Regular Papers:
B225 "Sequence-Based Prediction of Protein Folding Rates Using Contacts,
Secondary Structures and Support Vector Machines" Guan Ning Lin, Zheng
Wang, Dong Xu, and Jianlin Cheng
B227 "Bioinformatics pipeline for identification of binding motifs of flexible
protein tethers" Jeffrey Ram and Yi Lu
B233 "Extremal Optimization for the Contact Map Overlap Problem" Hengyun
Lu, Genke Yang, and Lam Fat Yeung
B242 "Biological Feature Incorporated Alignment for Cross Species Analysis on
Carbohydrate Binding Modules" Wei-Yao Chou, Wei-I Chou, Shu-Chuan Lin,
Rong-Yuan Huang, Ting-Ying Jiang, Hao-Teng Chang, Chien-Jung Chen, ChiaMao Wu, Chuan-Yi Tang, and Dah-Tsyr Chang
B249 "Accurate Prediction of Stability Changes in Bacteriophage T4 Lysozyme
Upon Single Amino Acid Replacements" Majid Masso, Tariq Alsheddi, and Iosif
Vaisman
B271 "High Throughput Short Read Alignment via Bi-directional BWT" T.W.
Lam, Ruiqiang Li, Alan Tam, Simon Wong, Edward Wu, and S.M. Yiu
B280 "Neural Grammar Networks in QSAR Chemistry" Eddie Ma and Stefan
Kremer
B404 "Predicting yeast synthetic lethal genetic interactions using SVM" Bo Li and
Feng Luo
B408 "Detection of Gene Orthology Based On Protein-Protein Interaction
Networks" Fadi Towfic, M. Heather West Greenlee, and Vasant Honavar
B409 "Evaluation of Gene Annotation Accuracy by Inferring Transcripts from
RNA-Seq" Jeffrey Martin, Wenhan Zhu, Nicholas Bergman, and Mark
Borodovsky
B431 "An Algorithm for the Discovery of Phenotype Related Metabolic
Pathways” Matthew C. Schmidt and Nagiza F. Samatova
B235 "Modeling Protein Interaction Networks with Answer Set Programming"
Timur Fayruzov, Martine De Cock, Chris Cornelis, and Dirk Vermeir
B240 "Restructuring protein interaction networks to reveal structural hubs and
functional organizations" Young-Rae Cho and Aidong Zhang
B285 "High Functional Coherence in Protein Multicliques of Protein Interaction
Networks" Qian Liu and Jinyan Li
B322 "Exploratory Analysis of Protein Translation Regulatory Networks Using
Hierarchical Random Graphs" Daniel Wu and Xiaohua Hu
B350 "Qualitative Motif Detection in Gene Regulatory Networks" Zina Ibrahim,
Ahmed Tawfik, and Alioune Ngom
B351 "Towards Reliable Isoform Quantification using RNA-Seq Data" Brian
Howard and Steffen Heber
B375 "Identifying Gene Signatures from Cancer Progression Data Using Ordinal
Analysis" Yoon Soo Pyon and Jing Li
B382 "Side Effect Prediction using Cooperative Pathways" Mutsumi Fukuzaki,
Mio Seki, Hisashi Kashima, and Jun Sese
B385 "DASSO-MB: Detection of Epistatic Interactions in Genome-Wide
Association Studies Using Markov Blankets" Bing Han, Meeyoung Park, and
Xue-wen Chen
B415 "Disease Classification based on the Activities of Interacting Molecular
Modules with Condition-responsive Correlations" Sejoon Lee, Eunjung Lee,
Kwanghyung Lee, and Doheon Lee
B426 "A Multi-Task Feature Selection Filter for Microarray Classification" Liang
Lan and Slobodan Vucetic
B237 "Biofilm Image Segmentation Using Optimal Multi-Level Thresholding"
Dario Rojas, Luis Rueda, Alioune Ngom, Homero Urrutia, and Gerardo Carcamo
B245 "Model-based ECG Denoising Using Empirical Mode Decomposition" Yan
Lu, Jingyu Yan, and Yeung Yam
B304 "Extraction of Respiratory Rate from Impedance Signal Measured on Arm:
A Portable Respiratory Rate Measurement Device" Sardar Ansari, Kayvan
Najarian, Kevin Ward, and Mohamad Tiba
B307 "Integrated Analysis of Pharmacokinetic, Clinical, and SNP Microarray
Data using Projection onto the Most Interesting Statistical Evidence with
Adaptive Permutation Testing" Stanley Pounds, Xueyuan Cao, Cheng Cheng,
Jun Yang, Dario Campana, William Evans, Ching-Hon Pui, and Mary Relling
B331 "Building a Standards-Based and Collaborative E-Prescribing Tool—
MyRxPad" Stuart Nelson, Kelly Zeng, and John Kilbourne
B345 "Discovering Protein Biomarkers by Correlating Functional Genomics
