List of 34 Accepted Papers for ISMB'99

1. Crystallographic Threading
   A. Ableson, J.I. Glasgow
   
2. A Phylogenetic Approach to Molecular Structure Prediction
   Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo
   
3. Genomics via Optical Mapping III: Contiging Genomic DNA and Variations
   Thomas Anantharaman, Bud Mishra, David Schwartz
   
4. Position-specific annotation of protein function based on multiple homologs
   Miguel A. Andrade
   
5. Nearest Neighbor Classification in 3D Protein Databases
   Mihael Ankerst, Gabi Kastenmueller, Hans-Peter Kriegel, Thomas Seidl
   
6. Reconstructing the Duplication History of a Tandem Repeat
   Gary Benson, Lan Dong
   
7. Identify by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions
   Thomas W. Blackwell, Eric Rouchka, David J. States
   
8. Automatic extraction of biological information from Scientific text: protein-protein interactions
   Christian Blaschke, Miguel A. Andrade, Christos Ouzounis, Alfonso Valencia
   
9. A Data Base of Minimally Frustrated Alpha-Helical Segments Extracted from Proteins According to an Entropy Criterion
   Rita Casadio, Mario Compiani, Piero Fariselli, Pier Luigi Martelli
   
10. Constructing Biological Knowledge Bases by Extracting Information from Text Sources
    Mark Craven, Johan Kumlien
    
11. INTERACT: an object oriented protein-protein interaction database
    Karen Eilbeck, Andy Brass, Norman Paton, Charlie Hodgman
    
12. Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints
    Jan Gorodkin, Ole Lund, Claus A. Andersen, Soren Brunak
    
13. Protein Fold Class Prediction: New Methods of Statistical Classification
    J. Grassmann, M. Reczko, S. Suhai, L. Edler
    
14. Fidelity Probes for DNA Arrays
    Earl Hubbell, Pavel A. Pevzner
    
15. Solving Large Scale Phylogenetic Problems using DCM
    Daniel H. Huson, Lisa Vawter, Tandy J. Warnow
    
16. TEXTAL: A Pattern Recognition System for Interpreting Electron Density Maps
    Thomas R. Ioerger, Thomas Holton, Jon A. Christopher, James C. Sacchettini
    
17. ESTScan: a program for detecting , evaluating, and reconstructing potential coding regions in EST sequences
    Christian Iseli, C. Victor Jongeneel, Philipp Bucher
    
18. Using the Fisher kernel method to detect remote protein homologies
    Tommi Jaakkola, Mark Diekhans, David Haussler
    
19. An Algorithm Combining Discrete and Continuous Methods for Optical Mapping
    R.M. Karp, I. Pe`er, R. Shamir
    
20. Multiple Structural Alignment and Core Detection by Geometric Hashing
    Nathaniel Leibowitz, Zipora Y. Fligelman, Ruth Nussinov, Haim J. Wolfson
    
21. Metrics and similarity measures for hidden Markov models
    Rune B. Lyngso, Christian N. S. Pedersen, Henrik Nielsen
    
22. Quantitative, scalable discrete-event simulation of metabolic pathways
    Peter Meric, Michael Wise
    
23. Spatio-temporal Registration of the Expression Patterns of Drosophila Segmentation Genes
    Ekaterina M. Myasnikova, David Kosman, John Reinitz, Maria G. Samsonova
    
24. A Dataset Generator for Whole Genome Shotgun Sequencing
    Gene Myers
    
25. Rapid Assessment of Extremal Statistics for Gapped Local Alignment
    Rolf Olsen, Ralf Bundschuh, Terence Hwa
    
26. Building Dictionaries Of 1D and 3D Motifs By Mining The Unaligned 1D Sequences Of 17 Archaeal and Bacterial Genomes
    Isidore Rigoutsos, Yuan Gao, Aris Floratos, Laxmi Parida
    
27. A Linear Time Algorithm for Finding All Maximal Scoring Subsequences
    Walter L. Ruzzo, Martin Tompa
    
28. Database Screening for HIV Protease Ligands: The Influence of Binding-Site Conformation and Representation
    Volker Schnecke, Leslie A. Kuhn
    
29. A Motion Planning Approach to Flexible Ligang Binding
    Amit P. Singh, Jean-Claude Latombe, Douglas L. Brutlag
    
30. An Exact Method for Finding Short Motifs in Sequences with Application to the Ribosome Binding Site Problem
    Martin Tompa
    
31. Seamless Integration of Biological Applications into a Database Framework
    Thodoros Topaloglou, Anthony Kosky, Victor Markowitz
    
32. Pharmaceutical target discovery using Guilt-by-Association: schizophrenia and Parkinson's disease genes
    Michael G. Walker, Wayne Volkmuth, Tod M. Klingler
    
33. Analysis of ribosomal RNA sequences by combinatorial clustering
    Poe Xing, Casimir Kulikowski, Ilya Muchnik, Inna Dubchak, Denise Wolf, Sylvia Spengler, Manfred Zorn
    
34. Database search based on Bayesian alignment
    Jun Zhu, Roland Luethy, Charles E. Lawrence