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  BIBM 2009
  BIBM 2008

17 December 2010
18 December 2010
19 December 2010
20 December 2010
21 December 2010


Keynote Lecture: 45 minutes
Invited Talk: 35 minutes
Regular Paper: 25 minutes
Short Paper: 15 minutes
* All lecture theatres are located at Teaching Building at Chak Cheung Street, The Chinese University of Hong Kong (map)  

15:30-19:30 Registration at Hyatt Regency Hong Kong, Shatin
08:00 Registration  
Venue: The ground floor of the conference venue
08:30-12:30 Tutorial 1 Tutorial 3 Workshop 2 Workshop 4 Workshop 6 Workshop 11
Session Chair:  Wai-ki Ching Tatsuya Akutsu  
Venue: LT4 LT5 LT6 LT7 LT8 LT1
13:30-18:30 Tutorial 1 Tutorial 2 Workshop 2 Workshop 4 Workshop 6 Workshop 11
Session Chair:  Wai-ki Ching Lusheng Wang  
Venue: LT4 LT5 LT6 LT7 Room 212 LT1
  Tutorial 1: (08:30-10:00,10:20-12:30,13:30-15:00,15:20-17:30)
  Tutorial 2: (13:30-15:00,15:20-17:50)
  Tutorial 3: (08:30-10:00,10:20-12:00)
  Coffee: 10:00-10:20  
  Lunch: 12:30-13:30  
  Coffee: 15:00-15:20        
08:00 Registration
Venue: The ground floor of the conference venue
08:10-8:45 Opening Ceremony
  Opening and Welcoming Speech:
  Henry Nai Ching Wong, The Pro-Vice-Chancellor of Chinese University of Hong Kong
  BIBM Steering Committee Chair:
  Xiaohua Tony Hu
  Conference Co-chairs: 
  Taesung Park (Seoul National University, Korea)
  Stephen Tsui (Chinese University of Hong Kong, China)
  Program Co-chairs:
  Luonan Chen (Chinese Academy of Sciences, China)
  Michael Ng (Hong Kong Baptist University, China)
Venue: LT1  
08:45-9:30 Session Chair: Taesung Park
  Keynote Lecture: Ruth Nussinov 
  Multi Scale Combinatorial Docking of the Proteome for Functional Predictions
Venue: LT1          
09:30-10:15 Session Chair: Michael Ng
  Keynote Lecture: Ya-ping Zhang
  Locomotion is an Important Factor Influence Evolution of Energy Metabolism Genes
Venue: LT1  
10:15-10:35 Coffee           
10:35-12:20 Session 1 Session 2 Session 3 Workshop 9 Workshop 8  
Session Chair:  KwangHyun Cho Xuegong Zhang Wen-Lian Hsu  
Venue: LT6 Room 201 LT8 LT4 LT5  
12:20-13:40 Lunch          
  Poster Session           
13:40-14:15 Invited Talk: Invited Talk: Invited Talk: Workshop 9 Workshop 8  
  Kwang-Hyun Cho Xuegong Zhang Wen-Lian Hsu  
Session Chair:  Taesung Park Ya-ping Zhang Ruth Nussinov  
Venue: LT6 Room 201 LT8 LT4 LT5  
14:20-16:05 Session 4 Session 5 Session 6 Workshop 9 Workshop 8  
Session Chair:  Tatsuya Akutsu Tingfung Chan Henry Leung  
Venue: LT6 Room 201 LT8 LT4 LT5  
16:05-16:25 Coffee   
16:25-18:10 Session 7 Session 8 Session 9 Workshop 1 Workshop 8  
Session Chair:  Tatsuya Akutsu Wai-ki Ching Sunghoon Kim  
Venue: LT6 Room 201 LT8 LT4 LT5  
18:10-20:30 Reception/Dinner at Science Park  
  [Shuttle is arranged at the outside the of conference site]
08:30 Registration  
Venue: The ground floor of the conference venue
08:45-9:30 Session Chair: Stephen Tsui
  Keynote Lecture: Dong Xu
  MUFOLD for Protein 3D Structure Prediction: A New Solution to An Old Challenge
Venue: LT1          
09:30-10:15 Session Chair: Luonan Chen
  Keynote Lecture: Kazuyuki Aihara
  An Application of Hybrid Dynamical Systems Modelling to Personalized Hormone Therapy of Prostate Cancer
Venue: LT1  
10:15-10:35 Coffee           
10:35-12:20 Session 10 Session 11 Session 12 Workshop 7    
Session Chair:  Wai-ki Ching Weichuan Yu Xiaohua Hu  
Venue: LT6 LT7 LT8 LT5  
12:20-13:40 Lunch          
  Poster Session           
13:40-14:15 Invited Talk: Invited Talk: Invited Talk: Workshop 10    
  Sunghoon Kim Frank Alber Keith C.C. Chan  
