2. CSB 2003:
Stanford,
CA,
USA
2nd IEEE Computer Society Bioinformatics Conference (CSB 2003), 11-14 August 2003, Stanford, CA, USA.
IEEE Computer Society 2003, ISBN 0-7695-2000-6 BibTeX
@proceedings{DBLP:conf/csb/2003,
title = {2nd IEEE Computer Society Bioinformatics Conference (CSB 2003),
11-14 August 2003, Stanford, CA, USA},
booktitle = {CSB},
publisher = {IEEE Computer Society},
year = {2003},
isbn = {0-7695-2000-6},
bibsource = {DBLP, http://dblp.uni-trier.de}
}
Keynote Addresses
Invited Speaker
Genomes to Life
Microarray Data Analysis
Pathways,
Networks,
and Systems Biology
Biomedical Research and Visualization
- Dennis L. Chao, Miles P. Davenport, Stephanie Forrest, Alan S. Perelson:
Stochastic Stage-structured Modeling of the Adaptive Immune System.
124-131
Electronic Edition (link) BibTeX
- Shuo Liu, Steve Lin, Mark Woon, Teri E. Klein, Russ B. Altman:
A Personalized and Automated dbSNP Surveillance System.
132-136
Electronic Edition (link) BibTeX
- Li Zhang, Aidong Zhang, Murali Ramanathan:
Fourier Harmonic Approach for Visualizing Temporal Patterns of Gene Expression Data.
137-147
Electronic Edition (link) BibTeX
- Orhan Çamoglu, Tamer Kahveci, Ambuj K. Singh:
Towards Index-based Similarity Search for Protein Structure Databases.
148-158
Electronic Edition (link) BibTeX
- Matthias Höchsmann, Thomas Töller, Robert Giegerich, Stefan Kurtz:
Local Similarity in RNA Secondary Structures.
159-168
Electronic Edition (link) BibTeX
- Tolga Can, Yuan-Fang Wang:
CTSS: A Robust and Efficient Method for Protein Structure Alignment Based on Local Geometrical and Biological Feature.
169-179
Electronic Edition (link) BibTeX
- Werner G. Krebs, Philip E. Bourne:
Statistical and Visual Morph Movie Analysis of Crystallographic Mutant Selection Bias in Protein Mutation Resource Data.
180-189
Electronic Edition (link) BibTeX
- Shu-Yun Le, Jih-H. Chen, Jacob V. Maizel:
Statistical Inference for Well-ordered Structures in Nucleotide Sequences.
190-196
Electronic Edition (link) BibTeX
- Xiang Wan, Dong Xu, Carolyn M. Slupsky, Guohui Lin:
Automated Protein NMR Resonance Assignments.
197-208
Electronic Edition (link) BibTeX
- Christopher James Langmead, Bruce Randall Donald:
3D Structural Homology Detection via Unassigned Residual Dipolar Couplings.
209-219
Electronic Edition (link) BibTeX
Data Mining
- Hwanjo Yu, Jiong Yang, Wei Wang, Jiawei Han:
Discovering Compact and Highly Discriminative Features or Feature Combinations of Drug Activities Using Support Vector Machines.
220-228
Electronic Edition (link) BibTeX
- Jake Yue Chen, Andrey Y. Sivachenko, Russell Bell, Cornelia Kurschner, Irene Ota, Sudhir Sahasrabudhe:
Initial Large-scale Exploration of Protein-protein Interactions in Human Brain.
229-234
Electronic Edition (link) BibTeX
- Gong-Xin Yu, George Ostrouchov, Al Geist, Nagiza F. Samatova:
An SVM-based Algorithm for Identification of Photosynthesis-specific Genome Features.
235-243
Electronic Edition (link) BibTeX
- Robert L. Grossman, Pavan Kasturi, Donald Hamelberg, Bing Liu:
Experimental Studies of the Universal Chemical Key (UCK)Algorithm on the NCI Database of Chemical Compounds.
244-250
Electronic Edition (link) BibTeX
- Kazuhiro Seki, Javed Mostafa:
A Probabilistic Model for Identifying Protein Names and their Name Boundaries.