Proteomics Results" Jieun Jeong and Jake Chen
B358 "Towards identification of human disease phenotype-genotype association
via a network module-based method" Qiang Jiang, Andreas Dress, and Ming
Chen
B368 "Multiagent Approach for Identifying Cancer Biomarkers" Reda Alhajj
B379 "Feature Extraction for Pulse Waveform in Traditional Chinese Medicine by
Hemodynamic Analysis" Haixia Yan, Yiqin Wang, Zhaorong Liu, Rui Guo,
Fufeng Li, Fuying Run, and Yujian Hong
B425 "Differential Prediction for Modeling Racial Disparities in Breast Cancer"
Indranil Palit, Chandan Reddy, and Kendra Schwartz
B429 "Identifying MiRNA and Imaging Features Associated with Metastasis of
Lung Cancer to the Brain" Sara Nasser, Aarati Ranade, Shravan Sridharth, Lisa
Haney, Ronald Korn, Michael Gotway, Glen Weiss, and Seungchan Kim
B210 "A Fast, Semi-Automatic Brain Structure Segmentation Algorithm for
Magnetic Resonance Imaging" Kevin Karsch, Qing He, and Ye Duan
B252 "Pancreas Modeling from IVGTT Data Using A Deterministic Optimal
Search Method" Dayu Lv and Bill Goodwine
B253 "GemAffinity: A Scoring Function for Predicting Binding Affinity and
Virtual Screening" Kai-Cheng Hsu, Yen-Fu Chen, and Jinn-Moon Yang
B264 "A Novel Deterministic-Stochastic Crossover Method for Simulating
Biochemical Networks" Amit Sabnis and Robert W. Harrison
B287 "GAM: Genomic Assemblies Merger. A Graph Based Method to Integrate
Different Assemblies" Alberto Casagrande, Cristian Del Fabbro, Simone
Scalabrin, and Alberto Policriti
B311 "Activated Germinal-Center B Cells Undergo Directed Migration" Mark
O'Connor, Anja Hauser, Ann Haberman, and Steven Kleinstein
B326 "In silico Correction of Normal Tissue Contamination in Analyzing Copy
Number Changes" Guoqiang Yu, Bai Zhang, Jianfeng Xu, Ie-Ming Shih, and Yue
Wang
B334 "Determination of Major Lineages of Mycobacterium tuberculosis using
Mycobacterial Interspersed Repetitive Units" Minoo Aminian, Amina Shabbeer,
and Kristin Bennett
B348 "Towards A Better Ranking for Biomedical Information Retrieval Using
Context" Xiaoshi Yin, Jimmy Huang, and Zhoujun Li
B395 "Ensemble Learning Based on Active Example Selection Solving
Imbalanced Data Problem in Biomedical Data" Min Su Lee, Sangyoon Oh, and
Byoung-Tak Zhang
B419 "Application of Kernel Functions for Accurate Similarity Search in Large
chemical Databases" Xiaohong Wang, Aaron Smalter, Jun Huan, and Gerald
Lushington
Short Papers:
B230 "Protein long disordered region prediction based on profile-level disorder
propensities and position-specific scoring matrixes" Bin Liu, Lei Lin, Xiaolong
Wang, Xuan Wang, and Yi Shen
B260 "ChemAlign: Biologically Relevant Multiple Sequence Alignment Using
Physicochemical Properties" Hyrum Carroll, Mark Clement, Quinn Snell, and
David McClellan
B315 "3D Rotation Invariant Features for the Characterization of Molecular
Density Maps" Min Xu, Shihua Zhang, and Frank Alber
B335 "Fast motif selection for biological sequences" Pavel Kuksa and Vladimir
Pavlovic
B341 "Inexact Local Alignment Search over Suffix Arrays" Mohammadreza
Ghodsi and Mihai Pop
B367 "Derivation of Transcriptional Regulatory Relationships by Partial Least
Squares Regression" Reda Alhajj
B383 "Statistical Methods for Detecting Latent Periodicity in Biological Sequences:
Solving a Problem of Small-Size Samples" Maria Chaley, Nafisa Nazipova, Elena
Teplukhina, Gayane Tyulbasheva, and Vladimir Kutyrkin
B417 "Biological Network Inference by a New Hill Climbing Algorithm" DongChul Kim, Jean Gao, Chin-Rang Yang, and Xiaoyu Wang
B229 "A 2-stage Approach for inferring Gene Regulatory Networks using
Dynamic Bayesian Networks" Akther Shermin and Mehmet Orgun
B376 "Microarray Biclustering with Crowding Based MOACO" Junwan Liu,
Zhoujun Li, Xiaohua Hu, and Yiming Chen
B398 "Using Gene Pair Combinations to Improve the Accuracy of the PAM
Classifier" Pankaj Chopra, Jaewoo Kang, and Jinseung Lee
