Table of Contents

• Session IntroductionGürkan Bebek, Mehmet Koyutürk, Mark R. Chance, Nathan D. Price. 1-3 [doi]
• Towards Integrative Gene Prioritization in Alzheimer s DiseaseJang Lee, Graciela Gonzalez. 4-13 [doi]
• Systems Biology Analyses of Gene Expression and Genome Wide Association Study Data in Obstructive Sleep ApneaYu Liu, Sanjay R. Patel, Rod K. Nibbe, Sean Maxwell, Salim A. Chowdhury, Mehmet Koyutürk, Xiaofeng Zhu, Emma Larkin, Sarah Buxbaum, Naresh Punjabi, Sina Gharib, Susan Redline, Mark R. Chance. 14-25 [doi]
• Finding Most Likely Haplotypes in General Pedigrees Through Parallel Search with Dynamic Load BalancingLars Otten, Rina Dechter. 26-37 [doi]
• Dynamic, Multi-Level Network Models of Clinical TrialsMarco Sorani, Geoffrey T. Manley, J. Claude Hemphill, Sergio Baranzini. 38-49 [doi]
• Mining Functionally Relevant Gene Sets for Analyzing Physiologically Novel Clinical Expression DataSevin Turcan, Xintao Wei, Jill Maron, Douglas E. Vetter, Donna K. Slonim. 50-61 [doi]
• Genotype Phenotype Mapping in Rna Viruses - Disjunctive Normal Form LearningChuang Wu, Andrew S. Walsh, Roni Rosenfeld. 62-73 [doi]
• Session IntroductionFrancisco M. de la Vega, Carlos Bustamante, Suzanne M. Leal. 74-75 [doi]
• An Application and Empirical Comparison of Statistical Analysis Methods for Associating Rare Variants to a Complex PhenotypeVikas Bansal, Ondrej Libiger, Ali Torkamani, Nicholas J. Schork. 76-87 [doi]
• Haplotype Phasing By Multi-Assembly of Shared Haplotypes: Phase-Dependent Interactions Between Rare VariantsBjarni V. Halldórsson, Derek Aguiar, Sorin Istrail. 88-99 [doi]
• An Evaluation of Power to Detect Low-Frequency Variant Associations Using Allele-Matching Tests that Account for UncertaintyEleftheria Zeggini, Jennifer L. Asimit. 100-105 [doi]
• Penalized Regression for Genome-Wide Association Screening of Sequence DataHua Zhou, David Alexander, Mary E. Sehl, Janet S. Sinsheimer, Kenneth Lange. 106-117 [doi]
• Session IntroductionJames Foster, Jason Moore. 118-120 [doi]
• Estimating the Number of Species with CatchallJohn Bunge. 121-130 [doi]
• A Framework for Analysis of Metagenomic Sequencing DataA. Murat Eren, Michael J. Ferris, Christopher M. Taylor. 131-141 [doi]
• Visualization and Statistical Comparisons of Microbial Communities Using R Packages on Phylochip DataSusan Holmes, Alexander V. Alekseyenko, Alden Timme, Tyrrell Nelson, Pankaj Jay Pasricha, Alfred Spormann. 142-153 [doi]
• Human Microbiome Visualization Using 3d TechnologyJason H. Moore, R. Cowper-Sallari, Douglas P. Hill, Patricia Hibberd, Juliette Madan. 154-164 [doi]
• Comparing Bacterial Communities Inferred from 16s Rrna Gene Sequencing and Shotgun MetagenomicsNeethu Shah, Haixu Tang, Thomas G. Doak, Yuzhen Ye. 165-176 [doi]
• Session IntroductionJulie Bernauer, Samuel Flores, Xuhui Huang, Seokmin Shin, Ruhong Zhou. 177-180 [doi]
• Computational Generation inhibitor-Bound Conformers of P38 Map Kinase and Comparison with ExperimentsAhmet Bakan, Ivet Bahar. 181-192 [doi]
• Molecular Dynamics Simulations of the Full Triple Helical Region of Collagen Type I Provide An Atomic Scale View of the Protein s Regional HeterogeneityDale L. Bodian, Randall J. Radmer, Sean Holbert, Teri E. Klein. 193-204 [doi]
• Structural insights into Pre-Translocation Ribosome MotionsSamuel Coulbourn Flores, Russ B. Altman. 205-216 [doi]
• New Conformational Search Method Using Genetic Algorithm and Knot Theory for ProteinsYoshitake Sakae, Tomoyuki Hiroyasu, Mitsunori Miki, Yuko Okamoto. 217-228 [doi]
• Session IntroductionCan Alkan, Emidio Capriotti, Eleazar Eskin, Fereydoun Hormozdiari, Maricel G. Kann. 229-230 [doi]
• The Reference Human Genome Demonstrates High Risk of Type 1 Diabetes and Other DisordersRong Chen, Atul J. Butte. 231-242 [doi]
• Matching Cancer Genomes to Established Cell Lines for Personalized OncologyJoel Dudley, Rong Chen, Atul J. Butte. 243-252 [doi]
• Use of Biological Knowledge to Inform The Analysis of Gene-Gene Interactions Involved in Modulating Virologic Failure with Efavirenz-Containing Treatment Regimens in Art-Naive Actg Clinical Trials ParticipantsBenjamin J. Grady, Eric Torstenson, Paul J. Mclaren, Paul I. W. de Bakker, David W. Haas, Gregory K. Robbins, Roy M. Gulick, Richard Haubrich, Heather Ribaudo, Marylyn D. Ritchie. 253-264 [doi]
• Visual Integration of Results from a Large Dna Biobank (Biovu) Using Synthesis-ViewSarah A. Pendergrass, Scott M. Dudek, Dan M. Roden, Dana C. Crawford, Marylyn D. Ritchie. 265-275 [doi]
• Multivariate Analysis of Regulatory Snps: Empowering Personal Genomics by Considering Cis-Epistasis and HeterogeneityStephen D. Turner, William S. Bush. 276-287 [doi]
• Haplotype Inference from Single Short Sequence Reads Using a Population Genealogical History ModelJin Zhang, Yufeng Wu. 288-299 [doi]
• Session IntroductionGil Alterovitz, Silvio Cavalcanti, Taro Muso, Marco Ramoni, May Wang. 300-301 [doi]
• Binary Counting with Chemical ReactionsAleksandra Kharam, Hua Jiang, Marc Riedel. 302-313 [doi]
• Defining the Players in Higher-Order Networks: Predictive Modeling for Reverse Engineering Functional Influence NetworksJason McDermott, Michelle Archuleta, Susan L. Stevens, Mary P. Stenzel-Poore, Antonio Sanfilippo. 314-325 [doi]
• Rate-Independent Constructs for Chemical ComputationPhilip Senum, Marc Riedel. 326-337 [doi]
• Towards Real-Time Control of Gene Expression: Controlling the Hog Signaling CascadeJannis Uhlendorf, Samuele Bottani, François Fages, Pascal Hersen, Grégory Batt. 338-349 [doi]
• Identifying Targets for intervention by Analyzing Basins of AttractionMichael P. Verdicchio, Seungchan Kim. 350-361 [doi]
• Workshop IntroductionKevin Bretonnel Cohen, Yael Garten, Udo Hahn, Nigam H. Shah. 362-363 [doi]
• Workshop IntroductionMichael Ochs, Rachel Karchin, Habtom W. Ressom, Robert Gentleman. 364-368 [doi]
• Workshop IntroductionSteven Ludtke, Catherine L. Lawson, Gerard J. Kleywegt, Helen M. Berman, Wah Chiu. 369 [doi]