 9.15–10.00 Keynote 2 Auditorium Prof. Mark Ragan (Univ. of Queensland) 10.00–10.30 Tea Break Lobby 10.30–11.30 Phylogenetics Auditorium 1. Resoving gene tree and species tree problem by phylogenetic mining, Xiaoxu Han 2. Techniques for assessing phylogenetic branch support, Derek Ruths, Luay Nakhleh 3. A More Accurate and Efficient Whole Genome Phylogeny, P.Y. Chan, T.W. Lam, Siu-Ming Yiu 11.30–13.00 Lunch Break (Auditorium) & Poster Session 2 (The Locke Hall) 13.00–14.00 Gene variation and mutation Auditorium 1. Discriminative Detection of Cis-Acting Regulatory Variation from Location Data, Yuji Kawada, Yasubumi Sakakibara 2. Trends in codon and amino acid usage in human pathogen Tropheryma whipplei, the only known actinobacteria with reduced genome, Sabyasachi Das, Sandip Paul, Chitra Dutta 3. Consequences of mutation, selection and physico-chemical properties of encoded proteins on synonymous codon usage in adenoviruses, Sandip Paul, Sabyasachi Das, Chitra Dutta
14.00–14.40 Database Auditorium 1. Analyzing inconsistency toward enhancing integration of biological molecular databases, Phoebe Chen, Qingfeng Chen 2. ONBIRES: ONtology-based BIological Relation Extraction System, Minlie Huang, Xiaoyan Zhu, Shilin Ding, Hao Yu, Ming Li 14.40–15.40 Tea Break (Lobby) & Poster Session 2 (The Locke Hall) 15.40–16.40 Structure analysis Auditorium 1. Disentangling the Role of Tetranucleotide in the Sequence-Dependence of DNA Conformation: A Molecular Dynamics Approach, Marcos J. Arauzo-Bravo, Satoshi Fujii, Hidetoshi Kono, Akinori Sarai 2. De novo peptide sequencing for multi-charge mass spectra, Ket Fah Chong, Kang Ning, Hon Wai Leong 3. Structure based chemical shift prediction using Random Forests non-linear regression, Christopher Langmead, K Arun
16.40–17.15 Invited Talk Auditorium Shoba Ranganathan (McQuarrie Univ) Wensday, 15 Febuary 2006 8.30–16.30 Registration Lobby (information desk) 9.15–10.00 Keynote 3 Auditorium Wen-Hsiung Li (Academia Sinica & U. of Chicago) 10.00–10.30 Tea Break Lobby 10.30–11.30 Systems biology and gene network (I) Auditorium 1. Inference of gene regulatory networks from microarray data: a fuzzy logic approach, Ma Chi Hung, Chan Chun Chung 2. System identification and robustness analysis of the circadian regulatory network via microarray data in arabidopsis thaliana, Bor-Sen Chen 3. On the Complexity of Finding Control Strategies for Boolean Networks, Tatsuya Akutsu, Morihiro Hayashida, Wai-Ki Ching, Michael Ng
11.30–13.00 Lunch Break (Auditorium) & Poster Session 3 (The Locke Hall)
13.00–14.00 Systems biology and gene network (II) Auditorium 1. Identification of Over-represented Combinations of Transcription Factor Binding Sites in Sets of Co-expressed Genes, Shao-shan Huang, Debra Fulton, David Arenillas, Paul Perco, Shannan Ho Sui, James Mortimer, Wyeth Wasserman 2. Characterization of the existence of galled-tree networks, Jan Manuch, Xiaohong Zhao, Ladislav Stacho, Arvind Gupta 3. Semi-Supervised Threshold Queries on Pharmacogenomics Time Sequences, Matthias Renz, Johannes Assfalg, Hans-Peter Kriegel, Peer Kroeger, Peter
14.00–15.00 Motif analysis Auditorium 1. An efficient algorithm for string motif discovery, Francis Chin, Henry Leung 2. EDAM An Efficient Clique Discovery Algorithm with Frequency Transformation for Finding Motifs, Guoren Wang, Yifei Ma 3. A novel approach for structured consensus motif inference under specificity and quorum constraints, Christine Sinoquet 15.00–16.00 Tea Break (Lobby) & Poster Session 3 (The Locke Hall) 16.00–17.00 Analysis of biological molecules Auditorium 1. SVM-based Identification of microrna precursors, Liang Huai Yang, Wynne Hsu, Mong Li Lee, Limsoon Wong 2. Genome-wide computational analysis of small nuclear rna genes of oryza sativa (indica and japonica), M.Shashikanth, A.Snehalatharani, Sk. Mubarak, K.Ulaganathan 3. Protein Subcellular Localization Prediction with wolf PSORT, Horton Paul, Keun-Joon Park, Takeshi Obayashi, Kenta Nakai
17.00–17.15 Closing Session Auditorium Closing Remarks by General Chair, Dr. Wen-Hsiung Li (Academia Sinica& U. of Chicago) Closing Remarks by PC Co-Chair, Dr. Ueng-Cheng Yang (National Yang-Ming Univ) Thursday, 16 Febuary 2006 8.30–15.30 Registration Lobby
9.00–12.00 Classroom I at NTU
Biostatistical and
Bioinformatics Approaches in High Dimensional Data Derived from High
Throughput Assays: A Consumer Guide
9.00–12.00 Classroom II at NTU
Systems biology 13.30–16.30 Classroom I at NTU
Methods for feature
extraction and selection and their applications in
13.30–16.30 Classroom II at NTU
Gene Ontology Browsing
Utility Poster session Posters should be posted before 9:00, presented during the afternoon tea break, and taken off before 17:15.
Session 1 (No. 1-28): Feb. 13 Session 2 (No. 29-56): Feb. 14 Session 3 (No. 57-84): Feb. 15
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