3. RECOMB 1999: Lyon, France

• Eric L. Anson, Eugene W. Myers:
  Algorithms for whole genome shotgun sequencing. 1-9
  
• Timothy L. Bailey, William Noble Grundy:
  Classifying proteins by family using the product of correlated p-values. 10-14
  
• Gill Bejerano, Golan Yona:
  Modeling protein families using probabilistic suffix trees. 15-24
  
• Jadwiga R. Bienkowska, Robert G. Rogers, Temple F. Smith:
  A method for optimal design of a threading scoring function. 25-32
  
• Amir Ben-Dor, Zohar Yakhini:
  Clustering gene expression patterns. 33-42
  
• Laurent Bize, Florence Muri, Franck Samson, François Rodolphe, S. Dusko Ehrlich, Bernard Prun, Philippe Bessières:
  Searching gene transfers on Bacillus subtilis using hidden Markov models. 43-49
  
• Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller:
  Winnowing sequences from a database search. 50-58
  
• Vincent Berry, David Bryant:
  Faster reliable phylogenetic analysis. 59-68
  
• Peer Bork:
  Comparing genes and genomes (abstract): from polymorphism to phylogeny. 69-76
  
• Stefan Burkhardt, Andreas Crauser, Paolo Ferragina, Hans-Peter Lenhof, Eric Rivals, Martin Vingron:
  q-gram based database searching using a suffix array (QUASAR). 77-83
  
• Alberto Caprara:
  Formulations and hardness of multiple sorting by reversals. 84-94
  
• Ting Chen, Vladimir Filkov, Steven Skiena:
  Identifying gene regulatory networks from experimental data. 94-103
  
• L. Paul Chew, Daniel P. Huttenlocher, Klara Kedem, Jon M. Kleinberg:
  Fast detection of common geometric substructure in proteins. 104-114
  
• Sarah A. Teichmann, Jong Park, Cyrus Chothia:
  Genome sequences and protein structures. 114
  
• Thomas Christof, John D. Kececioglu:
  Computing physical maps of chromosomes with nonoverlapping probes by branch-and-cut. 115-123
  
• Barry Cohen, Steven Skiena:
  Optimizing combinatorial library construction via split synthesis. 124-133
  
• Daniel Cohen, Marta Blumenfeld, Ilya Chumakov, Nicholas J. Schork:
  Whole genome association studies in humans (abstract). 134
  
• Vlado Dancík, Theresa A. Addona, Karl R. Clauser, James E. Vath:
  De Novo peptide sequencing via tandem mass spectrometry: a graph-theoretical approach. 135-144
  
• Alan A. Dombkowski, Gordon M. Crippen:
  A solvation potential with improved contact definitions and optimized by extensive threading. 145-153
  
• Nadia El-Mabrouk, David Bryant, David Sankoff:
  Reconstructing the pre-doubling genome. 154-163
  
• Aris Floratos, Isidore Rigoutsos, Laxmi Parida, Gustovo Stolovitzky, Yuan Gao:
  Sequence homology detection through large scale pattern discovery. 164-169
  
• Christian V. Forst, Klaus Schulten:
  Evolution of metabolisms: a new method for the comparison of metabolic pathways. 174-181
  
• Gregory R. Grant, R. S. Spielman, Elisabetta Manduchi, Vivian G. Cheung, Warren J. Ewens:
  Significance testing for genomic mismatch scanning. 182-187
  
• Erez Hartuv, Armin O. Schmitt, Jörg Lange, Sebastian Meier-Ewert, Hans Lehrach, Ron Shamir:
  An algorithm for clustering cDNAs for gene expression analysis. 188-197
  
• Daniel H. Huson, Scott Nettles, Tandy Warnow:
  Obtaining highly accurate topology estimates of evolutionary trees from very short sequences. 198-207
  
• Richard M. Karp, Roland Stoughton, Ka Yee Yeung:
  Algorithms for choosing differential gene expression experiments. 208-217
  
• Lawrence A. Kelley, Robert M. MacCallum, Michael J. E. Sternberg:
  Recognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM. 218-225
  
• Jon M. Kleinberg:
  Efficient algorithms for protein sequence design and the analysis of certain evolutionary fitness landscapes. 226-237
  
• Richard H. Lathrop:
  An anytime algorithm for gapped block protein threading with pair interactions. 238-249
  
• Steven M. LaValle, Paul W. Finn, Lydia E. Kavraki, Jean-Claude Latombe:
  Efficient database screening for rational drug design using pharmacophore-constrained conformational search. 250-260
  
• Rune B. Lyngsø, Michael Zuker, Christian N. S. Pedersen:
  Internal loops in RNA secondary structure prediction. 260-267
  
• Guy Mayraz, Ron Shamir:
  Construction of physical maps from oligonucleotide fingerprints data. 268-277
  
• John Moult:
  The past, present and future of protein structure prediction (abstract). 278
  
• Gene Myers:
  Progress toward the whole-genome shotgun sequencing of Drosophila. 279
  
• Julie C. Mitchell, J. Ben Rosen, Andrew T. Phillips, Lynn F. Ten Eyck:
  Coupled optimization in protein docking. 280-284
  
• Lior Pachter, Serafim Batzoglou, Valentin I. Spitkovsky, William S. Beebee, Eric S. Lander, Bonnie Berger, Daniel J. Kleitman:
  A dictionary based approach for gene annotation. 285-294
  
• Franco P. Preparata, Alan M. Frieze, Eli Upfal:
  On the power of universal bases in sequencing by hybridization. 295-301
  
• David Sankoff, Mathieu Blanchette:
  Probability models for genome rearrangement and linear invariants for phylogenetic inference. 302-309
  
• Piotr P. Slonimski:
  Comparison of complete genomes: Organization and evolution (abstract). 310
  
• Ed Southern:
  DNA microarrays - the how and the why. 311
  
• Maxim Totrov, Ruben Abagyan:
  Derivation of sensitive discrimination potential for virtual ligand screening. 312-320
  
• Martin J. Bayley, Valerie J. Gillet, Peter Willett, John Bradshaw, Darren V. S. Green:
  Computational analysis of molecular diversity for drug discovery. 321-330
  
• John C. Wooley:
  Trends in computational biology. 331