Results 11 to 20 of about 1,296,938 (317)
HELIOS: High-speed sequence alignment in optics. [PDF]
PLoS Computational Biology, 2022 In response to the imperfections of current sequence alignment methods, originated from the inherent serialism within their corresponding electrical systems, a few optical approaches for biological data comparison have been proposed recently.
Ehsan Maleki +2 more
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Using structure to explore the sequence alignment space of remote homologs. [PDF]
PLoS Computational Biology, 2011 Protein structure modeling by homology requires an accurate sequence alignment between the query protein and its structural template. However, sequence alignment methods based on dynamic programming (DP) are typically unable to generate accurate ...
Andrew Kuziemko +2 more
doaj +1 more source
Spark-based Parallelization of Basic Local Alignment Search Tool [PDF]
International Journal Bioautomation, 2020 Sequence alignment is a key link of bioinformatics analysis. The basic local alignment search tool (BLAST) is a popular sequence alignment algorithm with high accuracy. However, the BLAST is inefficient in comparing and analyzing a massive amount of gene
Hui Wang +4 more
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Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. [PDF]
, 2006 BackgroundOne of the most powerful methods for the prediction of protein structure from sequence information alone is the iterative construction of profile-type models.
Bourne, Philip E, Scheeff, Eric D
core +3 more sources
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 +3 more
doaj +1 more source
An enhanced RNA alignment benchmark for sequence alignment programs
Algorithms for Molecular Biology, 2006 Background The performance of alignment programs is traditionally tested on sets of protein sequences, of which a reference alignment is known. Conclusions drawn from such protein benchmarks do not necessarily hold for the RNA alignment problem, as was ...
Steger Gerhard +2 more
doaj +1 more source
Sequence‐to‐sequence alignment using a pendulum
IET Computer Vision, 2015 Analysing two or more video sequences of dynamic scenes typically requires time synchronisation between sequences, where this alignment is not always possible using hardware.
Tomislav Pribanic +2 more
doaj +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
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
doaj +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