Papers accepted to RECOMB'99

[in no apparent order]

Algorithms for Whole Genome Shotgun Sequencing
Eric Anson, Gene Myers

Classifying proteins by family using the product of correlated p-values
Timothy L. Bailey, William Noble Grundy

A Dictionary Based Approach for Gene Annotation
Lior Pachter, Serafim Batzoglou, Valentin I. Spitkovsky, Eric S. Lander, Bonnier Berger, Daniel J. Kleitman

Winnowing Sequences from a Database Search
Piotr Berman, Zheng Zhang, Yuri I. Wolf, Eugene V. Koonin, Webb Miller

Faster reliable phylogenetic analysis
Vincent Berry, David Bryant

A method for optimal design of a threading scoring function
Jadwiga R. Bienkowska, Robert G. Rogers Jr., Temple F. Smith

Searching gene transfers on Bacillus subtilis using hidden Markov models
Laurent Bize, Florence Muri, Franck Samson, Francois Rodolphe, Stanislav D. Ehrlich, Bernard Prum, Philippe Bessieres

An Analytic Study of the Phase Transition Line in Local Sequence Alignment with Gaps
R. Bundschuh, T. Hwa

q-gram Based Database Searching Using a Suffix Array
Stefan Burkhardt, Andreas Crauser, Paolo Ferragina, Hans-Peter Lenhof, Eric Rivals, Martin Vingron

Formulations and Complexity of Multiple Sorting by Reversals
Alberto Caprara

Fast Detection of Common Geometric Substructure in Proteins
L. Paul Chew, Klara Kedem, Jon Kleinberg, Dan Huttenlocher

Computing physical maps of chromosomes with nonoverlapping probes by branch-and-cut
Thomas Christof, John Kececioglu

Optimizing Combinatorial Library Construction via Split Synthesis
Barry Cohen, Steven Skiena

Protein Sequencing Using Tandem Mass Spectrometry
Vlado Dancik, Theresa Addona, Karl Clauser, Jim Vath, Pavel A. Pevzner

A Solvation Potential with Improved Contact Definitions and Optimized by Extensive Threading
Alan A. Dombkowski, Gordon M. Crippen

Reconstructing the Pre-Doubling Genome
Nadia El-Mabrouk, David Bryant, David Sankoff

Sequence Homology Detection Through Large-Scale Pattern Discovery
Aris Floratos, Isidore Rigoutsos, Laxmi Parida, Gustavo Stolovitzky, Yuan Gao

Evolution of Metabolisms A New Method for the Comparison of Metabolic Pathways
Christian V. Forst, Klaus Schulten

Significance Testing for Genomic Mismatch Scanning
G.R. Grant, R.S. Spielman, E. Manduchi, V.G. Cheung, W.J. Ewens

An Algorithm for Clustinering cDNAs for Gene Expression Analysis
Erez Hartuv, Armin Schmitt, Jorg Lange, Sebastian Meirer-Ewert, Hans Lehrach, Ron Shamir

Obtaining Highly Accurate Topology Estimates of Evolutionary Trees From Very Short Sequences
Daniel Huson, Scott Nettles, Tandy Warnow

Algorithms for Choosing Differential Gene Expression Experiments
Richard M. Karp, Ka Yee Yeung

Recognition of remote protein homologies using three-dimensional information to generate a position specific scoring matrix in the program 3D-PSSM
Lawrence Kelley, Robert MacCullum, Michael J. E. Sternberg

Efficient Algorithms for Protein Sequence Design and the Analysis of Certain Evolutionary Fitness Landscapes
Jon M. Kleinberg

An Anytime Algorithm for Gapped Block Protein Threading with Pair Interactions
Richard H. Lathrop

Efficient Database Screening for Rational Drug Design Using Pharmacophore-Constrained Conformational Search
Steven M. LaValle, Lydia E. Kavraki, Paul W. Finn, Jean-Claude Latombe

Internal loops in RNA secondary structure prediction
Rune B. Lyngso, Michael Zuker, Christian N. S. Pedersen

Construction of Physical Maps From Oligonucleotide Fingerprints Data
Guy Mayraz, Ron Shamir

On the Power of Universal Bases in Sequencing by Hybridization
Franco P. Preparata, Alan M. Frieze, Eli Upfal

Optimization in Protein Docking
Ben Rosen, Lynn TenEyck, Julie C. Mitchell, Andy Phillips

Probability Models for Genome Rearrangement and Linear Invariants for Phylogenetic Inference
David Sankoff, Mathieu Blanchette

Identifying Gene Regulatory Networks from Experimental Data
Ting Chen, Vladimir Filkov, Steven S. Skiena

Derivation of sensitive discrimination potential for virtual ligand screening
Maxim Totrov, Ruben Abagyan

Clustering Gene Expression Patterns
Amir Ben-Dor, Zohar Yakhini

Modeling protein families using probabilistic suffix trees
G. Bejerano, G. Yona
Last modified: Fri Jan 8 10:11:03 MET 1999