We received 136 paper submissions and 14 poster submissions. The acceptance rate for regular papers is 28%. In addition to 37 regular papers, 30 manuscripts have been accepted as short papers and 29 submissions will be presented as posters.

Accepted Regular Papers

  • "Relationship Preserving Feature Selection for Unlabelled Clinical Trials Time-Series", Fatih Altiparmak, and ASELSAN A.S.
  • "Comparison of Virus Interactions with Human Signal Transduction Pathways", Judith Klein-Seetharaman, Irtisha Singh, and Oznur Tastan
  • "Relational operators for prioritizing candidate biomarkers in high-throughput differential expression data", Getiria Onsongo, Hongwei Xie, Timothy Griffin, and John Carlis
  • "Effect of Sequences on the Shape of Protein Energy Landscapes", Jinfeng Zhang, Gary Tyson, and Yue Li
  • "Genome-wide compatible SNP intervals and their properties", Jeremy Wang, Fernando Pardo-Manuel de Villena, Wei Wang, and Leonard McMillan
  • "Alignment-based versus Variation-based Transformation Methods for Clustering Microarray Time-Series Data", Yifeng Li, Numanul Subhani, Alioune Ngom, and Luis Rueda
  • "Protein Structure Alignment Using Elastic Shape Analysis", Wei Liu, Anuj Srivastava, and Jinfeng Zhang
  • "Computational Modeling of the Effects of Oxidative Stress on the IGF-1 Signaling Pathway in Human Articular Chondrocytes", Pamela Marcott
  • "An Annotated k-deep Prefix Tree for (1-k)-mer Based Sequence Comparisons", Adrienne Breland, Karen Schlauch, Monica Nicolescu, and Frederick Harris
  • "A Parameter Estimation Approach for non-linear Systems Biology Models Using Spline Approximation", Zhan Choujun and Yeung Lam Fat
  • "RepFrag: A Graph based Method for Finding Repeats and Transposons from Fragmented Genomes", Nirmalya Bandyopadhyay, Tamer Kahveci, and Mark Settles
  • "Functional Similarities of Reaction Sets in Metabolic Pathways", Ferhat Ay, and Tamer Kahveci
  • "On the Border Length Minimization Problem (BLMP) on a Square Array", Vamsi Kundeti, Sanguthevar Rajasekaran, and Hieu Dinh
  • "Random Forest-Based Prediction of Protein Sumoylation Sites from Sequence Features", Shaolei Teng, Hong Luo, and Liangjiang Wang
  • "SplittingHeirs: Inferring Haplotypes by Optimizing Resultant Dense Graphs", Sharlee Climer, Alan Templeton, and Weixiong Zhang
  • "Analyzing Metabolite Measurements for Automated Prediction of Underlying Biological Mechanisms", Ali Cakmak, Arun Dsouza, Richard Hanson, and Meral Ozsoyoglu
  • "Exact ILP Solutions for Phylogenetic Minimum Flip Problems", Markus Chimani, Sven Rahmann, and Sebastian Bocker
  • "REAL: An efficient REad ALigner for next generation sequencing reads.", Solon Pissis, German Tischler, Costas Iliopoulos, Kimon Frousios, and Laurent Mouchard
  • "ReFHap: A Reliable and Fast Algorithm for Single Individual Haplotyping", Jorge Duitama, Thomas Huebsch, Gayle McEwen, Eun-Kyung Suk, and Margret Hoehe
  • "MetaCluster: Unsupervised Binning of Environmental Genomic Fragments and Taxonomic Annotation", Bin YANG, Yu Peng, Henry C.M. Leung, S.M. Yiu, Junjie Qin, Ruiqiang Li, and Francis Y.L. Chin
  • "Enzymatic target identification with dynamic states", Tamer Kahveci, Bin Song, and Sanjay Ranka
  • "Identify Gene Functions using Functional Expression Profiles obtained by Voxelation", Li An*, Hongbo Xie, Zoran Obradovic, Desmond Smith, and Vasileios Megalooikonomou
  • "Inferring Species Trees From Gene Duplication Episodes", John Burleigh, Mukul Bansal, Oliver Eulenstein, and Todd Vision
  • "Automatic Selection of Near-Native Protein-Ligand Conformations using a Hierarchical Clustering and Volunteer Computing", Trilce Estrada, Roger Armen, and Michela Taufer
  • "A Bayesian Decision Fusion Approach for microRNA Target Prediction", Dong Yue, Hui Liu, Philip Chen, Yidong Chen, Mingzhu Lu, Yufei Huang
  • "Ring Optimization of Edit Metric Codes in DNA", Daniel Ashlock, and Sheridan Houghten
  • "Homology prediction refinement and reconstruction of gene content and order of ancestral bacterial genomes", Kuan Yang, and Joao Setubal
  • "Parallel Stochastic Simulations of Budding Yeast Cell Cycle: Load Balancing Strategies and Theoretical Analysis", Tae-Hyuk Ahn, and Adrian Sandu
  • "Markov Clustering of Networks with Improved Balance and Scalability", Venu Satuluri, Parthasarathy Srinivasan, and Duygu Ucar
  • "Semi-supervised Sequence Classification using Abstraction Augmented Markov Models", Cornelia Caragea, Adrian Silvescu, Doina Caragea, and Vasant Honavar
  • "Comparative Analysis of Biclustering Algorithms", Doruk Bozdag, Ashwin Kumar, and Umit Catalyurek
  • "Identifying Differential Coexpressed Gene Sets Using a Biclustering Approach", Omar Odibat, Chandan Reddy, and Craig Giroux
  • "Guiding Belief Propagation using Domain Knowledge for Protein-Structure Determination", Ameet Soni, Craig Bingman, and Jude Shavlik
  • "Promoter Prediction Based on a Multiple Instance Learning Scheme", Xuefeng Zhou
  • "The solution space of genome sequence alignment and LIS graph decomposition", Fangrui Ma, and Jitender Deogun
  • "Derived Distribution Points Heuristic for Fast Pairwise Statistical Significance Estimation", Ankit Agrawal, Alok Choudhary, and Xiaoqiu Huang
  • "Unsupervised Mapping of Sentences to Biomedical Concepts based on Integrated Information Retrieval Model and Clustering", Mi-Young Kim