期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (2)
Given the wide variability in the quality of next-generation sequencing data submitted to public repositories, it is essential to identify methods tha......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 0 (0)
Integration of multi-omics data can provide a more complex view of the biological system consisting of different interconnected molecular components. ......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (5)
Genome-scale constraint-based metabolic networks play an important role in the simulation of growth-coupled production, which means that cell growth a......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (6)
The problem of computing the Elementary Flux Modes (EFMs) and Minimal Cut Sets (MCSs) of metabolic network is a fundamental one in metabolic networks.......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (2)
Estimating species trees from multiple genes is complicated and challenging due to gene tree-species tree discordance. One of the basic approaches to ......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (3)
The ability to quantify a dissimilarity of different phylogenetic trees is required in various types of phylogenetic studies, for example, such metric......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (3)
Motivation: Phylogenetic trees are often inferred from a multiple sequence alignment (MSA) where the tree accuracy is heavily impacted by the nature o......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (7)
In this study, we analyze the evolution of the effective reproduction number, R, through a Susceptible-Infective-Recovered spreading process in hetero......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 1 (1)
In this article, we investigate the algebraic structure of double cyclic codes of length (alpha,beta) over F-2+uF(2) with u(2)=0 and construct DNA cod......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (12)
Genetic component assembly is key in the simulation and implementation of genetic circuits. Automating this process, thus accelerating prototyping, is......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; ()
Phylogenetic networks are increasingly being considered better suited to represent the complexity of the evolutionary relationships between species. O......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (6)
Current technologies allow the sequencing of microbial communities directly from the environment without prior culturing. One of the major problems wh......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (6)
The colored de Bruijn graph is a variation of the de Bruijn graph that has recently been utilized for indexing sequencing reads. Although state-of-the......
期刊： JOURNAL OF COMPUTATIONAL BIOLOGY, 2023; 30 (9)
We present a framework called the Reasoning Engine, which implements Satisfiability Modulo Theories (SMT)-based methods within a unified computational......
