Abstract is missing.
- Evolution of Regulatory Systems in Bacteria (Invited Keynote Talk)Mikhail S. Gelfand, Alexei E. Kazakov, Yuri D. Korostelev, Olga N. Laikova, Andrey A. Mironov, Aleksandra B. Rakhmaninova, Dmitry A. Ravcheev, Dmitry A. Rodionov, Alexei G. Vitreschak. 1-4 [doi]
- Integrating Multiple-Platform Expression Data through Gene Set FeaturesMatej Holec, Filip Zelezný, Jirí Kléma, Jakub Tolar. 5-17 [doi]
- Practical Quality Assessment of Microarray Data by Simulation of Differential Gene ExpressionBrian E. Howard, Beate Sick, Steffen Heber. 18-27 [doi]
- Mean Square Residue Biclustering with Missing Data and Row InversionsStefan Gremalschi, Gulsah Altun, Irina Astrovskaya, Alexander Zelikovsky. 28-39 [doi]
- Using Gene Expression Modeling to Determine Biological Relevance of Putative Regulatory NetworksPeter Larsen, Yang Dai. 40-51 [doi]
- Querying Protein-Protein Interaction NetworksGuillaume Blin, Florian Sikora, Stéphane Vialette. 52-62 [doi]
- Integrative Approach for Combining TNFa-NFkB Mathematical Model to a Protein Interaction Connectivity MapMahesh Visvanathan, Bernhard Pfeifer, Christian Baumgartner, Bernhard Tilg, Gerald H. Lushington. 63-74 [doi]
- Hierarchical Organization of Functional Modules in Weighted Protein Interaction Networks Using Clustering CoefficientMin Li, Jianxin Wang, Jianer Chen, Yi Pan. 75-86 [doi]
- Bioinformatics Challenges in Translational ResearchNicholas F. Tsinoremas. 87 [doi]
- Untangling Tanglegrams: Comparing Trees by Their DrawingsBalaji Venkatachalam, Jim Apple, Katherine St. John, Dan Gusfield. 88-99 [doi]
- An Experimental Analysis of Consensus Tree Algorithms for Large-Scale Tree CollectionsSeung-Jin Sul, Tiffani L. Williams. 100-111 [doi]
- Counting Faces in Split NetworksLichen Bao, Sergey Bereg. 112-123 [doi]
- Relationship between Amino Acids Sequences and Protein Structures: Folding Patterns and Sequence PatternsAlexander Kister. 124-134 [doi]
- Improved Algorithms for Parsing ESLTAGs: A Grammatical Model Suitable for RNA PseudoknotsSanguthevar Rajasekaran, Sahar Al Seesi, Reda A. Ammar. 135-147 [doi]
- Efficient Algorithms for Self Assembling Triangular and Other Nano StructuresVamsi Kundeti, Sanguthevar Rajasekaran. 148-158 [doi]
- Motif Construction from High-Throughput SELEX DataEsko Ukkonen. 159 [doi]
- Rearrangement Phylogeny of Genomes in Contig FormAdriana Muñoz, David Sankoff. 160-172 [doi]
- Prediction of Contiguous Regions in the Amniote Ancestral GenomeAïda Ouangraoua, Frédéric Boyer, Andrew McPherson, Eric Tannier, Cedric Chauve. 173-185 [doi]
- Pure Parsimony Xor HaplotypingPaola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Yuri Pirola, Romeo Rizzi. 186-197 [doi]
- A Decomposition of the Pure Parsimony Haplotyping ProblemAllen Holder, Thomas Langley. 198-208 [doi]
- Exact Computation of Coalescent Likelihood under the Infinite Sites ModelYufeng Wu. 209-220 [doi]
- Imputation-Based Local Ancestry Inference in Admixed PopulationsBogdan Pasaniuc, Justin Kennedy, Ion I. Mandoiu. 221-233 [doi]
- Interpreting Population Sequencing DataShamil R. Sunyaev. 234-235 [doi]
- Modeling and Visualizing Heterogeneity of Spatial Patterns of Protein-DNA Interaction from High-Density Chromatin Precipitation Mapping DataJuntao Li, Fajrian Yunus, Zhu Lei, Majid Eshaghi, Jianhua Liu, Karuturi R. Krishna Murthy. 236-247 [doi]
- A Linear-Time Algorithm for Analyzing Array CGH Data Using Log Ratio TriangulationMatthew Hayes, Jing Li. 248-259 [doi]
- Mining of cis-Regulatory Motifs Associated with Tissue-Specific Alternative SplicingJihye Kim, Sihui Zhao, Brian E. Howard, Steffen Heber. 260-271 [doi]
- Analysis of Cis-Regulatory Motifs in Cassette Exons by Incorporating Exon Skipping RatesSihui Zhao, Jihye Kim, Steffen Heber. 272-283 [doi]
- A Class of Evolution-Based Kernels for Protein Homology Analysis: A Generalization of the PAM ModelValentina Sulimova, Vadim Mottl, Boris Mirkin, Ilya B. Muchnik, Casimir A. Kulikowski. 284-296 [doi]
- Irreplaceable Amino Acids and Reduced Alphabets in Short-Term and Directed Protein EvolutionMiguel A. Jiménez-Montaño, Matthew He. 297-309 [doi]
- A One-Class Classification Approach for Protein Sequences and StructuresAndrás Bánhalmi, Róbert Busa-Fekete, Balázs Kégl. 310-322 [doi]
- Prediction and Classification of Real and Pseudo MicroRNA Precursors via Data Fuzzification and Fuzzy Decision TreesNa el Abu-halaweh, Robert Harrison. 323-334 [doi]