Structure-based sequence alignment
Prediction Of Antimicrobial Peptides Based On Sequence Alignment And Secondary Structure Sequence And Segment Sequence.pdf
... secondary structure sequence from the prediction of ...including sequence alignment stage and feature extraction process until classification stage is carried out in Perl programming language ...
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CombAlign: a code for generating a one-to-many sequence alignment from a set of pairwise structure-based sequence alignments
... involving structure-based comparison of Reston Ebolavirus sGP with the corresponding proteins from several other Ebolavirus species ...combining structure-based alignments can reveal ...
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A Sequence Alignment Model Based on the Averaged Perceptron
... 3.4.2 Ranking transcriptions In some applications, instead of transcribing a name in one language into another, it is enough just to rank candidate transcriptions. For example, we may be in possession of comparable ...
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iPBA: a tool for protein structure comparison using sequence alignment strategies.: Structural Alphabet Alignment
... as sequence alignment and superposed 3D structures displayed using PyMol and ...local alignment option for detect- ing subs-structural similarity is also ...‘sequence-based’ ...
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A Tree Sequence Alignment based Tree to Tree Translation Model
... is based on tree sequence alignment, where a tree sequence refers to a single sequence of sub- trees that covers a ...tree sequence pairs with mapping probabilities from ...
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Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization
... Nevertheless, the results of our computational experiments presented in Sect. 3 show that this approach yields high-quality structural alignments. In the pairwise case, our graph-based model is competitive with ...
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Accurate multiple sequence-structure alignment of RNA sequences using combinatorial optimization
... the structure they are forming, because their evolutionary behavior fol- lows the structure-function paradigm: RNA molecules with different sequences but same or similar secondary struc- ture are likely to ...
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Optimization of Process Parameters of Global Sequence Alignment Based Dynamic Program an Approach to Enhance the Sensitivity of Alignment
... polynucleotide sequence alignment is widely used in the area of Bioinformatics for the analysis of identity and ...Any sequence of Deoxyribonucleic acid (DNA) / Ribonucleic acid (RNA) and protein can ...
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Sequence and structure alignment of Paramyxoviridae attachment proteins and discovery of enzymatic activity for a morbillivirus hemagglutinin.
... multiple sequence alignment of paramyxovirus HN proteins was used as an intermediate to align the morbillivirus hemagglutinin (H) proteins with ...H, based on homology ...3D structure of HN ...
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Improved computational methods of protein sequence alignment, model selection and tertiary structure prediction
... query-template alignment, the percent of identical residue pairs in aligned positions, the percent of residues of the query that are aligned with a residue in the template, and the average of BLOSUM [93] scores of ...
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Robust and Efficient Algorithms for Protein 3-D Structure Alignment and Genome Sequence Comparison
... and structure analysis are two of the fundamental areas of bioinfor- matics ...protein structure related problems including protein structure alignment and query, and genome sequence ...
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DIALIGN-T: An improved algorithm for segment-based multiple sequence alignment
... 3D structure; align- ment programs are evaluated according to their ability to correctly align these ...However, sequence similarity is clearly not restricted to those regions of verified 3D ...
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Title: Multiple Sequence Alignment Based Method for Construction of Phylogenetic Trees
... multiple sequence alignment methods are required that deals with multiple sequences at a ...database, sequence database, structure database, enzyme database and ...multiple sequence ...
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HIA: a genome mapper using hybrid index-based sequence alignment
... ence sequence in a 2-bits per base format (Sequence); (2) counting each q-gram in the sequence and set the range of q-grams in SA (HT); (3) inserting the sequence posi- tions of each q-gram ...
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Improving the quality of multiple sequence alignment
... improved alignment (Bucka-Lassen et ...of Alignment Quality Two types of quality scores are often used to evaluate multiple sequence alignments: reference-dependent scores and reference-independent ...
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FPGA-based protein sequence alignment : A review
... protein sequence alignment can be done with some modification to the SW algorithm with used the only one row version of an alignment matrix named ‘one row c’ as reference for the next computation ...
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A Step Towards Sequence-to-Sequence Alignment
... Fig. 5 illustrates that temporal alignment is not limited to motion information alone. A light source was brightened and then dimmed down, resulting in observable illumination variations in the scene. The cameras ...
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Fast Dynamic Algorithm for Sequence Alignment based on Bioinformatics
... ABSTRACT Sequence alignment is widely used in Bioinformatics for Genome Sequence difference ...Any sequence of Deoxyribonucleic acid (DNA), Ribonucleic acid (RNA), and protein can be ...
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Detection of Android Malware based on Sequence Alignment of Permissions
... approach based on sequence alignment between requested permissions to identify similarities between ...obtained based on a threshold, judiciously ...that sequence alignment can ...
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Grammar-Based Distance in Progressive Multiple Sequence Alignment
... Results: The performance of the proposed algorithm is validated via comparison to popular progressive multiple alignment approaches, ClustalW and T-Coffee, and to the more recently deve[r] ...
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