Abstract This paper discusses recent optimization approaches to the protein side-chain prediction problem, protein structural alignment, and molecular structure determination from X-ray …

Jan 1, 2020 · In the present study, we propose a novel DP algorithm, COSMO (Codon Optimization Strategy with Multiple Objectives), for solving multicriteria codon optimization …

Jul 7, 2015 · We study exact Pareto optimization for two objectives in a dynamic programming framework. We define a binary Pareto product operator on arbitrary scoring schemes.

In this study, we propose a method for optimizing molecular structures based on quantum dynamics computations with working on an FTQC in mind. In our method, the many-body …

May 3, 2004 · In this study, a dynamic programming algorithm for prediction of RNA secondary structure has been revised to use experimentally determined chemical modification …

Results: This article introduces a systematic method for constructing dynamic programming solutions to problems in biosequence analysis. By a conceptual splitting of the algorithm into a …

Dec 1, 2023 · There exist various RNA folding algorithms that predict an optimal secondary structure as minimum free energy structure of the given RNA sequence in suitable …

To fill this gap, we propose DyMol, the first method designed to tackle the dynamic many-objective molecular optimization problem by utilizing a novel divide-and-conquer approach …

Papamichail et al. (2018) study the codon optimization problem when the objectives are CAI and CPB and suggest a polynomial, but an inefficient dynamic programming algorithm to find a …

Our method uses a reinforcement learning framework that integrates Soft Actor-Critic (SAC) for policy optimization and the Pontryagin Maximum Principle (PMP) to capture molecular …