Results 21 to 30 of about 451,671 (152)

Grammar-based distance in progressive multiple sequence alignment

BMC Bioinformatics, 2008
Background We propose a multiple sequence alignment (MSA) algorithm and compare the alignment-quality and execution-time of the proposed algorithm with that of existing algorithms.
Sayood Khalid, Otu Hasan H, Russell David J   +2 more
doaj   +1 more source

MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. [PDF]

Brief Bioinform, 2019
Katoh K, Rozewicki J, Yamada KD.
europepmc   +2 more sources

MSACompro: protein multiple sequence alignment using predicted secondary structure, solvent accessibility, and residue-residue contacts

BMC Bioinformatics, 2011
Background Multiple Sequence Alignment (MSA) is a basic tool for bioinformatics research and analysis. It has been used essentially in almost all bioinformatics tasks such as protein structure modeling, gene and protein function prediction, DNA motif ...
Deng Xin, Cheng Jianlin
doaj   +1 more source

An Evaluation of Phylogenetic Workflows in Viral Molecular Epidemiology

Viruses, 2022
The use of viral sequence data to inform public health intervention has become increasingly common in the realm of epidemiology. Such methods typically utilize multiple sequence alignments and phylogenies estimated from the sequence data.
Colin Young, Sarah Meng, Niema Moshiri
doaj   +1 more source

Scaling statistical multiple sequence alignment to large datasets

BMC Genomics, 2016
Background Multiple sequence alignment is an important task in bioinformatics, and alignments of large datasets containing hundreds or thousands of sequences are increasingly of interest.
Michael Nute, Tandy Warnow
doaj   +1 more source

MISHIMA - a new method for high speed multiple alignment of nucleotide sequences of bacterial genome scale data

BMC Bioinformatics, 2010
Background Large nucleotide sequence datasets are becoming increasingly common objects of comparison. Complete bacterial genomes are reported almost everyday. This creates challenges for developing new multiple sequence alignment methods.
Kryukov Kirill, Saitou Naruya
doaj   +1 more source

MergeAlign: improving multiple sequence alignment performance by dynamic reconstruction of consensus multiple sequence alignments

BMC Bioinformatics, 2012
Background The generation of multiple sequence alignments (MSAs) is a crucial step for many bioinformatic analyses. Thus improving MSA accuracy and identifying potential errors in MSAs is important for a wide range of post-genomic research.
Collingridge Peter W, Kelly Steven
doaj   +1 more source

Current Trends and Ongoing Progress in the Computational Alignment of Biological Sequences

IEEE Access, 2019
The computational techniques for nucleic acid and protein sequence comparison reduce the extensive burden of molecular biologists. The sequence alignment is one of the main research areas in bioinformatics, and comparative genomics and proteomics lead us
Muhammad Ishaq, Asfandyar Khan, Majid Khan, Muhammad Imran   +3 more
doaj   +1 more source

Parallel progressive multiple sequence alignment on reconfigurable meshes

BMC Genomics, 2011
Background One of the most fundamental and challenging tasks in bio-informatics is to identify related sequences and their hidden biological significance.
Nguyen Ken D, Pan Yi, Nong Ge
doaj   +1 more source

Three-Way Alignment Improves Multiple Sequence Alignment of Highly Diverged Sequences

Algorithms
The standard approach for constructing a phylogenetic tree from a set of sequences consists of two key stages. First, a multiple sequence alignment (MSA) of the sequences is computed.
Mahbubeh Askari Rad, Alibek Kruglikov, Xuhua Xia   +2 more
doaj   +1 more source