Session Chair:  Dong Xu Kazuyuki Aihara Wai-ki Ching  
Venue: LT6 LT7 LT8 LT5  
14:20-16:05 Session 13 Session 14 Session 15 Workshop 10    
Session Chair:  Sunghoon Kim FangXiang Wu Keith Chan  
Venue: LT6 LT7 LT8 LT5    
16:05-16:25 Coffee   
16:25-17:40 Session 16 Session 17 Session 18 Workshop 10    
Session Chair:  Tatsuya Akutsu Weichuan Yu Frank Alber  
Venue: LT6 LT7 LT8 LT5    
18:00-22:00 Banquet  
  Guangdong Hotel, Tsim Sha Tsui
08:30 Registration  
Venue: The ground floor of the conference venue
08:45-9:30 Session Chair: Xiaohua Hu
  Keynote Lecture: Erik van Nimwegen
  Motif Activity Response Analysis: Inferring Genome-wide Transcription Regulation in Mammals
Venue: LT1          
09:35-10:10 Invited Talk: Invited Talk: Invited Talk: Workshop 3  
  Luonan Chen Kiyoshi Asai Wing-Kin Sung  
Session Chair:  Xiaohua Hu Lusheng Wang Siu Ming Yiu  
Venue: LT6 LT7 LT8 LT5  
10:10-10:30 Coffee          
10:30-12:25 Session 19 Session 20 Session 21 Workshop 3  
Session Chair:  Luonan Chen Kiyoshi Asai Wing-Kin Sung  
Venue: LT6 LT7 LT8 LT5  
12:25-13:45 Lunch          
  Poster Session           
13:45-14:20 Invited Talk: Invited Talk: Invited Talk: Workshop 3  
  Tohru Natsume Dennis Lo Lei Liu  
Session Chair:  Erik van Nimwegen Lusheng Wang Luonan Chen  
Venue: LT6 LT7 LT8 LT5  
14:25-16:10 Session 22 Session 23 Session 24 Workshop 3    
Session Chair:  Dennis Lo Tingfung Chan Lei Liu  
Venue: LT6 LT7 LT8 LT5  
16:10-16:30 Coffee           
16:30-17:45 Session 25 Session 26   Workshop 3  
Session Chair:  Tohru Natsume Siu Ming Yiu  
Venue: LT6 LT7   LT5    
Invited Talks
Frank Alber
Title: Exploring the Nuclear Architecture: The Structural Characterization of the Nuclear Pore Complex and the Genome
Kiyoshi Asai
Title: Estimation in High-dimensional Binary Space for RNA Informatics
Keith C.C. Chan
Title: Towards Automatic Molecular Design: Using Evolutionary and Graph Mining Algorithms
Luonan Chen
Title: Network-based Ontology Analysis
Kwang-Hyun Cho
Title: State Space Analysis of Cell Fate Decision Dynamics
Wen-Lian Hsu
Title: Protein Structure and Function Prediction
Sunghoon Kim
Title: Innovation of Drug Discovery through Bioconvergence Technology
Lei Liu
Title: Protein Phosphorylation Plays an Essential Role in the Evolution of Vertebrates
Y.M. Dennis Lo
Title: Noninvasive Fetal Genomic Analysis by Maternal Plasma DNA Analysis
Tohru Natsume
Title: Challenge to Ultra-high Sensitive Mass Spectrometry for Protein Network Analysis
Wing-Kin Sung
Title: Bioinformatics Applications on Pathology
Xuegong Zhang
Title: Estimating Gene Expression Values from RNA-seq Data
Session 1            
Regular B249 "Protein-protein Interaction Prediction using Desolvation Energies and Interface Properties"
             Luis Rueda, Sridip Banerjee, Md. Mominul Aziz, and Mohammad Raza
Regular B361 "Protein-protein Interaction Prediction via Collective Matrix Factorization"  
             Qian Xu, Wei Xiang, and Qiang Yang  
Regular B483 "NetLoc: Network Based Protein Localization Prediction Using Protein-Protein Interaction and Co-expression Networks"
             Ananda Mondal and Jianjun Hu  
Short B336 "Sequence and Structural features of binding site residues in protein-protein complexes"
             Gromiha Michael, Saranya N., Selvaraj S., Jayaram B., and Kazuhiko Fukui  
Short B552 "An accurate classification of native and non-native protein-protein interactions using supervised and semi-supervised learning approaches"
             Nan Zhao, Bin Pang, Chi-Ren Shyu, and Dmitry Korkin    
Session 2            
Regular B323 "Finding Optimal Control Policy in Probabilistic Boolean Networks with Hard Constraints by Using Integer Programming and Dynamic Programming"