B427 "The Analysis of Arabidopsis Thaliana Circadian Network Based on Nonstationary DBNs Approach with Flexible Time Lag Choosing Mechanism" Yi Jia
and Jun Huan
B203 "Evolution of the Probability of a MPM (Multiple Primary Malignancy)
after a first Colon Tumor" Alberto Cavallo, Concetta Dodaro, and Andrea Renda
B273 "AN EFFICIENT NOISE CANCELATION TECHNIQUE TO REMOVE
NOISE FROM THE ECG SIGNAL USING NORMALIZED SIGNED REGRESSOR
LMS ALGORITHM" Zia Ur Rahman Mohammad, Rafi Ahamed Shaik, and Rama
Koti Reddy D
B274 "Using Forearm Electromyograms to Clasify Hand Gestures" Gene Shuman
B276 "A Device for Detecting and Counting Bites of Food Taken by a Person
During Eating" Yujie Dong, Adam Hoover, and Eric Muth
B289 "Nonlinear dynamical and entropic complexity measures as indicators of
nonstationarities in short-term ECG signals" Rafal Ladysz
B291 "A Flexible Policy Architecture for Medical Information Messaging"
Edward Brown and Jamie Goodyear
B336 "Clinical Attribute Network for Chronic Lymphocytic Leukemia" Abhisek
Kundu, Hatice Gulcin Ozer, Tara Borlawsky, Kristin Circle, Kun Huang, and
Philip Payne
B357 "Hospital Admission Prediction Using Pre-hospital Variables" Jiexun Li,
Lifan Guo, and Neal Handly
B361 "Hybrid SVM for Multiclass Arrhythmia Classification" Aniruddha Joshi,
Sharat Chandran, Valadi Jayaraman, and Bhaskar Kulkarni
B391 "Traumatic Pelvic Injury Outcome Prediction by Extracting Features from
Relevant Medical Records and X-ray Images" Wenan Chen, Rebecca Smith,
Simina Vasilache, Kayvan Najarian, Kevin Ward, Charles Cockrell, and Jonathan
Ha
B232 "A Hybrid Method to Discover and Rank Cross-domain Associations" Yue
Webster, Ranga Gudivada, Ernst Dow, and Mathew Palakal
B238 "Biomedical Relationship Extraction from Literature Based on Bio-Semantic
Token Subsequences" Jayasimha Reddy Katukuri, Ying Xie, and Vijay Raghavan
B259 "A Protein-Protein Interaction Prediction Method Embracing Intra-Protein
Domain Cohesion Information" Woo-Hyuk Jang, Suk Hoon Jung, Bo-ra Hyun,
and Dong-Woo Han
B269 "BioCLink: A Probabilistic Approach for Improving Genomics Search with
Citation Links" Xiaoshi Yin, Jimmy Huang, and Zhoujun Li
B317 "DNAjig: A new approach for building DNA nanostructures" Md. Muksitul
Haque, Ananth Kalyanaraman, Amit Dhingra, Nehal Abu-Lail, and Kaori
Graybeal
B328 "Enhancing Pathway Based Analysis Using Different Weighting Schemes"
Sook Ha, Inyoung Kim, and Jianhua Xuan
B333 "Analyzing DNA Copy Number Changes Using Fused Margin Regression"
Yuanjian Feng, Guoqiang Yu, Tian-Li Wang, Ie-Ming Shih, and Yue Wang
B340 "Enabling Data Analysis on High-throughput Data in Large Data
Depository Using Web-based Analysis Platform – A Case Study on Integrating
QUEST with GenePattern in Epigenetics Research" Terry Camerlengo, Hatice
Gulcin Ozer, Mingxiang Teng, Francisco Perez, Pearlly Yan, Lang Li, Jeffrey
Parvin, Tim Huang, Tashin Kurc, Yunlong Liu, and Kun Huang
B342 "Applying Feature Coupling Generalization for Protein-Protein Interaction
Extraction" Yanpeng Li, Hongfei Lin, and Zhihao Yang
B356 "Real-time Non-rigid Registration of Medical Images on a Cooperative
Parallel Architecture" Yixun Liu, Andriy Fedorov, Ron Kikinis, and Nikos
Chrisochoides
B372 "A Generalized Multivariate Approach for Correlation-based Pattern
Discovery from Replicated Molecular Profiling Data" Dongxiao Zhu, Guorong
Xu, and Lipi Acharya
B374 "GENE-GENE ASSOCIATION STUDY BETWEEN BREAST CANCER AND
OSTEOPOROSIS USING TRANSMINER TEXT MINING SYSTEM" BI-HUA
CHENG, Harsha Gopal Goud Vaka, and Snehasis Mukhopadhyay
B389 "Bacterial Foraging Optimization Algorithm Integrating Tabu Search for
Motif Discovery" Linlin Shao and Yuehui Chen
B418 "Discovering Temporal Associations among Significant Changes in Gene
Expression" Hashmat Rohian, Aijun An, Jiashu Zhao, and Jimmy Huang
B421 "Bayesian Classifier for Anchored Protein Sorting Motif Discovery" Jianjun
Hu and Fan Zhang