Results 31 to 40 of about 4,504,319 (408)
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform.
Nucleic Acids Research, 2002 A multiple sequence alignment program, MAFFT, has been developed. The CPU time is drastically reduced as compared with existing methods. MAFFT includes two novel techniques.
K. Katoh, K. Misawa, K. Kuma, T. Miyata
semanticscholar +1 more source
Accelerated large-scale multiple sequence alignment
BMC Bioinformatics, 2011 Background Multiple sequence alignment (MSA) is a fundamental analysis method used in bioinformatics and many comparative genomic applications. Prior MSA acceleration attempts with reconfigurable computing have only addressed the first stage of ...
Lloyd Scott, Snell Quinn O
doaj +1 more source
MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment
Briefings Bioinform., 2004 With its theoretical basis firmly established in molecular evolutionary and population genetics, the comparative DNA and protein sequence analysis plays a central role in reconstructing the evolutionary histories of species and multigene families ...
Sudhir Kumar, K. Tamura, M. Nei
semanticscholar +1 more source
ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference
PLoS Biology, 2020 Highly divergent sites in multiple sequence alignments (MSAs), which can stem from erroneous inference of homology and saturation of substitutions, are thought to negatively impact phylogenetic inference.
Jacob L. Steenwyk +4 more
semanticscholar +1 more source
Multiple sequence alignment accuracy and evolutionary distance estimation
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
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MUSCLE: a multiple sequence alignment method with reduced time and space complexity
BMC Bioinformatics, 2004 BackgroundIn a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUSCLE to achieve the highest scores reported to date on four alignment accuracy
Robert C. Edgar
semanticscholar +1 more source
Evolutionary distances in the twilight zone -- a rational kernel approach [PDF]
, 2010 Phylogenetic tree reconstruction is traditionally based on multiple sequence alignments (MSAs) and heavily depends on the validity of this information bottleneck. With increasing sequence divergence, the quality of MSAs decays quickly.
A Keller +51 more
core +4 more sources
MAFFT version 5: improvement in accuracy of multiple sequence alignment
Nucleic Acids Research, 2005 The accuracy of multiple sequence alignment program MAFFT has been improved. The new version (5.3) of MAFFT offers new iterative refinement options, H-INS-i, F-INS-i and G-INS-i, in which pairwise alignment information are incorporated into objective ...
K. Katoh, K. Kuma, H. Toh, T. Miyata
semanticscholar +1 more source
PLoS ONE, 2020 Alignment of structural RNAs is an important problem with a wide range of applications. Since function is often determined by molecular structure, RNA alignment programs should take into account both sequence and base-pairing information for structural ...
Amir H Bayegan, Peter Clote
doaj +1 more source
Continuous Action Recognition Based on Sequence Alignment [PDF]
, 2014 Continuous action recognition is more challenging than isolated recognition because classification and segmentation must be simultaneously carried out.
Cech, Jan +3 more
core +4 more sources