Recent developments in the MAFFT multiple sequence alignment program
K Katoh, H Toh - Briefings in bioinformatics, 2008 - academic.oup.com
The accuracy and scalability of multiple sequence alignment (MSA) of DNAs and proteins
have long been and are still important issues in bioinformatics. To rapidly construct a …
have long been and are still important issues in bioinformatics. To rapidly construct a …
Multiple alignment of DNA sequences with MAFFT
K Katoh, G Asimenos, H Toh - Bioinformatics for DNA sequence analysis, 2009 - Springer
Multiple alignment of DNA sequences is an important step in various molecular biological
analyses. As a large amount of sequence data is becoming available through genome and …
analyses. As a large amount of sequence data is becoming available through genome and …
Issues in bioinformatics benchmarking: the case study of multiple sequence alignment
The post-genomic era presents many new challenges for the field of bioinformatics. Novel
computational approaches are now being developed to handle the large, complex and noisy …
computational approaches are now being developed to handle the large, complex and noisy …
Harnessing machine learning to guide phylogenetic-tree search algorithms
Inferring a phylogenetic tree is a fundamental challenge in evolutionary studies. Current
paradigms for phylogenetic tree reconstruction rely on performing costly likelihood …
paradigms for phylogenetic tree reconstruction rely on performing costly likelihood …
[图书][B] Algorithms in bioinformatics: A practical introduction
WK Sung - 2009 - taylorfrancis.com
Thoroughly Describes Biological Applications, Computational Problems, and Various
Algorithmic Solutions Developed from the author's own teaching material, Algorithms in …
Algorithmic Solutions Developed from the author's own teaching material, Algorithms in …
R-Coffee: a method for multiple alignment of non-coding RNA
R-Coffee is a multiple RNA alignment package, derived from T-Coffee, designed to align
RNA sequences while exploiting secondary structure information. R-Coffee uses an …
RNA sequences while exploiting secondary structure information. R-Coffee uses an …
The evolutionary history of the order Antipatharia (Cnidaria: Anthozoa: Hexacorallia) as inferred from mitochondrial and nuclear DNA: implications for black coral …
MR Brugler, DM Opresko… - Zoological Journal of the …, 2013 - academic.oup.com
Although black corals inhabit all the world's oceans, they have been relatively understudied
as∼ 185 of 247 species occur at depths> 50 m. Antipatharians have been included in …
as∼ 185 of 247 species occur at depths> 50 m. Antipatharians have been included in …
Morphology, molecular phylogeny and okadaic acid production of epibenthic Prorocentrum (Dinophyceae) species from the northern South China Sea
Around 30 epibenthic Prorocentrum species have been described, but information about
their biogeography is limited. Some species are able to produce okadaic acid (OA) and its …
their biogeography is limited. Some species are able to produce okadaic acid (OA) and its …
ModelTeller: model selection for optimal phylogenetic reconstruction using machine learning
Statistical criteria have long been the standard for selecting the best model for phylogenetic
reconstruction and downstream statistical inference. Although model selection is regarded …
reconstruction and downstream statistical inference. Although model selection is regarded …
The tree reconstruction game: phylogenetic reconstruction using reinforcement learning
D Azouri, O Granit, M Alburquerque… - Molecular Biology …, 2024 - academic.oup.com
The computational search for the maximum-likelihood phylogenetic tree is an NP-hard
problem. As such, current tree search algorithms might result in a tree that is the local …
problem. As such, current tree search algorithms might result in a tree that is the local …