251-259
Electronic Edition (link) BibTeX
Pattern Recognition
Sequence Alignment
- Tomoyuki Yamada, Shinichi Morishita:
Computing Highly Specific and Mismatch Tolerant Oligomers Efficiently.
316-325
Electronic Edition (link) BibTeX
- Cinzia Di Pietro, V. Di Pietro, G. Emmanuele, Alfredo Ferro, T. Maugeri, E. Modica, Giuseppe Pigola, Alfredo Pulvirenti, Michele Purrello, Marco Ragusa, M. Scalia, Dennis Shasha, S. Travali, V. Zimmitti:
ANTICLUSTAL: Multiple Sequence Alignment by Antipole Clustering and Linear Approximate 1-Median Computation.
326-336
Electronic Edition (link) BibTeX
- Francis Y. L. Chin, N. L. Ho, Tak Wah Lam, Prudence W. H. Wong, Mee Yee Chan:
Efficient Constrained Multiple Sequence Alignment with Performance Guarantee.
337-346
Electronic Edition (link) BibTeX
- Kuen-Pin Wu, Hsin-Nan Lin, Ting-Yi Sung, Wen-Lian Hsu:
A New Similarity Measure among Protein Sequences.
347-352
Electronic Edition (link) BibTeX
- Alexandre Tchourbanov, Daniel Quest, Hesham H. Ali, Mark Pauley, Robert Norgren:
A New Approach for Gene Annotation Using Unambiguous Sequence Joining.
353-362
Electronic Edition (link) BibTeX
- Dan Gusfield, Satish Eddhu, Charles H. Langley:
Efficient Reconstruction of Phylogenetic Networks with Constrained Recombination.
363-374
Electronic Edition (link) BibTeX
- Bailin Hao, Ji Qi:
Prokaryote Phylogeny without Sequence Alignment: From Avoidance Signature to Composition Distance.
375-385
Electronic Edition (link) BibTeX
Poster Papers
Data Integration
- Monica Chagoyen, M. Erdem Kurul, Pedro A. de Alarcón, Simone Santini, Bertram Ludäscher, José María Carazo, Amarnath Gupta:
A Semantic Mediation Approach for Problems in Computational Molecular Biology.
386-387
Electronic Edition (link) BibTeX
- Barbara A. Eckman, Kerry Deutsch, Marta Janer, Zoé Lacroix, Louiqa Raschid:
A Query Language to Support Scientific Discovery.
388-391
Electronic Edition (link) BibTeX
Data Mining
- Zhong-Hui Duan, Louis S. Liou, Ting Shi, Joseph A. DiDonato:
Application of Singular Value Decomposition and Functional Clustering to Analyzing Gene Expression Profiles of Renal Cell Carcinoma.
392-393
Electronic Edition (link) BibTeX
- Xin Lu, Wen Zhang, Zhaohui S. Qin, Jun S. Liu:
Statistical Resynchronization and Detection of Periodic Transcripts.
394-395
Electronic Edition (link) BibTeX
- George C. Tseng, Wing Hung Wong:
A Method for Tight Clustering: with Application to Microarray.
396-397
Electronic Edition (link) BibTeX
- Richard J. Carter:
Riptide: Fast Protein Identification from Mass Spectrometer Data.
398-399
Electronic Edition (link) BibTeX
- James H. Graham, C. David Page Jr., Ahmed H. Kamal:
Accelerating the Drug Design Process through Parallel Inductive Logic Programming Data Mining.
400-402
Electronic Edition (link) BibTeX
- Mingzhou Song, Stephane Boissinot, Robert M. Haralick, Ihsin T. Phillips:
Estimating Recombination Rate Distribution by Optimal Quantization.
403-406
Electronic Edition (link) BibTeX
- Jane Fridlyand, Antoine Snijders, Dan Pinkel, Donna Albertson, Ajay N. Jain:
Statistical issues in the analysis of the array CGH data.
407-408
Electronic Edition (link) BibTeX
- M. Duncan, K. Fung, H. Wang, C. Yen, K. Cios:
Identification of Contaminants in Proteomics Mass Spectrometry Data.
409-410
Electronic Edition (link) BibTeX
- Stephen Osborn, Scot Kennedy, Daniel Chin:
A Flexible Pipeline for Experimental Design, Processing, and Analysis of Microarray Data.
