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List of Accepted Papers
Stanisław Ołdziej, Cezary Czaplewski, Adam Liwo and Harold Scheraga. Towards temperature dependent coarse-grained potential of side-chain interactions for protein folding simulations II. Simple functional forms for the side-chain-interaction potential: effect on simulated heat capacity and radius of gyration of staphylococ

Hamid Ravaee, Ali Masoudi-Nejad, Saeed Omidi and Ali Moeni. Improved Immune Genetic Algorithm for Clustering Protein-Protein Interaction Network

Changyong Yu. A Multi-stage Spectral Alignment Strategy for Unrestrictive PTM Peptide Identification

Steve Essinger and Gail Rosen. The Effect of Sequence Error and Partial Training Data on BLAST Accuracy of Short Reads

Dongchul Kim, Jean Gao and Chin-Rang Yang. Learning Proteomic Network Structure by Developing a New Hill Climbing Algorithm

Ivan Buzurovic, Ke Huang, Yan Yu and Tarun Podder. Tumor Motion Prediction and Tracking in Adaptive Radiotherapy

Jeremy Scheff, Steve Calvano, Stephen Lowry and Ioannis Androulakis. Modeling Circadian Rhythms in Inflammation

Tung Nguyen, Panagiota Foteinou, Steve Calvano, Stephen Lowry and Ioannis Androulakis. Dynamic complexity of the temporal transcriptional regulation program in human endotoxemia

Sokratis Makrogiannis, Suraj Serai, Kenneth Fishbein, Willie Laney, Catherine Schreiber, William Ershler, Luigi Ferrucci and Richard Spencer. Automated Quantification of Muscle and Fat in the Thigh from Water-, Fat- and Non-Suppressed MR Images

Jiawei Zhang, Liping Wang, Xia Liu, Honghai Zhu and Jun Dong. Chinese Cardiovascular Disease Database (CCDD) and its Management Tool

Yang Chen and Jinglu Hu. eSBH: An Accurate Constructive Heuristic Algorithm for DNA Sequencing By Hybridization

Ferhat Ay, Thang N. Dinh, My T. Thai and Tamer Kahveci. Finding Dynamic Modules of Biological Regulatory Networks

Omar GACI and Stefan BALEV. How to Fold Amino Acid Interaction Networks by Computational Intelligence Methods

Natalia Petrova and Cathy Wu. Prediction of Catalytic Residues in Proteins Using a Consensus of Prediction (CoP) Approach

Alan L. Kwan, Susan K. Dutcher and Gary D. Stormo. Detecting Coevolution of Functionally Related Proteins for Automated Protein Annotation

Forrest Sheng Bao, Zhixin Xie and Yuanlin Zhang. Fast Phased Small RNA Cycle Counting Algorithms

Fan Wang and Agrawal Gagan. A Self-Healing Approach for A Domain-Specific Deep Web Search Tool

W. Garrett Jenkinson and John Goutsias. On Constructing Thermodynamically Consistent Parametrizations of Kinetic Models

Edward Allen, Jacquelyn Fetrow, David John, James Norris, Stan Thomas and William Turkett. Comparison of Co-Temporal Modeling Algorithms on Sparse Experimental Time Series Data Sets

Lana Garmire, Shankar Subramaniam, David Garmire and Christopher Glass. A clustering approach to identify intergenic non-coding RNA in mouse macrophages

Tarun Podder, Ivan Buzurovic and Yan Yu. Multichannel Robot for Image-guided Brachytherapy

Qian Cong, Bong-Hyun Kim, Lisa Kinch and Nick Grishin. Structural Differences Between Proteins With Similar Sequences

Lei Shi, Young-Rae Cho and Aidong Zhang. Functional flow simulation based analysis of protein interaction network

Taehyong Kim, Woochang Hwang, Aidong Zhang and Murali Ramanathan. Computational Framework for Microstructural Bone Dynamics Model and Its Evaluation

Francisco Claude, Antonio Farina, Miguel Angel Martinez-Prieto and Gonzalo Navarro. Compressed q-gram Indexing for Highly Repetitive Biological Sequences