             Xi Chen, Tatsuya Akutsu, Takeyuki Tamura, and Wai-Ki Ching  
Regular B326 "Semi-supervised learning Protein Complexes from Protein Interaction Networks"
             Lei Shi and Aidong Zhang  
Regular B480 "An Iterated Conditional Mode Solution for Bayesian Factor Modeling of Transcriptional Regulatory Networks"
             Jia Meng, Jianqiu Zhang, Yidong Chen, and Yufei Huang  
Short B372 "Decomposing PPI Networks for Complex Discovery"
             Guimei Liu, Chern Han Yong, Hon Nian Chua, and Limsoon Wong  
Short B551 "A Dynamic Qualitative Probabilistic Network Approach for Extracting Gene Regulatory Network Motifs"
             Zina M. Ibrahim, Alioune Ngom, and Ahmed Y. Tawfik    
Session 3            
Regular B379 "Concurrent Analysis of Copy Number Variations and Expression Profiles to Identify Genes Associated with Tumorigenesis and Survival Outcome in Lung Adenocarcinoma"
             Tzu-Pin Lu, Pei-Chun Chen, Liang-Chuan Lai, Mong-Hsun Tsai, Chuhsing Hsiao, and Eric Y Chuang
Regular B516 "A Graph-based Elastic Net for Variable Selection and Module Identification for Genomic Data Analysis"
             Zheng Xia, Xiaobo Zhou, Wei Chen, and Chunqi Chang  
Regular B410 "Robust hidden semi-Markov modeling of array CGH data"
             Jiarui Ding and Sohrab Shah  
Short B413 "A New Perspective of Integrative Genome-wide Association Analysis"  
             Junho Kim and Doheon Lee  
Short B458 "Correlating CpG Islands, Motifs, and Sequence Variants in Human Chromosome 21"
             Leah Spontaneo and Nick Cercone      
Session 4            
Regular B270 "Prediction of DNA-binding Protein based on Alpha Shape Modeling"  
             Weiqiang Zhou and Hong Yan  
Regular B316 "Accurate Prediction of ATP-binding Residues Using Sequence and Sequence-derived Structural Descriptors"
             Ke Chen, Marcin Mizianty, and Lukasz Kurgan  
Regular B488 "Predicting ligand binding residues using multi-positional correlations and kernel canonical correlation analysis"
             Alvaro Gonzalez, Li Liao, and Cathy Wu  
Short B376 "Prediction of Protein-RNA Interaction Site Using SVM-KNN Algorithm with Spatial Information"
             Wei Chen, Shaowu Zhang, Yongmei Cheng, and Quan Pan  
Short B482 "A Parallel Multi-objective Ab initio Approach for Protein Structure Prediction"  
             David Becerra, Angelica Sandoval, Daniel Restrepo-Montoya, and Luis Nino  
Session 5            
Regular B238 "SoyMetDB: The Soybean Metabolome Database"  
             Trupti Joshi, Qiuming Yao, Levi D. Franklin, Laurent Brechenmacher, Babu Valliyodan, Gary Stacey, Henry Nguyen, and Dong Xu
Regular B293 "Iterative Correction of Suppressed Peptide Profiles from FTMS Measurements"
             Xuepo Ma, Travis Hestilow, Jian Cui, and Jianqiu Zhang  
Regular B441 "IsoKEGG: A Logic based System for Querying Biological Pathways in KEGG"
             Kazi Zakia Sultana, Anupam Bhattacharjee, and Hasan Jamil  
Short B447 "An ensemble method for querying gene expression compendia with experimental lists"
             Riet De Smet and Kathleen Marchal  
Short B418 "Rex: A Toolset for Reproducing Software Experiments"  
             Somu Perianayagam, Gregory Andrews, and John Hartman    
Session 6            
Regular B347 "Improving Robustness of Gene Ranking by Resampling and Permutation Based Score Correction and Normalization"
             Feng Yang and Kezhi Mao  
Regular B448 "A Gene Ranking Method Using Text-Mining for the Identification of Disease Related Genes"