411-412
Electronic Edition (link) BibTeX
- Xutao Deng, Hesham H. Ali:
A Computational Approach to Reconstructing Gene Regulatory Networks.
413-414
Electronic Edition (link) BibTeX
- Tema Fridman, Robert M. Day, Jane Razumovsbya, Dong Xu, Andrey Gorin:
Probability Profiles - Novel Approach in Tandem Mass Spectrometry De Novo Sequencing.
415-418
Electronic Edition (link) BibTeX
- Eric G. Stephan, George Chin Jr., Kyle R. Klicker, Abigail L. Corrigan, Heidi J. Sofia:
A Symbolic Logic Strategy For Mapping Biological Concepts in the HERBE Prototype.
419-420
Electronic Edition (link) BibTeX
- Jane Razumovskaya, Victor Olman, Dong Xu, Edward C. Uberbacher, Nathan Verberkmoes, Ying Xu:
A Computational Method for Assessing Peptide-Identification Reliability in Tandem Mass Spectrometry Analysis with SEQUEST.
421-423
Electronic Edition (link) BibTeX
Functional Genomics
- Zhangjun Fei, Xuemei Tang, Rob Alba, Paxton Payton, James Giovannoni:
Tomato Expression Database (TED) - An Interactive Management Tool for Tomato Expression Profiling Data.
424-425
Electronic Edition (link) BibTeX
- Harpreet Kaur Gill:
Oncogenetics Tree Models - An Estimation.
426
Electronic Edition (link) BibTeX
- Marilyn Safran, Vered Chalifa-Caspi, Orit Shmueli, Naomi Rosen, Hila Benjamin-Rodrig, Ron Ophir, Itai Yanai, Michael Shmoish, Doron Lancet:
The GeneCardsTM Family of Databases: GeneCards, GeneLoc, GeneNote and GeneAnnot.
427-428
Electronic Edition (link) BibTeX
- Taku A. Tokuyasu, Donna Albertson, Dan Pinkel, Ajay N. Jain:
Wavelet Transforms for the Analysis of Microarray Experiments.
429-430
Electronic Edition (link) BibTeX
- Bill Martin, Robert M. Horton:
MageBuilder: A Schema Translation Tool for Generating MAGE-ML from Tabular Microarray Data.
431-432
Electronic Edition (link) BibTeX
- Wenwu Cui, Jianchang Ning, Ulhas P. Naik, Melinda K. Duncan:
OptiRNai, a Web-based Program to Select siRNA Sequences.
433-434
Electronic Edition (link) BibTeX
- Bartosz Wilczynski, Torgeir R. Hvidsten, Andriy Kryshtafovych, Lisa Stubbs, Henryk Jan Komorowski, Krzysztof Fidelis:
A rule-based framework for gene regulation pathways discovery.
435-436
Electronic Edition (link) BibTeX
- Qing Dong, Rama Balakrishnan, Gail Binkley, Karen R. Christie, Maria C. Costanzo, Kara Dolinski, Selina S. Dwight, Stacia R. Engel, Dianna G. Fisk, Jodi E. Hirschman, Eurie L. Hong, Robert S. Nash, Laurie Issel-Tarver, Anand Sethuraman, Chandra L. Theesfeld, Shuai Weng, David Botstein, J. Michael Cherry:
Gene Function, Metabolic Pathways and Comparative Genomics in Yeast.
437-438
Electronic Edition (link) BibTeX
- Gary Livingston, Xiao Li, Guangyi Li, Liwu Hao, Jiangping Zhou:
Using Rule Induction Methods to Analyze Gene Expression Data.
439-441
Electronic Edition (link) BibTeX
Genomic Annotation
Genotyping and SNPs
- Yoko Higashi, Hirotaka Higuchi, Takashi Kido, Hirohito Matsumine, Masanori Baba, Toshihiko Morimoto, Masaaki Muramatsu:
SNP Analysis System for Detecting Complex Disease Associated Sites.
450-451
Electronic Edition (link) BibTeX
- Takashi Kido, Masanori Baba, Hirohito Matsumine, Yoko Higashi, Hirotaka Higuchi, Masaaki Muramatsu:
Haplotype Pattern Mining & Classification for detecting disease associated Site.
