16. PSB 2011:
Kohala Coast,
Hawaii,
USA
Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Tiffany Murray, Teri E. Klein (Eds.):
Biocomputing 2011: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, 3-7 January 2011.
World Scientific Publishing 2011, ISBN 978-981-4335-04-1 
Computational Methods Integrating Diverse Biological and Clinical Data for Translational Science
- Gürkan Bebek, Mehmet Koyutürk, Mark R. Chance, Nathan D. Price:
Session Introduction.
1-3
- Jang Lee, Graciela Gonzalez:
Towards Integrative Gene Prioritization in Alzheimer's Disease.
4-13
- Yu 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:
Systems Biology Analyses of Gene Expression and Genome Wide Association Study Data in Obstructive Sleep Apnea.
14-25
- Lars Otten, Rina Dechter:
Finding Most Likely Haplotypes in General Pedigrees Through Parallel Search with Dynamic Load Balancing.
26-37
- Marco Sorani, Geoffrey T. Manley, J. Claude Hemphill, Sergio Baranzini:
Dynamic, Multi-Level Network Models of Clinical Trials.
38-49
- Sevin Turcan, Xintao Wei, Jill Maron, Douglas E. Vetter, Donna K. Slonim:
Mining Functionally Relevant Gene Sets for Analyzing Physiologically Novel Clinical Expression Data.
50-61
- Chuang Wu, Andrew S. Walsh, Roni Rosenfeld:
Genotype Phenotype Mapping in Rna Viruses - Disjunctive Normal Form Learning.
62-73
Genome-Wide Association Mapping and Rare Alleles:
From Population Genomics to Personalized Medicine
- Francisco M. de la Vega, Carlos Bustamante, Suzanne M. Leal:
Session Introduction.
74-75
- Vikas Bansal, Ondrej Libiger, Ali Torkamani, Nicholas J. Schork:
An Application and Empirical Comparison of Statistical Analysis Methods for Associating Rare Variants to a Complex Phenotype.
76-87
- Bjarni V. Halldórsson, Derek Aguiar, Sorin Istrail:
Haplotype Phasing By Multi-Assembly of Shared Haplotypes: Phase-Dependent Interactions Between Rare Variants.
88-99
- Eleftheria Zeggini, Jennifer L. Asimit:
An Evaluation of Power to Detect Low-Frequency Variant Associations Using Allele-Matching Tests that Account for Uncertainty.
100-105
- Hua Zhou, David H. Alexander, Mary E. Sehl, Janet S. Sinsheimer, Kenneth Lange:
Penalized Regression for Genome-Wide Association Screening of Sequence Data.
106-117
Microbiome Studies:
Understanding How the Dominant Form of Life Affects Us
- James Foster, Jason Moore:
Session Introduction.
118-120
- John Bunge:
Estimating the Number of Species with Catchall.
121-130
- A. Murat Eren, Michael J. Ferris, Christopher M. Taylor:
A Framework for Analysis of Metagenomic Sequencing Data.
131-141
- Susan Holmes, Alexander V. Alekseyenko, Alden Timme, Tyrrell Nelson, Pankaj Jay Pasricha, Alfred Spormann:
Visualization and Statistical Comparisons of Microbial Communities Using R Packages on Phylochip Data.
142-153
- Jason H. Moore, R. Cowper-Sallari, Douglas P. Hill, Patricia Hibberd, Juliette Madan:
Human Microbiome Visualization Using 3d Technology.
154-164
- Neethu Shah, Haixu Tang, Thomas G. Doak, Yuzhen Ye:
Comparing Bacterial Communities Inferred from 16s Rrna Gene Sequencing and Shotgun Metagenomics.
165-176
Multi-Scale Modelling of Biosystems:
From Molecular to Mesoscale
- Julie Bernauer, Samuel Flores, Xuhui Huang, Seokmin Shin, Ruhong Zhou:
Session Introduction.
177-180
- Ahmet Bakan, Ivet Bahar:
Computational Generation inhibitor-Bound Conformers of P38 Map Kinase and Comparison with Experiments.
181-192
- Dale L. Bodian, Randall J. Radmer, Sean Holbert, Teri E. Klein:
Molecular Dynamics Simulations of the Full Triple Helical Region of Collagen Type I Provide An Atomic Scale View of the Protein's Regional Heterogeneity.
193-204
- Samuel Coulbourn Flores, Russ B. Altman:
Structural insights into Pre-Translocation Ribosome Motions.
205-216
- Yoshitake Sakae, Tomoyuki Hiroyasu, Mitsunori Miki, Yuko Okamoto:
New Conformational Search Method Using Genetic Algorithm and Knot Theory for Proteins.
217-228
Personal Genomics
- Can Alkan, Emidio Capriotti, Eleazar Eskin, Fereydoun Hormozdiari, Maricel G. Kann:
Session Introduction.
229-230
- Rong Chen, Atul J. Butte:
The Reference Human Genome Demonstrates High Risk of Type 1 Diabetes and Other Disorders.
231-242
- Joel Dudley, Rong Chen, Atul J. Butte:
Matching Cancer Genomes to Established Cell Lines for Personalized Oncology.
243-252
- Benjamin 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:
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 Participants.
253-264
- Sarah A. Pendergrass, Scott M. Dudek, Dan M. Roden, Dana C. Crawford, Marylyn D. Ritchie:
Visual Integration of Results from a Large Dna Biobank (Biovu) Using Synthesis-View.
265-275
- Stephen D. Turner, William S. Bush:
Multivariate Analysis of Regulatory Snps: Empowering Personal Genomics by Considering Cis-Epistasis and Heterogeneity.
276-287
- Jin Zhang, Yufeng Wu:
Haplotype Inference from Single Short Sequence Reads Using a Population Genealogical History Model.
288-299
Reverse Engineering and Synthesis of Biomolecular Systems
- Gil Alterovitz, Silvio Cavalcanti, Taro Muso, Marco Ramoni, May Wang:
Session Introduction.
300-301
- Aleksandra P. Kharam, Hua Jiang, Marc D. Riedel:
Binary Counting with Chemical Reactions.
302-313
- Jason E. McDermott, Michelle Archuleta, Susan L. Stevens, Mary P. Stenzel-Poore, Antonio Sanfilippo:
Defining the Players in Higher-Order Networks: Predictive Modeling for Reverse Engineering Functional Influence Networks.
314-325
- Philip Senum, Marc D. Riedel:
Rate-Independent Constructs for Chemical Computation.
326-337
- Jannis Uhlendorf, Samuele Bottani, François Fages, Pascal Hersen, Grégory Batt:
Towards Real-Time Control of Gene Expression: Controlling the Hog Signaling Cascade.
338-349
- Michael P. Verdicchio, Seungchan Kim:
Identifying Targets for intervention by Analyzing Basins of Attraction.
350-361
Mining the Pharmacogenomics Literature
Identification of Aberrant Pathway and Network Activity from High-Throughput Data
Validation and Modeling of Electron Cryo-Microscopy Structures of Biological Nanomachines
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