             Hyungmin Lee, Miyoung Shin, and Munpyo Hong  
Regular B318 "Link-Based Cluster Ensembles for Heterogeneous Biological Data Analysis"  
             Natthakan Iam-On, Tossapon Boongoen, Simon Garrett, and Chris Price  
Short B423 "Discovering negative correlated gene sets from integrative gene expression data for cancer prognosis"
             Tao Zeng, Xuan Guo, and Juan Liu  
Short B528 "Gene Selection Using 1-Norm Regularization for Multi-Class Microarray Data"
             Xiaofei Nan, Nan Wang, Ping Gong, Chaoyang Zhang, Yixin Chen, and Dawn Wilkins
Session 7            
Regular B277 "Gene Cluster Profile Vectors: A Novel Method to Infer Functional Coupling Using Both Gene Proximity and Co-occurrence Profiles"
             Vikas Pejaver and Sun Kim  
Regular B404 "CEO: A Cloud Epistasis cOmputing model in GWAS"  
             Zhengkui Wang, Yue Wang, Kian-Lee Tan, Limsoon Wong, and Divyakant Agrawal
Regular B530 "A Probabilistic Framework for Inferring Ancestral Genomic Orders"  
             Jian Ma  
Short B303 "Detecting SNPs-disease Associations Using Bayesian Networks"  
            Bing Han and Xue-wen Chen  
Short B502 "Metabolomic profiling for biomarker discovery in pancreatic cancer"  
             Prabhjit Kaur, Kathryn Sheikh, Alexander Kirilyuk, Ksenia Kirilyuk, Bhaskar Kallakury, Habtom Ressom, and Amrita Cheema
Session 8            
Regular B337 "Discovering Functional Gene Pathways Associated with Cancer Heterogeneity via Sparse Supervised Learning"
             Shuichi Kawano, Teppei Shimamura, Atsushi Niida, Seiya Imoto, Rui Yamaguchi, Masao Nagasaki, Ryo Yoshida, Cristin Print, and Satoru Miyano
Regular B369 "A Two-Stage Machine Learning Approach for Pathway Analysis"  
             Wei Zhang, Scott Emrich, and Erliang Zeng  
Regular B468 "Structure Identification and Parameter Estimation of Biological S-systems"  
             Li-Zhi Liu, FangXiang Wu, Li-Li Han, and Wenjun Zhang  
Short B255 "A Non-parameter Ising Model for Network-based Identification of Differentially Expressed Genes in Recurrent Breast Cancer Patients"
             Xumeng Li, F. Alex Feltus, Xiaoqian Sun, Zijun Wang, and Feng Luo  
Short B353 "NWE: Node-Weighted Expansion for Protein Complex Prediction Using Random Walk Distances"
             Osamu Maruyama and Ayaka Chihara      
Session 9            
Regular B445 "Feature Selection for Graph Kernels"  
             Mehmet Tan, Faruk Polat, and Reda Alhajj  
Regular B306 "Sparse Canonical Correlation Analysis Applied to fMRI and Genetic Data Fusion"
             David Boutte and Jingyu Liu  
Short B385 "Hierarchical Decomposition of Vessel Skeletons for Graph Creation and Feature Extraction"
             Klaus Drechsler and Cristina Oyarzun Laura  
Short B394 "Ranking SVM for Multiple Kernels Output Combination in Protein-Protein Interaction Extraction from Biomedical Literature"
             Zhihao Yang, Yuan Lin, Jiajin Wu, Nan Tang, Hongfei Lin, and Yanpeng Li  
Short B401 "Semi-­Supervised Feature Learning from Clinical Text"  
             Zhuoran Wang, John Shawe-Taylor, and Anoop Shah    
Session 10            
Regular B422 "MetaPhyler: Taxonomic Profiling for Metagenomic Sequences"  
             Bo Liu, Theodore Gibbons, Mohammad Ghodsi, and Mihai Pop  
Regular B525 "Detection of splicing events and multiread locations from RNA-seq data based on a geometric-tail (GT) distribution of intron length"
             Shao-Ke LOU, Jing-Woei LI, Hao QIN, Aldrin Kay-Yuen YIM, Leung Yau Lo, Bing Ni, Kwong Sak Leung, Stephen Kwok-Wing TSUI, and Ting-Fung CHAN
Regular B526 "Evaluation of Short Read Metagenomic Assembly."  