452-455
Electronic Edition (link) BibTeX
Molecular Simulation
Phylogeny and Evolution
- Liaofu Luo, Li-Ching Hsieh, Fengmin Ji, Mengwen Jia, H. C. Lee:
Search for Evolution-Related-Oligonucleotides and Conservative Words in rRNA Sequences.
468-469
Electronic Edition (link) BibTeX
- Terrence S. T. Mak, K. P. Lam:
High Speed GAML-based Phylogenetic Tree Reconstruction Using HW/SW Codesign.
470-473
Electronic Edition (link) BibTeX
- Li-Ching Hsieh, Liaofu Luo, H. C. Lee:
Evidence for Growth of Microbial Genomes by Short Segmental Duplications.
474-475
Electronic Edition (link) BibTeX
- Chen Yang, Sami Khuri:
PTC: An Interactive Tool for Phylogenetic Tree Construction.
476-477
Electronic Edition (link) BibTeX
- Sören W. Perrey, Heinrich Brinck, Achim Zielesny:
Iterative Rank based Methods for Clustering.
478-479
Electronic Edition (link) BibTeX
- Ghislain Bidaut, Karsten Suhre, Jean-Michel Claverie, Michael F. Ochs:
Analysis of Phylogenetic Profiles Using Bayesian Decomposition.
480-481
Electronic Edition (link) BibTeX
- Yunfeng Shan, Evangelos E. Milios, Andrew J. Roger, Christian Blouin, Edward Susko:
Automatic Recognition of Regions of Intrinsically Poor Multiple Alignment Using Machine Learning.
482-483
Electronic Edition (link) BibTeX
- Jun Huan, Jan Prins, Wei Wang, Todd J. Vision:
Reconstruction of Ancestral Gene Order after Segmental Duplication and Gene Loss.
484-485
Electronic Edition (link) BibTeX
- Yuhong Wang, John P. Rose, Bi-Cheng Wang, Dawei Lin:
Reconstruction of Ancient Operons From Complete Microbial Genome Sequences.
486-487
Electronic Edition (link) BibTeX
Predictive Methods
- Hsiang Chi Huang:
An Evolutionary Approach to Finding Schemas for 3-Class Protein Secondary Structure Prediction.
488-491
Electronic Edition (link) BibTeX
- Dechang Chen, Dong Hua, Jaques Reifman, Xiuzhen Cheng:
Gene Selection for Multi-Class Prediction of Microarray Data.
492-495
Electronic Edition (link) BibTeX
- Dong Hua, Dechang Chen, Xiuzhen Cheng, Abdou Youssef:
Latent Structure Models for the Analysis of Gene Expression Data.
496-499
Electronic Edition (link) BibTeX
- Yoshiharu Hayashi, Katsuyoshi Sakaguchi, Nao Iwata, Masaki Kobayashi:
Molecular Evaluation using Comparative Molecular Interaction Profile Analysis system.
500-501
Electronic Edition (link) BibTeX
- Vincent Van Buren, Toshiyuki Yoshikawa, Toshio Hamatani, Minoru S. H. Ko:
Probe Design for Large-Scale Molecular Biology Applications.
502-503
Electronic Edition (link) BibTeX
- Xue-wen Chen:
Gene Selection for Cancer Classification Using Bootstrapped Genetic Algorithms and Support Vector Machines.
504-505
Electronic Edition (link) BibTeX
- I-Jeng Wang, Christopher P. Diehl, Fernando J. Pineda:
A Statistical Model of Proteolytic Digestion.
506-508
Electronic Edition (link) BibTeX
- Jianchang Ning, Charles N. Moore, J. Clare Nelson:
Preliminary Wavelet Analysis of Genomic Sequences.
509-510
Electronic Edition (link) BibTeX
- Vojislav Stojkovic, Grace Steele, William Lupton:
Using Easel for Modeling and Simulating the Interactions of Cells in Order to Better Understand the Basics of Biological Processes and to Predict Their Likely Behaviors.
