Mathematical programming in computational biology: an annotated bibliography
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linear programmingmathematical programminginteger programmingcomputational biologybioinformaticssequencinghaplotypingprotein structures
Applications of mathematical programming (90C90) Software, source code, etc. for problems pertaining to biology (92-04) Computational methods for problems pertaining to biology (92-08) General reference works (handbooks, dictionaries, bibliographies, etc.) pertaining to operations research and mathematical programming (90-00)
Recommendations
- Integer Linear Programming in Computational Biology
- Optimization of biochemical systems through mathematical programming: methods and applications
- scientific article; zbMATH DE number 2151174
- Integer quadratic programming models in computational biology
- Quadratic binary programming models in computational biology
- Mathematics of bioinformatics. Theory, methods and applications.
- MATHEMATICAL APPROACH TO BIO-INFORMATICS
- Computer algebra in systems biology
Cites work
- scientific article; zbMATH DE number 1003281 (Why is no real title available?)
- scientific article; zbMATH DE number 3639144 (Why is no real title available?)
- scientific article; zbMATH DE number 1301595 (Why is no real title available?)
- scientific article; zbMATH DE number 1301598 (Why is no real title available?)
- scientific article; zbMATH DE number 1305456 (Why is no real title available?)
- scientific article; zbMATH DE number 1775449 (Why is no real title available?)
- A Compact Mathematical Programming Formulation for DNA Motif Finding
- A branch-and-cut algorithm for multiple sequence alignment
- A constraint-based approach to fast and exact structure prediction in three-dimensional protein models
- A polyhedral approach to sequence alignment problems
- A polynomial case of the parsimony haplotyping problem
- A semidefinite programming approach to side chain positioning with new rounding strategies
- Algorithms and Computation
- An Effective Heuristic Algorithm for the Traveling-Salesman Problem
- An optimization approach to the problem of protein structure prediction
- Approximation algorithms for the test cover problem
- Combinatorial Pattern Matching
- Compact optimization can outperform separation: a case study in structural proteomics
- Computational Science – ICCS 2005
- Exact algorithms for minimum routing cost trees
- Genetic Design of Drugs Without Side-Effects
- Haplotyping populations by pure parsimony: complexity of exact and approximation algorithms
- Integer linear programming approaches for non-unique probe selection
- Large-scale linear programming techniques for the design of protein folding potentials
- Multiple sequence alignment as a facility-location problem
- On the closest string and substring problems
- On the primer selection problem in polymerase chain reaction experiments
- Optimal Protein Structure Alignment Using Maximum Cliques
- Optimal solutions for the closest-string problem via integer programming
- Physical mapping of chromosomes: A combinatorial problem in molecular biology
- Protein threading by linear programming: theoretical analysis and computational results
- Protein threading: from mathematical models to parallel implementations
- Rearrangement of DNA fragments: a branch-and-cut algorithm.
- Side Chain-Positioning as an Integer Programming Problem
- Simple and Fast Inverse Alignment
- Simultaneous classification and relevant feature identification in high-dimensional spaces: Application to molecular profiling data
- Sorting permutations by reversals through branch-and-price
- The reversal median problem
Cited in
(9)- An integer programming approach to DNA sequence assembly
- Integer Linear Programming in Computational and Systems Biology
- Opportunities for combinatorial optimization in computational biology
- Analysis method and algorithm design of biological sequence problem based on generalized k-mer vector
- Solving the maximum edge-weight clique problem in sparse graphs with compact formulations
- A bibliography on computational molecular biology and genetics
- Computational molecular biology
- Integer Linear Programming in Computational Biology
- A bibliography for the development of an intelligent mathematical programming system
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