             Anveshi Charuvaka and Huzefa Rangwala  
Short B241 "Prediction of Low Coverage Prone Regions for Illumina Sequencing Projects using a Support Vector Machine"
             Zejun Zheng, Guillaume Bourque, and Bertil Schmidt  
Short B381 "Enhanced Reference Guided Assembly"  
             Francesco Vezzi, Alberto Policriti, and Federica Cattonaro    
Session 11            
Regular B304 "A Fast and Noise-Adaptive Rough-Fuzzy Hybrid Algorithm for Medical Image Segmentation"
             Arpit Srivastava, Abhinav Asati, and Mahua Bhattacharya  
Regular B544 "Eigenspectra, A Robust Regression Method For Multiplexed Raman Spectra Analysis"
             Shuo Li, Jean Gao, James Nyagilo, and Digant Dave  
short B220 "A Parameterless Automatic Spot Detection Method for cDNA Microarray Images"
             Iman Rezaeian and Luis Rueda  
Short B231 "An accurate, automatic method for markerless alignment of electron tomographic images"
             Qi Chu, Fa Zhang, Kai Zhang, Xiaohua Wan, Mingwei Chen, and Zhiyong Liu
Short B243 "Spatially Constrained Fuzzy Hyper-Prototype Clustering with Application to Brain Tissue Segmentation"
             Jin Liu, Tuan Pham, Wei Wen, and Perminer Sachdev    
Session 12            
Regular B408 "A Procedure for Identifying Master Regulators in Conjunction with Network Screening and Inference"
             Shigeru Saito, Xinrong Zhou, Taejeong Bae, Sunghoon Kim, and Katsuhisa Horimoto
Regular B531 "Cis-regulatory Module Detection using Constraint Programming"  
             Tias Guns, Hong Sun, Kathleen Marchal, and Siegfried Nijssen  
Regular B405 "A sparse regulatory network of copy-number driven expression reveals putative breast cancer oncogenes"
             yinyin yuan, Christina Curtis, Carlos Caldas, and Florian Markowetz  
Short B508 "Scalable, Updatable Predictive Models for Sequence Data"  
             Neeraj Koul, Ngot Bui, and Vasant Honavar  
Short B515 "Module-Based Biomarker Discovery in Breast Cancer"  
             Yuji Zhang, Jason Xuan, Robert Clarke, and Habtom Ressom    
Session 13            
Regular B439 "Protein 8-class Secondary Structure Prediction Using Conditional Neural Fields"
             Zhiyong Wang, Feng Zhao, Jian Peng, and Jinbo Xu  
Regular B442 "Truncation of Protein Sequences for Fast Profile Alignment with Application to Subcellular Localization"
             Man-Wai Mak, Wei Wang, and Sun-Yuan Kung  
Regular B535 "Predicting DNA-binding Locations and Orientation on Proteins Using Knowledge-based Learning of Geometric Properties"
             Chien-Chih Wang and Chien-Yu Chen  
Short B327 "Unsupervised Integration of Multiple Protein Disorder Predictors"  
             Ping Zhang and Zoran Obradovic  
Short B325 "Decomposing protein interactome networks by graph entropy"  
             Hao Lian, Chengsen Song, and Young-Rae Cho    
Session 14            
Regular B314 "Peptide Charge State Determination of Tandem Mass Spectra from Low-Resolution Collision Induced Dissociation"
             Jinhong Shi and FangXiang Wu  
Regular B345 "Prediction of Human Protein Kinase Substrate Specificities"  
             Javad Safaei, Jano Manuch, Arvind Gupta, Ladislav Stacho, and Steven Pelech
Regular B496 "Represented Indicator Measurement and Corpus Distillation on Focus Species Detection"
             Chih-Hsuan Wei and Hung-Yu Kao  
Short B234 "Overcoming Drug Resistance by Co-Targeting"  
             Marzieh Ayati, Golnaz Taheri, Shahriar Arab, Limsoon Wong, and Changiz Eslahchi
