Sequence Comparison Without Alignment: The SpaM Approaches.
Sign Up to like & getrecommendations! Published in 2021 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-1036-7_8
Abstract: Sequence alignment is at the heart of DNA and protein sequence analysis. For the data volumes that are nowadays produced by massively parallel sequencing technologies, however, pairwise and multiple alignment methods are often too slow.… read more here.
Keywords: approaches sequence; word; sequence comparison; alignment free ... See more keywords
An alignment-free measure based on physicochemical properties of amino acids for protein sequence comparison
Sign Up to like & getrecommendations! Published in 2019 at "Computational biology and chemistry"
DOI: 10.1016/j.compbiolchem.2019.01.005
Abstract: Sequence comparison is an important topic in bioinformatics. With the exponential increase of biological sequences, the traditional protein sequence comparison methods - the alignment methods become limited, so the alignment-free methods are widely proposed in… read more here.
Keywords: sequence comparison; physicochemical properties; protein sequence; alignment free ... See more keywords
Genome Sequence comparison under a new form of tri-nucleotide representation based on bio-chemical properties of nucleotides.
Sign Up to like & getrecommendations! Published in 2019 at "Gene"
DOI: 10.1016/j.gene.2019.144257
Abstract: Genetic sequence analysis, classification of genome sequence and evolutionary relationship between species using their biological sequences, are the emerging research domain in Bioinformatics. Several methods have already been applied to DNA sequence comparison under tri-nucleotide… read more here.
Keywords: sequence comparison; nucleotide representation; tri nucleotide; sequence ... See more keywords
Mathematical Approach to Protein Sequence Comparison Based on Physiochemical Properties
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DOI: 10.1021/acsomega.2c06103
Abstract: The difficult aspect of developing new protein sequence comparison techniques is coming up with a method that can quickly and effectively handle huge data sets of various lengths in a timely manner. In this work,… read more here.
Keywords: protein sequence; property; sequence comparison; comparison ... See more keywords
Alignment-Free Sequence Comparison: A Systematic Survey From a Machine Learning Perspective
Sign Up to like & getrecommendations! Published in 2022 at "IEEE/ACM Transactions on Computational Biology and Bioinformatics"
DOI: 10.1109/tcbb.2022.3140873
Abstract: The encounter of large amounts of biological sequence data generated during the last decades and the algorithmic and hardware improvements have offered the possibility to apply machine learning techniques in bioinformatics. While the machine learning… read more here.
Keywords: alignment free; machine learning; sequence; sequence comparison ... See more keywords
Different switching sequence comparison applied to multimodular matrix converter using ISVM
Sign Up to like & getrecommendations! Published in 2018 at "IEEE Latin America Transactions"
DOI: 10.1109/tla.2018.8444154
Abstract: This paper discusses the study of the indirect space vector modulation applied to the matrix multimodular converter (MMMC), a converter which connects the theory of matrix converters with the concepts of multilevel topologies, allowing the… read more here.
Keywords: voltage; sequence comparison; matrix; switching sequence ... See more keywords
Alignment-free sequence comparison: benefits, applications, and tools
Sign Up to like & getrecommendations! Published in 2017 at "Genome Biology"
DOI: 10.1186/s13059-017-1319-7
Abstract: Alignment-free sequence analyses have been applied to problems ranging from whole-genome phylogeny to the classification of protein families, identification of horizontally transferred genes, and detection of recombined sequences. The strength of these methods makes them… read more here.
Keywords: benefits applications; sequence comparison; comparison benefits; alignment free ... See more keywords