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Efficient extraction of mapping rules of atoms from enzymatic reaction data.
Tatsuya Akutsu
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On de-novo interpretation of peptide spectra.
Vineet Bafna and Nathan Edwards
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Haplotypes and informative SNP selection algorithms: don't block out information.
Vineet Bafna, Bjarni V. Halldorsson, Russel Schwartz, Andy Clark and Sorin Istrail
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Modeling dependencies in protein-DNA binding sites.
Yoseph Barash, Gal Elidan, Nir Friedman and Tommy Kaplan
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Efficient exact p-value computation and applications to biosequence analysis.
Gill Bejerano
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Towards optimally multiplexed applications of universal DNA tag systems.
Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, Roded Sharan and Zohar Yakhini
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A comparative analysis method for detecting binding sites in coding regions.
Mathieu Blanchette
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Designing seeds for similarity search in genomic DNA.
Jeremy Buhler, Uri Keich and Yanni Sun
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Discovery of conserved sequence pair templates associated with gene expression differences in yeast.
Derek Y. Chiang, Alan M. Moses, Manolis Kamvysselis, Eric S. Lander and Michael B. Eisen
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Maximum likelihood on four taxa phylogenetic trees: analytic solutions.
Benny Chor, Amit Khetan and Sagi Snir
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Integrated probabilistic model for functional prediction of proteins.
Minghua Deng, Ting Chen and Fengzhu Sun
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Large scale reconstruction of haplotypes from genotype data.
Eleazar Eskin, Eran Halperin and Richard M. Karp
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Optimizing exact genetic linkage computations.
Ma'ayan Fishelson and Dan Geiger
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Finding recurrent sources in sequences.
Aristides Gionis and Heikki Mannila
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Model-based inference of haplotype block variation.
Gideon Greenspan and Dan Geiger
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Accurate detection of very sparse sequence motifs.
Andreas Heger, Michael Lappe and Liisa Holm
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Engineering a scalable placement heuristic for DNA probe arrays.
A. B. Kahng, I. I. Mandoiu, P. A. Pevzner, S. Reda and A. Z. Zelikovsky
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Whole-genome comparative annotation and regulatory motif discovery in multiple yeast species.
Manolis Kamvysselis, Nick Patterson, Bruce Birren, Bonnie Berger and Eric Lander
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| • |
Joint classifier and feature optimization for cancer diagnosis using gene expression data.
Balaji Krishnapuram, Lawrence Carin and Alexander Hartemink
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| • |
A polynomial-time nuclear vector replacement algorithm for automated NMR resonance assignments.
Christopher James Langmead, Anthony K. Yan, Ryan Lilien, Lincong Wang and Bruce Randall Donald
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| • |
A complete and effective move set for simplified protein folding.
N. Lesh, M. Mitzenmacher and S. Whitesides
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| • |
Gene selection criterion for discriminant microarray data analysis based on extreme value distributions.
Wentian Li and Ivo Grosse
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Efficient rule-based haplotyping algorithms for pedigree data.
Jing Li and Tao Jiang
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Haplotype reconstruction from SNP alignment.
Lei Li, Jong Hyun Kim and Michael S. Waterman
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A multi-expert system for the automatic detection of protein domains from sequence information.
Niranjan Nagarajan and Golan Yona
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| • |
Resolution of haplotypes and haplotype frequencies from SNP genotypes of pooled samples.
Itsik Pe'er and Jacques S. Beckmann
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| • |
Transforming men into mice: the Nadeau-Taylor chromosomal breakage model revisited.
Pavel Pevzner and Glenn Tesler
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| • |
Score functions for assessing conservation in locally aligned regions of DNA from two species.
Krishna M. Roskin, Mark Diekhans and David Haussler
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| • |
Approximation of protein structure for fast similarity measures.
Fabian Schwarzer and Itay Lotan
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| • |
Combining phylogenetic and hidden Markov models in biosequence analysis.
Adam Siepel and David Haussler
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| • |
Using a mixture of probabilistic decision trees for direct prediction of protein function.
Umar Syed and Golan Yona
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| • |
Modeling transcription programs: inferring binding site activity and dose-response model optimization.
Amos Tanay and Ron Shamir
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| • |
Physical network models and multi-source data integration.
Chen-Hsiang Yeang and Tommi Jaakkola
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| • |
Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals.
Gene Yeo and Christopher Burge
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| • |
Dynamic programming algorithms for haplotype block partitioning: applications to human chromosome 21 haplotype data.
Kui Zhang, Fengzhu Sun, Michael S. Waterman and Ting Chen
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