Short B315 "Exploratory Analysis of the BioAssay Network with Implications to Therapeutic Discovery"
             Jintao Zhang, Gerald Lushington, and Jun Huan    
Session 15            
Regular B359 "Autoregressive Modeling of DNA Features for Short Exon Recognition"  
             Yu Song and Hong Yan  
Regular B462 "A Novel Reinforcement Learning Framework for Online Adaptive Seizure Prediction"
             Shouyi Wang, Wanpracha Chaovalitwongse, and Stephen Wong  
Regular B518 "Computational Prediction of Toxicity"  
             Meenakshi Mishra, Hongliang Fei, and Jun Huan  
Short B240 "Machine Learning Approaches for the Investigation of Features beyond Seed Matches Affecting miRNA Binding"
             Cen Gao and Jing Li  
Short B489 "Global Analysis of miRNA Target Genes in Colon Rectal Cancer"  
             Meeta Pradhan, Lakenvia Ledford, Yogesh Pandit, and Mathew Palakal  
Session 16            
Short B368 "Characterization of Structural Features for Small Regulatory RNAs in Escherichia coli Genomes"
             Shu-Yun Le and Bruce Shapiro  
Short B433 "MiRNAs as Promising Phylogenetic Markers for Inferring Deep Metazoan Phylogeny and in Support of Olfactores Hypothesis"
             Xiaoyan Zhang, Qingqing Cai, and Zuofeng Li  
Short B437 "alns - a Searchable, Filterable Alignment Format"  
             Ross Ka Kit Leung and Stephen Kwok-Wing TSUI  
Short B481 "An algorithm for mapping short reads to a dynamically changing genomic sequence"
             Solon Pissis, Costas Iliopoulos, Jan Holub, and Tomas Flouri  
Short B486 "Identification and quantification of abundant species from pyrosequences of 16S rRNA by consensus alignment"
             Yuzhen Ye          
Session 17            
Short B239 "Two-stage clustering based effective sample selection for classification of pre-miRNAs"
             Ping Xuan, Mao-zu Guo, Lei-lei Shi, Jun Wang, Xiao-yan Liu, Wen-bin Li, and Ying-peng Han
Short B351 "Structural parsimony: reductions in sequence space"  
             Roberto Blanco  
Short B485 "Probabilistic Topic Modeling for Genomic Data Interpretation"  
             Xin Chen, Xiaohua Hu, Xiajiong Shen, and Gail Rosen  
Short B499 "Exploring a Multi-Source Fusion Approach for Genomics Information Retrieval"
             Qinmin Hu, Jimmy Huang, and Jun Miao  
Short B534 "A Relevance-Novelty Combined Model for Genomics Search Result Diversification"
             Xiaoshi Yin, Zhoujun Li, Jimmy Huang, and Xiaohua Hu    
Session 18            
Short B331 "Solving Training Issues in the Application of the Wavelet Transform to Precisely Analyze Human Body Acceleration Signals"
             E Martin  
Short B416 "Computational Modeling of Phagocyte Transmigration during Biomaterial-Mediated Foreign Body Responses"
             Mingon Kang, Jean Gao, and Liping Tang  
Short B434 "Time- and Space-efficient Maximal Repeat Finding Using Burrows-Wheeler Transform and Wavelet Trees"
             Muhammed Oguzhan Kulekci, Jeffrey Scott Vitter, and Bojian Xu  
Short B452 "Toward Automatically Drawn Metabolic Pathway Atlas with Peripheral Node Abstraction Algorithm"
             Myungha Jang, Arang Rhie, and Hyun-Seok Park  
Short B500 "GPU-based Triangulation of the van der Waals Surface"  
             Sergio Dias and Abel Gomes        
Session 19            
Regular B446 "CAMBer: An Approach to Support Comparative Analysis of Multiple Bacterial Strains"
             Michal Wozniak, Limsoon Wong, and Jerzy Tiuryn  
