Biological sequences
“A Heuristic Technique for Alignment of Multiple Biological Sequences Using Enhanced Evolutionary Algorithm” by Manish Kumar, India.
... With consideration to all the above facts about MSA problem, an approach has been made in this research to increase the alignment quality of multi biological sequences by enhancing the genetic parameters of ...
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Finding the region of pseudo-periodic tandem repeats in biological sequences
... Variation in the pseudo-periodic repeats demonstrates biologically important information. Sensitive tools for finding those regions containing pseudo-periodic repeats are required in practice. Repeats occur frequently in ...
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Enhanced Frequent Pattern Mining From Biological Sequences With Wildcard Controls
... the biological sequences depend on 4 or 20 unique characters and the number of items in biological sequences are restricted and correctness turns into a greater vital ...the sequences. ...
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Jstacs: A Java Framework for Statistical Analysis and Classification of Biological Sequences
... AbstractClassifiers provide methods for learning internal StatisticalModels on train- ing data from different classes and for classifying new input sequences. The TrainSMBased- Classifier trains each of the ...
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A New String Matching Algorithm for Searching Biological Sequences
... Protein data can be found in many different forms such as sequences data, structure data, microarray data, and image data. Proteins are fundamental to the structure and the function of all living cells and ...
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Active Clustering of Biological Sequences
... SCOP groups proteins on the basis of their 3D structures, so it only classifies proteins whose structure is known. Thus the data sets from SCOP are much smaller in size. The SCOP classification is also hierarchical: ...
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Computing distribution of scale independent motifs in biological sequences
... cease to recognize common motifs that are inexactly con- served, as recently illustrated for the SCOP protein data- base [10]. Furthermore, oligomeric frequencies are a natural genomic signature for analysis of ...
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Incorporating regional context into pairwise alignments of biological sequences
... an inferior one can be chosen in accordance with some random distribution. This means that, unlike the Baum-Welch, this algorithm does not exclude the possibility of going downhill temporarily before proceeding uphill ...
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A basic analysis toolkit for biological sequences
... It is well known that finding the LCS of X and Y is equiv- alent to finding the Levenshtein edit distance between the two strings [4], where the "edit operations" are insertion and deletion of a single character. ...
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OE Matching Algorithm for Searching Biological Sequences
... Protein data can be found in many different forms such as sequences data, structure data, microarray data, and image data. Proteins are fundamental to the structure and the function of all living cells and ...
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Frequent Contiguous Pattern Mining Algorithms for Biological Data Sequences
... of biological data. These algorithms help to compare and align biological sequences and predict bio-sequence ...Protein sequences consist of long linear chain of chemical ...DNA ...
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Performance Efficient DNA Sequence Detection on GPUUsing Parallel Pattern Matching Approach
... of biological sequence databases increased, the demand for advanced and high performance computational method for comparing and searching biological sequences have also ...DNA sequences ...
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Nested tandem repeat computation and analysis : a thesis presented in partial fulfilment of the requirements for the degree of Doctor of Philosophy in Computational Biology at Massey University
... DNA sequences, and hence given us the opportunity to explore the world of DNA rig- ...in biological sequences, and what are their ...DNA sequences and some genomes consist of more than 50% ...
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Mining Biological Repetitive Sequences Using Support Vector Machines and Fuzzy SVM
... of biological sequences, which play crucial roles on corresponding sequence’s fold and ...the sequences’ substitutions probability are obstacles of these ...
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Staircase Method: A Novel Method for Parallelizing S W Algorithm
... of biological sequences can be divided into the following stages: (1) Broadcasting two sequences by the master to participating slaves, (2) Computation of the Partial Similarity Matrix by each ...
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Exact distribution of a pattern in a set of random sequences generated by a Markov source: applications to biological data
... the biological sequence data under study to their distribu- tion in a background model whose parameters are derived from the ...that biological sequences usually display high ...Genome ...
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A Time Series of Prehistoric Mitochondrial DNA Reveals Western European Genetic Diversity Was Largely Established by the Bronze Age
... mtDNA sequences, we interrogate hap- logroup frequency distributions to resolve through-time bio- logical relationships between two different regions in western Europe (southern and northern), four different time ...
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Evolution and Biological Characterization of Human Immunodeficiency Virus Type 1 Subtype E gp120 V3 Sequences following Horizontal and Vertical Virus Transmission in a Single Family
... 1 sequences showed relatively low variation irrespective of the clinical status of the infected individuals or the length of infection, whereas all of the group 2 sequences formed a cluster with long ...
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Babesia bovis RON2 contains conserved B cell epitopes that induce an invasion blocking humoral immune response in immunized cattle
... The B. bovis genome encodes for a ron2 orthologous gene A BLAST search against the B. bovis T2Bo reference genome using the nucleotide (KU696964.1) and amino acid (AQU42588.1) sequences as a query identified an ...
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In-silico comparison of distal-less protein variation in insects
... our analysis, poly-Q and poly-A regions were observed in the all the sequences, more im- portantly in the HTH region which might be playing an important role in the modulation of activity during transcription. By ...
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