Ayyappa Vadlamudi, Shao-Hui Chuang, Xiaoyan Sun, Jiang Li, Frederic McKenzie, Lisa Cazares, Julius Nyalwidhe, Dean Troyer and John Semmes. Combining Prostate Cancer Region Predictions from MALDI Specitra Processing and Texture Analysis

Lei Shi, Marko Srdanovic, Thijs Beuming, Lucy Skrabanek, Jonathan Javitch and Harel Weinstein. TRAC — a Platform for Structure-Function Studies of NSS-proteins Integrates Information from Bioinformatics and Biomedical Literature

Yang Pu, Saangho Lee, David Samuels, Layne Watson and Yang Cao. Hybrid Modeling and Simulation of Insulin Secretion Pathway in Pancreatic Islets

Lin Li, Carl Lozar, Mark A. Eckert, Dheeraj Chahal and James Z. Wang. Detection of Mild Cognitive Impairment using Image Differences and Clinical Features

Hiromi Arai, Naoya Tochio, Tsuyoshi Kato, Takanori Kigawa and Masayuki Yamamura. An accurate prediction method for protein structural class from signal patterns of NMR spectra in the absence of chemical shift assignments

Tomoya Higashigaki, Kaname Kojima, Rui Yamaguchi, Masato Inoue, Seiya Imoto and Satoru Miyano. Identifying Hidden Confounders in Gene Networks by Bayesian Networks

Sohei Ito, Naoko Izumi, Shigeki Hagihara and Naoki Yonezaki. Qualitative analysis of gene regulatory networks by satisfiability checking of Linear Temporal Logic

Haiyun Lu, Shamima Banu Bte Sm Rashid, Hao Li, Wee Kheng Leow and Yih-Cherng Liou. Knowledge-Guided Docking of Flexible Ligands to SH2 Domain Proteins

Vidya Iyer, Ioannis Androulakis, Charles Roth and Marianthi Ierapetritou. Effects of Triadimefon on the Metabolism of Cultured Hepatocytes

Arpit Gandhi, Raghavendra Adiga and kuruvilla Varghese. Space Efficient Diagonal Linear Space Sequence Alignment

Giovanni Stracquadanio, Renato Umeton, Alessio Papini, Pietro Liò and Giuseppe Nicosia. Analysis and Optimization of C3 Photosynthetic Carbon Metabolism

Ivan Buzurovic, Tarun Podder, Lei Fu and Yan Yu. Modular Software Design for Brachytherapy Image-guided Robotic Systems

Petros Xanthopoulos, Steffen Rebennack, Chang-Chia Liu, Jicong Zhang, Gregory Holmes, Basim Uthman and Panos Pardalos. A novel wavelet based algorithm for spike and wave detection in absence epilepsy

Wei Li, Paul M. Ruegger, James Borneman and Tao Jiang. Polony Identification Using the EM Algorithm Based on a Gaussian Mixture Model

Alexandros Karargyris and Dr. Nikolaos Bourbakis. An Elastic Video Interpolation Methodology for Wireless Capsule Endoscopy videos

Zeynep Gumus, Fernando Siso-Nadal, Ada Gjyrezi, Iya Khalil, Paraskevi Giannakakou and Harel Weinstein. Quantifying the synergy of drug combinations on gene expression in High-Throughput experiments

Karthik Devarajan, Yan Zhou and Nader Ebrahimi. A supervised approach for predicting patient survival with gene expression data

Chuang Wu, Andrew Walsh and Roni Rosenfeld. Identification of Viral Protein Genotypic Determinants using Combinatorial Filtering and Active Learning

Stuart King, Yanni Sun, James Cole and Sakti Pamanik. BLAST Tree: Fast Filtering for Genomic Sequence Classification

Marylens Hernandez, Alexander Lachmann, Shan Zao, Kunhong Xiao and Avi Maayan. Inferring the Sign of Kinase-Substrate Interactions by Combining Quantitative Phosphoproteomics with a Literature-Based Mammalian Kinome Network

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