511-516
Electronic Edition (link) BibTeX
- Andriy Kryshtafovych, Torgeir R. Hvidsten, Henryk Jan Komorowski, Krzysztof Fidelis:
Fold Recognition Using Sequence Fingerprints of Protein Local Substructures.
517-518
Electronic Edition (link) BibTeX
- Jianhua Ruan, Gary D. Stormo, Weixiong Zhang:
An Iterative Loop Matching Approach to the Prediction of RNA Secondary Stru.
519-520
Electronic Edition (link) BibTeX
- Hirotoshi Taira, Tomonori Izumitani, Eisaku Maeda, Takeshi Suzuki:
A New Method for Predicting RNA Secondary Structure.
521-522
Electronic Edition (link) BibTeX
- Chris H. Q. Ding, Hanchuan Peng:
Minimum Redundancy Feature Selection from Microarray Gene Expression Data.
523-529
Electronic Edition (link) BibTeX
Sequence Comparison
- Jianping Zhou, Gary Livingston, Georges G. Grinstein:
Automatic Parameter Selection for Sequence Similarity Search.
530-531
Electronic Edition (link) BibTeX
- Fern Y. Hunt, Anthony J. Kearsley, Agnes O'Gallagher:
A Linear Programming Based Algorithm for Multiple Sequence Alignments.
532-533
Electronic Edition (link) BibTeX
- Tuan D. Pham:
Alignment-Free Sequence Comparison with Vector Quantization and Hidden Markov Models.
534-535
Electronic Edition (link) BibTeX
- Krishna Gopalakrishnan, Kayvan Najarian:
Prediction of Protein Function Using Signal Processing of Biochemical Properties.
536-538
Electronic Edition (link) BibTeX
- Shih-Chieh Su, Chia H. Yeh, C. C. Jay Kuo:
Genomic Sequence Analysis Using Gap Sequences and Pattern Filtering.
539-540
Electronic Edition (link) BibTeX
- Wojciech Szpankowski, Wenhui Ren, Lukasz Szpankowski:
An Optimal DNA Segmentation Based on the MDL Principle.
541-546
Electronic Edition (link) BibTeX
- Carl E. McMillin, Robert M. Horton:
The Cybertory Sequence File System for Managing Large DNA Sequences.
547-548
Electronic Edition (link) BibTeX
- Weirong Zhu, Yanwei Niu, Jizhu Lu, Guang R. Gao:
Implementing Parallel Hmm-pfam on the EARTH Multithreaded Architecture.
549-550
Electronic Edition (link) BibTeX
- Tamer Kahveci, Ambuj K. Singh:
Genome on Demand: Interactive Substring Searching.
551-552
Electronic Edition (link) BibTeX
- Hong Sun, Ozgur Ozturk, Hakan Ferhatosmanoglu:
CoMRI: A Compressed Multi-Resolution Index Structure for Sequence Similarity Queries.
553-559
Electronic Edition (link) BibTeX
Strings,
Graphs,
and Algorithms
- Holger Mauch, Michael J. Melzer, John S. Hu:
Genetic Algorithm Approach for the Closest String Problem.
560-561
Electronic Edition (link) BibTeX
- Youlian Pan, Fazel Famili:
GenericBioMatch: A novel generic pattern match algorithm for biological sequences.
562-563
Electronic Edition (link) BibTeX
- Fang-Rong Hsu, J. F. Chen:
Aligning ESTs to Genome Using Multi-Layer Unique Makers.
564-566
Electronic Edition (link) BibTeX
- Suchendra M. Bhandarkar, Jinling Huang, Jonathan Arnold:
A Parallel Genetic Algorithm for Physical Mapping of Chromosomes.
567-572
Electronic Edition (link) BibTeX
- Xiaolu Huang, Hesham H. Ali:
RCIS: A Common Interval Searching Algorithm for Amino Acid Sequences.
573-574
Electronic Edition (link) BibTeX
- Mehmet Koyutürk, Ananth Grama, Wojciech Szpankowski:
Algorithms for Bounded-Error Correlation of High Dimensional Data in Microarray Experiments.
575-580
Electronic Edition (link) BibTeX
- Yimin Jing, Sami Khuri:
Exact and Heuristic Algorithms for the DNA Fragment Assembly Problem.
