1. CSB 2002: Stanford, CA, USA

Invited Talk

• Dan Gusfield:
  Suffix Trees (and Relatives) Come of Age in Bioinformatics. 3
  
• Steven E. Brenner:
  Genome Annotation and Protein Structure. 4
  
• Michele Markstein, Angela Stathopoulos, Vicky Markstein, Peter W. Markstein, Naoe Harafuji, Dave Keys, Byung-in Lee, Paul Richardson, Dan Rokshar, Mike Levine:
  Decoding Noncoding Regulatory DNAs in Metazoan Genomes. 5
  

Phylogenetics

• Enrico Pontelli, Desh Ranjan, Brook Milligan, Gopal Gupta:
  F-LOG: A Domain Specific Language for Solving Phylogenetic Inference Problems. 9-20
  
• Alexandros Stamatakis, Thomas Ludwig, Harald Meier, Marty J. Wolf:
  AxML: A Fast Program for Sequential and Parallel Phylogenetic Tree Calculations Based on the Maximum Likelihood Method. 21-
  

Motif Finding

• Huimin Xie, Bailin Hao:
  Visualization of K -Tuple Distribution in Procaryote Complete Genomes and Their Randomized Counterparts. 31-42
  
• Jun Ogasawara, Shinichi Morishita:
  Fast and Sensitive Algorithm for Aligning ESTs to Human Genome. 43-53
  
• Sven Rahmann:
  Rapid Large-Scale Oligonucleotide Selection for Microarrays. 54-63
  
• Suchendra M. Bhandarkar, Jonathan Arnold:
  Parallel Monte Carlo Methods for Physical Mapping of Chromosones. 64-
  

Genotype-Phenotype

• Klaus Seidl:
  PheGe, the Platform for Exploring Genotype-Phenotype Relations on Cellular and Organism Level. 79-86
  
• Masazumi Takahashi, Fumihiko Matsuda, Nino Margetic, Mark G. Lathrop:
  Automated Identification of Single Nucleotide Polymorphisms from Sequencing Data. 87-
  

Database Mining

• Mathew J. Palakal, Matthew J. Stephens, Snehasis Mukhopadhyay, Rajeev R. Raje, Simon Rhodes:
  A Multi-Level Text Mining Method to Extract Biological Relationships. 97-108
  
• Lada A. Adamic, Dennis M. Wilkinson, Bernardo A. Huberman, Eytan Adar:
  A Literature Based Method for Identifying Gene-Disease Connections. 109-117
  
• Ann E. Loraine, Gregg A. Helt, Melissa S. Cline, Michael A. Siani-Rose:
  Protein-Based Analysis of Alternative Splicing in the Human Genome. 118-
  

Comparative Genomics

• Chuan Yi Tang, Chin Lung Lu, Margaret Dah-Tsyr Chang, Yin-Te Tsai, Yuh-Ju Sun, Kun-Mao Chao, Jia-Ming Chang, Yu-Han Chiou, Chia-Mao Wu, Hao-Teng Chang, Wei-I Chou:
  Constrained Multiple Sequence Alignment Tool Development and Its Application to RNase Family Alignment. 127-137
  
• Michael Brudno, Burkhard Morgenstern:
  Fast and Sensitive Alignment of Large Genomic Sequences. 138-
  

Biological Networks

• Tetsuya Kobayashi, Luonan Chen, Kazuyuki Aihara:
  Design of Genetic Switches with Only Positive Feedback Loops. 151-
  

Proteomics

• Guo-Hui Lin, Dong Xu, Zhi-Zhong Chen, Tao Jiang, Jianjun Wen, Ying Xu:
  An Efficient Branch-and-Bound Algorithm for the Assignment of Protein Backbone NMR Peaks. 165-174
  
• Jiong Yang, Wei Wang:
  Towards Automatic Clustering of Protein Sequences. 175-186
  
• Alessandro Vullo, Paolo Frasconi:
  A Bi-Recursive Neural Network Architecture for the Prediction of Protein Coarse Contact Maps. 187-196
  
• Minghua Deng, Kui Zhang, Shipra Mehta, Ting Chen, Fengzhu Sun:
  Prediction of Protein Function Using Protein-Protein Interaction Data. 197-206
  
• Jiong Yang, Wei Wang, Yi Xia, Philip S. Yu:
  Accelerating Approximate Subsequence Search on Large Protein Sequence Databases. 207-
  

Gene Expression

• Seiya Imoto, SunYong Kim, Takao Goto, Sachiyo Aburatani, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano:
  Bayesian Network and Nonparametric Heteroscedastic Regression for Nonlinear Modeling of Genetic Network. 219-227
  