Regular B472 "Visualizing Biological Insights of H-2KbpeptideTCR Complexes"
             I-Hsin Liu, Yu-Shu Lo, and Jinn-Moon Yang  
Regular B322 "FluRF, an automated flu virus reassortment finder based on phylogenetic trees"
             Alisa Yurovsky and Bernard M.E. Moret  
Short B292 "Phylogenetic Reconstruction with Gene Rearrangements and Gene Losses"  
             Yiwei Zhang, Fei Hu, and Jijun Tang  
Short B392 "A Possible Mutation that Enables H1N1 Influenza A Virus to Escape Antibody Recognition"
             Tran To Chinh Su, Stephanus Daniel Handoko, Christian Schönbach, Xiaoli Li, and Chee Keong Kwoh
Session 20            
Regular B219 "A New Method for Measuring the Semantic Similarity on Gene Ontology"  
             Ying Shen, Shaohong Zhang, and Hau-San Wong  
Regular B384 "Ontology integration to identify protein complex in protein interaction networks"
             Bo Xu, Hongfei Lin, and Zhihao Yang  
Regular B510 "Intracranial Pressure Level Prediction in Traumatic Brain Injury by Extracting Features from Multiple Sources and Using Machine Learning Methods"
             Wenan Chen, Charles Cockrell, Kevin Ward, and Kayvan Najarian  
Short B230 "seGOsa: Software Environment for Gene Ontology-driven Similarity Assessment"
             Huiru Zheng, Francisco Azuaje, and Haiying Wang  
Short B274 "Biomedical Concept Extraction using Concept Graphs and Ontology-based Mapping"
             Said Bleik, Wei Xiong, Yiran Wang, and Min Song    
Session 21            
Regular B419 "Stochastic Gene Expression Modeling with Hill Function for Switch-like Gene Responses"
             Haseong Kim and Erol Gelenbe  
Regular B550 "Integrated Analysis of the various types of microarray data using linear-mixed effects models"
             Sung Gon Yi and Taesung Park  
Regular B477 "Gene Expression Rule Discovery with a Multi-objective Neural-Genetic Hybrid"
             Ed Keedwell and Ajit Narayanan  
Short B245 "Exploring matrix factorization techniques for significant genes identification of microarray dataset"
             Wei Kong, Xiaoyang Mou, and Xiaohua Hu  
Short B343 "Non-negative Matrix and Tensor Factorization Based Classification of Clinical Microarray Gene Expression Data"
             Yifeng Li and Alioune Ngom        
Session 22            
Regular B207 "Fuzzy C-means method with empirical mode decomposition for clustering microarray data"
             Yan-Fei Wang, Zu-Guo Yu, and Vo Anh  
Regular B444 "Multi-Objective Evolutionary Algorithms based Interpretable Fuzzy Models for Microarray Gene Expression Data Analysis"
             Zhenyu Wang and Vasile Plade  
Regular B467 "A Supervised Learning Approach to the Unsupervised Clustering of Genes"  
             Andrew Rider, Geoffrey Siwo, Scott Emrich, Michael Ferdig, and Nitesh Chawla
Short B297 "Outcomes of Gene Association Analysis of Cancer Microarray Data are Impacted by Pre-processing Algorithms"
             N Baskaran, Chee Keong Kwoh, and Kam Hui  
Short B356 "Unsupervised discovery of fuzzy patterns in gene expression data"  
             Gene P.K. Wu, Keith C. C. Chan, Andrew K.C. Wong, and Bin Wu  
Session 23            
Regular B235 "Examining the sublineage structure of Mycobacterium tuberculosis complex strains with multiple-biomarker tensors"
             Cagri Ozcaglar, Amina Shabbeer, Scott Vandenberg, Bulent Yener, and Kristin P. Bennett
Regular B279 "Identification of Critical Location on A Microstructural Bone Network"  