581-582
Electronic Edition (link) BibTeX
- Ezekiel F. Adebiyi, Tinuke Dipe:
Finding Higher Order Motifs under the Levenshtein Measure.
583-584
Electronic Edition (link) BibTeX
- Brendan Mumey, Thomas Angel, Bonnie Kirkpatrick, Brian W. Bailey, P. Hargrave, Algirdas J. Jesaitis, Edward A. Dratz:
Mapping Discontinuous Antibody Epitopes to Reveal Protein Structure and Changes in Structure Related to Function.
585-586
Electronic Edition (link) BibTeX
- Donald A. Adjeroh, Jianan Feng:
The SCP and Compressed Domain Analysis of Biological Sequences.
587-592
Electronic Edition (link) BibTeX
- Cun-Quan Zhang, Yunkai Liu, Elaine M. Eschen, Keqiang Wu:
Identifying Regulatory Signals in DNA-Sequences with a Non-statistical Approximation Approach.
593-597
Electronic Edition (link) BibTeX
- Matthew Palensky, Hesham H. Ali:
A Genetic Algorithm for Simplifying The Amino Acid Alphabet.
598-601
Electronic Edition (link) BibTeX
Structural Biology
Systems Biology
- Carolyn L. Talcott, Steven Eker, Merrill Knapp, Patrick Lincoln, Keith Laderoute:
Pathway Logic Modeling of Protein Functional Domains in Signal Transduction.
618-619
Electronic Edition (link) BibTeX
- Richard L. Schiek, Elebeoba E. May:
Development of a Massively-Parallel, Biological Circuit Simulator.
620-622
Electronic Edition (link) BibTeX
- Chitta Baral, Karen Chancellor, Nam Tran, Nhan Tran:
Representing and reasoning about signal networks: an illustration using NF\kappaB dependent signaling pathways.
623-628
Electronic Edition (link) BibTeX
- Yoshihiro Morishita, Kazuyuki Aihara:
Noise-Attenuation in Artificial Genetic Networks.
629-630
Electronic Edition (link) BibTeX
- Zhengchang Su, PhuongAn Dam, X. Chen, Victor Olman, Tao Jiang, B. Palenik, Ying Xu:
Computational Inference of Regulatory Pathways in Microbes.
631-633
Electronic Edition (link) BibTeX
Text Mining and Ontologies
- Steve Racunas, Nigam Shah, Nina V. Fedoroff:
A Contradiction-Based Framework for Testing Gene Regulation Hypotheses.
634-638
Electronic Edition (link) BibTeX
- Weijian Xuan, Stanley J. Watson, Huda Akil, Fan Meng:
Identifying Gene and Protein Names from Biological Texts.
639-643
Electronic Edition (link) BibTeX
- Rachel Harte, Yan Lu, Stephen Osborn, David Dehoney, Daniel Chin:
Refining the Extraction of Relevant Documents from Biomedical Literature to Create a Corpus for Pathway Text Mining.
644-645
Electronic Edition (link) BibTeX
- David Dehoney, Rachel Harte, Yan Lu, Daniel Chin:
Using Natural Language Processing and the Gene Ontology to Populate a Structured Pathway Database.
646-647
Electronic Edition (link) BibTeX
- Andrea Elaina Grimes, Robert P. Futrelle:
Text Pattern Visualization for analysis of biology full text and captions.
648-653
Electronic Edition (link) BibTeX
Miscellaneous
- Melanie A. Sutton, Lori Deneke, John Eme, Wayne Bennett, Frank Wray:
Development and Assessment of Bioinformatics Tools for Species Conservation and Habitat Management.
654-655
Electronic Edition (link) BibTeX
- Joseph Gerrein, Armen Kherlopian, Vezen Wu, Mitchell Berman, Alvin Wald:
MedfoLink: Bridging the Gap between IT and the Medical Community.
656-657
Electronic Edition (link) BibTeX
- Can V. Tran, Nelson M. Yang, Milton H. Saier Jr.:
TC-DB: An Architecture for Membrane Transport Protein Analysis.
658-660
Electronic Edition (link) BibTeX
Copyright © Sat May 16 23:03:57 2009
by Michael Ley (ley@uni-trier.de)