• Lorie Dudoignon, Eric Glémet, Hendrik Cornelis Heus, Mathieu Raffinot:
  High Similarity Sequence Comparison in Clustering Large Sequence Databases. 228-236
  
• Christopher James Langmead, C. Robertson McClung, Bruce Randall Donald:
  A Maximum Entropy Algorithm for Rhythmic Analysis of Genome-Wide Expression Patterns. 237-245
  
• Jia Li, Hongyuan Zha:
  Simultaneous Classification and Feature Clustering Using Discriminant Vector Quantization with Applications to Microarray Data Analysis. 246-255
  
• Haixun Wang, Chang-Shing Perng, Wei Fan, Philip S. Yu:
  An Index Structure for Pattern Similarity Searching in DNA Microarray Dat. 256-267
  
• Louxin Zhang, Song Zhu:
  A New Clustering Method for Microarray Data Analysis. 268-275
  
• Yujing Zeng, Jianshan Tang, Javier Garcia-Frias, Guang R. Gao:
  An Adaptive Meta-Clustering Approach: Combining the Information from Different Clustering Results. 276-
  

Computer Science and Biology

• Shahid H. Bokhari, Matthew A. Glaser, Harry F. Jordan, Yves Lansac, Jon R. Sauer, Bart Van Zeghbroeck:
  Parallelizing a DNA Simulation Code for the Cray MTA-2. 291-302
  
• Donald A. Adjeroh, Yong Zhang, Amar Mukherjee, Matt Powell, Tim Bell:
  DNA Sequence Compression Using the Burrows-Wheeler Transform. 303-313
  
• Yumi Kawazoe, Toshikazu Shiba, Masahito Yamamoto, Azuma Ohuchi:
  A Security System for Personal Genome Information at DNA Level. 314-320
  
• Ann E. Loraine, Gregg A. Helt:
  Visualization Techniques for Genomic Data. 321-
  

Poster Abstracts

• Shoko Miyake, Yukako Tohsato, Hideo Matsuda:
  An Application of a Pathway Alignment Method to Comparative Analysis between Genome and Pathways. 329-329
  
• Rishi Khan, Yujing Zeng, Javier Garcia-Frias, Guang R. Gao:
  A Bayesian Modeling Framework for Genetic Regulation. 330-332
  
• Daisuke Ogino, Shiro Mori, Masato Nose, Hideki Sawada:
  Complexity and Application of Pedigree Analysis Programme GTree. 333-335
  
• Luonan Chen, Tetsuya Kobayashi, Kazuyuki Aihara:
  Designing Oscillators in Synthetic Gene Networks Based on Multi-Scale Dynamics. 336
  
• Ryan T. Koehler, Nicolas Peyret:
  Distributions of Free Energy, Melting Temperature, and Hybridization Propensity for Genomic DNA Oligomers. 337
  
• Conrad Shyu, James A. Foster, Larry J. Forney:
  Electronic Polymerase Chain Reaction (EPCR) Search Algorithm. 338
  
• Marilyn Safran, Irina Solomon, Orit Shmueli, Michal Lapidot, Shai Shen-Orr, Avital Adato, Uri Ben-Dor, Nir Esterman, Naomi Rosen, Inga Peter, Tsviya Olender, Vered Chalifa-Caspi, Doron Lancet:
  GeneCards? 2002: An Evolving Human Gene Compendium. 339
  
• Veerasamy Ravichandran, Jiri Vondrásek, Gary Gilliland, T. N. Bhat, Alexander Wlodawer:
  HIV Protease Structural Database. 340
  
• Conrad Shyu, James A. Foster, K. X. Liao, S. J. Bent, K. Sale, Larry J. Forney, Terence Soule:
  MiCA: Web-Based Computational Tools for the Analysis of Microbial Community Structure and Compisition Based on T-RFLP of 16S rRNA Gene. 341
  
• Shigeto Seno, Reiji Teramoto, Hideo Matsuda:
  P-quasi Complete Linkage Analysis for Gene-Expression Data. 342
  
• Dianjing Guo, Xingjing Li, Aejaaz Kamal, Olga Brazhnik, Pedro Mendes:
  A Reference Database for Medicago Truncatula Genes, Protiens, and Metabolites. 343
  
• Mashilamani Sambasivam:
  Selective Tree Growing: A Deterministic Constant-Space Linear-Time Algorithm for Pattern Discovery and for Computing Multiple Sequence Alignment. 344
  
• Nobuyuki Kawagashira, Yasuhiro Ohtomo, Kazuo Murakami, Kenichi Matsubara, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Shoshi Kikuchi:
  Wavelet Profiles: Their Application in Oryza sativa DNA Sequence Analysis. 345-346
  

Last update Mon May 20 22:40:58 2013 CET by the DBLP Team — Data released under the ODC-BY 1.0 license — See also our legal information page