1. CSB 2002: Stanford, CA, USA

1st IEEE Computer Society Bioinformatics Conference (CSB 2002), 14-16 August 2002, Stanford, CA, USA. IEEE Computer Society 2002, ISBN 0-7695-1653-X BibTeX

@proceedings{DBLP:conf/csb/2002,
  title     = {1st IEEE Computer Society Bioinformatics Conference (CSB 2002),
               14-16 August 2002, Stanford, CA, USA},
  booktitle = {CSB},
  publisher = {IEEE Computer Society},
  year      = {2002},
  isbn      = {0-7695-1653-X},
  bibsource = {DBLP, http://dblp.uni-trier.de}
}

Invited Talk

Dan Gusfield:
Suffix Trees (and Relatives) Come of Age in Bioinformatics. 3
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Steven E. Brenner:
Genome Annotation and Protein Structure. 4
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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
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Phylogenetics

Enrico Pontelli, Desh Ranjan, Brook Milligan, Gopal Gupta:
F-LOG: A Domain Specific Language for Solving Phylogenetic Inference Problems. 9-20
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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-
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Motif Finding

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

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

Mathew J. Palakal, Matthew Stephens, Snehasis Mukhopadhyay, Rajeev R. Raje, Simon Rhodes:
A Multi-Level Text Mining Method to Extract Biological Relationships. 97-108
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Lada A. Adamic, Dennis Wilkinson, Bernardo A. Huberman, Eytan Adar:
A Literature Based Method for Identifying Gene-Disease Connections. 109-117
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Ann E. Loraine, Gregg A. Helt, Melissa S. Cline, Michael A. Siani-Rose:
Protein-Based Analysis of Alternative Splicing in the Human Genome. 118-
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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
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Michael Brudno, Burkhard Morgenstern:
Fast and Sensitive Alignment of Large Genomic Sequences. 138-
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Biological Networks

Tetsuya Kobayashi, Luonan Chen, Kazuyuki Aihara:
Design of Genetic Switches with Only Positive Feedback Loops. 151-
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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
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Jiong Yang, Wei Wang:
Towards Automatic Clustering of Protein Sequences. 175-186
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Alessandro Vullo, Paolo Frasconi:
A Bi-Recursive Neural Network Architecture for the Prediction of Protein Coarse Contact Maps. 187-196
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Minghua Deng, Kui Zhang, Shipra Mehta, Ting Chen, Fengzhu Sun:
Prediction of Protein Function Using Protein-Protein Interaction Data. 197-206
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Jiong Yang, Wei Wang, Yi Xia, Philip S. Yu:
Accelerating Approximate Subsequence Search on Large Protein Sequence Databases. 207-
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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
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Lorie Dudoignon, Eric Glémet, Hendrik Cornelis Heus, Mathieu Raffinot:
High Similarity Sequence Comparison in Clustering Large Sequence Databases. 228-236
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Christopher James Langmead, C. Robertson McClung, Bruce Randall Donald:
A Maximum Entropy Algorithm for Rhythmic Analysis of Genome-Wide Expression Patterns. 237-245
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Jia Li, Hongyuan Zha:
Simultaneous Classification and Feature Clustering Using Discriminant Vector Quantization with Applications to Microarray Data Analysis. 246-255
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Haixun Wang, Chang-Shing Perng, Wei Fan, Philip S. Yu:
An Index Structure for Pattern Similarity Searching in DNA Microarray Dat. 256-267
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Louxin Zhang, Song Zhu:
A New Clustering Method for Microarray Data Analysis. 268-275
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Yujing Zeng, Jianshan Tang, Javier Garcia-Frias, Guang R. Gao:
An Adaptive Meta-Clustering Approach: Combining the Information from Different Clustering Results. 276-
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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
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Donald A. Adjeroh, Yong Zhang, Amar Mukherjee, Matt Powell, Tim Bell:
DNA Sequence Compression Using the Burrows-Wheeler Transform. 303-313
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Yumi Kawazoe, Toshikazu Shiba, Masahito Yamamoto, Azuma Ohuchi:
A Security System for Personal Genome Information at DNA Level. 314-320
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Ann E. Loraine, Gregg A. Helt:
Visualization Techniques for Genomic Data. 321-
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Poster Abstracts

Shoko Miyake, Yukako Tohsato, Hideo Matsuda:
An Application of a Pathway Alignment Method to Comparative Analysis between Genome and Pathways. 329-329
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Rishi Khan, Yujing Zeng, Javier Garcia-Frias, Guang R. Gao:
A Bayesian Modeling Framework for Genetic Regulation. 330-332
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Daisuke Ogino, Shiro Mori, Masato Nose, Hideki Sawada:
Complexity and Application of Pedigree Analysis Programme GTree. 333-335
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Luonan Chen, Tetsuya Kobayashi, Kazuyuki Aihara:
Designing Oscillators in Synthetic Gene Networks Based on Multi-Scale Dynamics. 336
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Ryan T. Koehler, Nicolas Peyret:
Distributions of Free Energy, Melting Temperature, and Hybridization Propensity for Genomic DNA Oligomers. 337
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Conrad Shyu, James A. Foster, Larry J. Forney:
Electronic Polymerase Chain Reaction (EPCR) Search Algorithm. 338
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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
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Veerasamy Ravichandran, Jiri Vondrásek, Gary Gilliland, T. N. Bhat, Alexander Wlodawer:
HIV Protease Structural Database. 340
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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
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Shigeto Seno, Reiji Teramoto, Hideo Matsuda:
P-quasi Complete Linkage Analysis for Gene-Expression Data. 342
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Dianjing Guo, Xingjing Li, Aejaaz Kamal, Olga Brazhnik, Pedro Mendes:
A Reference Database for Medicago Truncatula Genes, Protiens, and Metabolites. 343
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Mashilamani Sambasivam:
Selective Tree Growing: A Deterministic Constant-Space Linear-Time Algorithm for Pattern Discovery and for Computing Multiple Sequence Alignment. 344
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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
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