             Taehyong Kim, Jaehan Koh, Kang Li, Murali Ramanathan, and Aidong Zhang
Regular B411 "Network-Based Identification of Smoking-Associated Gene Signature for Lung Cancer"
             Ying-Wooi Wan, Changchang Xiao, and Nancy Guo  
Short B218 "Classification of Genome-wide Copy Number Variations and Their Associated SNP and Gene Networks Analysis"
             Yang Liu, Yiu Fai Lee, and Michael K. Ng  
Short B415 "Detection and Application of CagA Sequence Markers for Assessing Risk Factor of Gastric Cancer Caused by Helicobacter pylori"
             Chao Zhang, Shunfu Xu, and Dong Xu      
Session 24            
Regular B463 "An Evolutionary Monte Carlo Algorithm for Identifying Short Adjacent Repeats in Multiple Sequences"
             Jin Xu, Qiwei Li, Xiaodan Fan, Victor O. K. Li, and Shuo-Yen Robert Li  
Regular B497 "PSI-RA: A parallel sparse index for read alignment on genomes"  
             Muhammed Oguzhan Kulekci, Wing-Kai Hon, Rahul Shah, Jeffrey Scott Vitter, and Bojian Xu
Regular B513 "A New Method for Alignment of LC-MALDI-TOF Data"  
             Zhiqun Tang, Lihua Zhang, Amrita Cheema, and Habtom Ressom  
Short B541 "A Generalized Sequence Pattern Matching Algorithm Using Complementary Dual-Seeding"
             Bing Ni, Leung Yau Lo, and Kwong Sak Leung  
Short B313 "An Automatic Procedure to Search Highly Repetitive Sequences in Genome as Fluorescence in Situ Hybridization Probes and Its Application on Brachypodium Distachyon"
             Qiwei Li, Tong Liang, Xiaodan Fan, Chunhui Xu, Weichang Yu, and Shuo-Yen Robert Li
Session 25            
Short B348 "Sparse Nonnegative Matrix Factorization with the Elastic Net"  
             Weixiang Liu, Songfeng Zheng, Sen Jia, Linlin Shen, and Xianghua Fu  
Short B427 "A Comparative Study of Two Matrix Factorization Methods Applied to the Classification of Gene Expression Data"
             Vladimir Nikulin, Tian-Hsiang Huang, and Geoffrey McLachlan  
Short B507 "Selecting Informative Genes by Lasso and Dantzig Selector for Linear Classifiers"
             Songfeng Zheng and Weixiang Liu  
Short B536 "Gene Clustering by Structural Prior based Local Factor Analysis Model under Bayesian Ying-Yang Harmony Learning"
             Lei Shi, Shikui Tu, and Lei Xu        
Session 26            
Short B257 "Hybrid SVM/CART Classification of Pathogenic Species of Bacterial Meningitis with Surface-Enhanced Raman Scattering"
             Chung-Yueh Huang, Tsung-Heng Tsai, Bing-Cheng Wen, Chia-Wen Chung, Li-Li Lie, Juen-Kai Wang, Yuh-Lin Wang, Chi-Hung Lin, Wen-Jie Lin, and Da-Wei Wang
Short B258 "Utilizing Cox Regression Model to Assess the Relations Between Predefined Gene Sets and the Survival Outcome of Lung Adenocarcinoma"
             Jo-Yang Lu, Chuhsing Hsiao, Mong-Hsun Tsai, Pei-Chun Chen, Eric Y. Chuang, and Liang-Chuan Lai
Short B341 "A Naïve Bayes Classifier for Differential Diagnosis of Long QT Syndrome in Children"
             Long Qu, Victoria Vetter, Geoffrey Bird, Haijun Qiu, and Pete White
Short B406 "Concurrent Analysis of Copy Number Variation and Gene Expression: Application in Paired Non-Smoking Female Lung Cancer Patients"
             Jung-Chih Chang, Tzu-Pin Lu, Liang-Chuan Lai, Mong-Hsun Tsai, Chuhsing Hsiao, Eric Y. Chuang, and Pei-Chun Chen
Short B512 "Exploitation of 3D Stereotactic Surface Projection for Automated Classification of Alzheimer Disease according to Dementia Levels"
             Murat Ayhan, Ryan Benton, Vijay Raghavan, and Suresh Choubey