Multiple sequence alignment with hierarchical clustering.
Nucleic Acids Research, 1988 An algorithm is presented for the multiple alignment of sequences, either proteins or nucleic acids, that is both accurate and easy to use on microcomputers.
F. Corpet
semanticscholar +6 more sources
Multiple sequence alignment accuracy and evolutionary distance estimation [PDF]
BMC Bioinformatics, 2005 Background Sequence alignment is a common tool in bioinformatics and comparative genomics. It is generally assumed that multiple sequence alignment yields better results than pair wise sequence alignment, but this assumption has rarely been tested, and ...
Rosenberg Michael S
doaj +2 more sources
Multiple Sequence Alignment Tools on the Web [PDF]
BioTechniques, 2000 The immense number of nucleotide and protein sequences that can be accessed through public databases on the Internet is an invaluable resource to scientists working in the fields of molecular biology, protein chemistry and molecular diagnostics. Tools such as BLAST (1) (also discussed in the March 2000 Internet On-Ramp) and FASTA (7) are used mainly to
Giles J. Gaskell
doaj +4 more sources
Mauve: multiple alignment of conserved genomic sequence with rearrangements. [PDF]
Genome Research, 2004 As genomes evolve, they undergo large-scale evolutionary processes that present a challenge to sequence comparison not posed by short sequences. Recombination causes frequent genome rearrangements, horizontal transfer introduces new sequences into ...
A. Darling +3 more
semanticscholar +2 more sources
MergeAlign: improving multiple sequence alignment performance by dynamic reconstruction of consensus multiple sequence alignments [PDF]
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 +5 more sources
Scaling statistical multiple sequence alignment to large datasets [PDF]
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 +2 more sources
Segment-based multiple sequence alignment [PDF]
Bioinformatics, 2008 Motivation: Many multiple sequence alignment tools have been developed in the past, progressing either in speed or alignment accuracy. Given the importance and wide-spread use of alignment tools, progress in both categories is a contribution to the ...
Emde, A.-K. +4 more
core +6 more sources
A statistical score for assessing the quality of multiple sequence alignments [PDF]
BMC Bioinformatics, 2006 Background Multiple sequence alignment is the foundation of many important applications in bioinformatics that aim at detecting functionally important regions, predicting protein structures, building phylogenetic trees etc.
Aittokallio Tero +3 more
doaj +2 more sources
A layout framework for genome-wide multiple sequence alignment graphs [PDF]
Frontiers in BioinformaticsSequence alignments are often used to analyze genomic data. However, such alignments are often only calculated and compared on small sequence intervals for analysis purposes.
Jeremias Schebera +3 more
doaj +2 more sources
Protein multiple sequence alignment benchmarking through secondary structure prediction. [PDF]
Bioinformatics, 2017 Motivation: Multiple sequence alignment (MSA) is commonly used to analyze sets of homologous protein or DNA sequences. This has lead to the development of many methods and packages for MSA over the past 30 years.
Le Q, Sievers F, Higgins DG.
europepmc +2 more sources